Mon 14 Aug 09:33:25 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI /home/rosalia/software/freesurfer/bin/recon-all -s sub-073_ses-BSL -i sub-073_ses-BSL_T1w.nii.gz -FLAIR sub-073_ses-BSL_FLAIR.nii.gz -FLAIRpial -all subjid sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Actual FREESURFER_HOME /home/rosalia/software/freesurfer build-stamp.txt: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 1024 memorylocked 4091860 kbytes maxproc 127559 maxlocks unlimited maxsignal 127559 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 31Gi 3.7Gi 6.9Gi 1.1Gi 20Gi 25Gi Swap: 2.0Gi 0B 2.0Gi ######################################## program versions used 7.3.1 (freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466) 7.3.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.3.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/14-07:33:25-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ####################################### GCADIR /home/rosalia/software/freesurfer/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /home/rosalia/software/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL mri_convert /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL_T1w.nii.gz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/001.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) mri_convert /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL_T1w.nii.gz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/001.mgz reading from /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL_T1w.nii.gz... TR=8.40, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (0.991031, 0.0816006, -0.105821) j_ras = (-0.0530207, 0.967016, 0.249136) k_ras = (0.12266, -0.241291, 0.96267) writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/001.mgz... @#@FSTIME 2023:08:14:09:33:25 mri_convert N 2 e 1.29 S 0.01 U 1.27 P 99% M 25136 F 0 R 4904 W 0 c 18 w 1 I 0 O 15968 L 2.21 2.12 3.70 @#@FSLOADPOST 2023:08:14:09:33:26 mri_convert N 2 2.21 2.12 3.70 #-------------------------------------------- #@# T2/FLAIR Input Mon 14 Aug 09:33:27 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL mri_convert --no_scale 1 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL_FLAIR.nii.gz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) mri_convert --no_scale 1 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL_FLAIR.nii.gz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz reading from /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL_FLAIR.nii.gz... TR=7000.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (0.991031, 0.0816006, -0.105821) j_ras = (-0.0530207, 0.967016, 0.249136) k_ras = (0.12266, -0.241291, 0.96267) writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz... @#@FSTIME 2023:08:14:09:33:27 mri_convert N 4 e 1.21 S 0.01 U 1.19 P 100% M 25160 F 0 R 4905 W 0 c 7 w 1 I 0 O 14600 L 2.21 2.12 3.70 @#@FSLOADPOST 2023:08:14:09:33:28 mri_convert N 4 2.21 2.12 3.70 #-------------------------------------------- #@# MotionCor Mon 14 Aug 09:33:28 CEST 2023 Found 1 runs /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/001.mgz Checking for (invalid) multi-frame inputs... Only one run found so motion correction will not be performed. I'll copy the run to rawavg and continue. cp /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/001.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz mri_info /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz rawavg.mgz ======================================== Volume information for /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz type: MGH dimensions: 256 x 256 x 140 voxel sizes: 1.000000, 1.000000, 1.000000 type: SHORT (4) fov: 256.000 dof: 1 xstart: -128.0, xend: 128.0 ystart: -128.0, yend: 128.0 zstart: -70.0, zend: 70.0 TR: 8.40 msec, TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 degrees nframes: 1 PhEncDir: UNKNOWN FieldStrength: 0.000000 ras xform present xform info: x_r = 0.9910, y_r = -0.0530, z_r = 0.1227, c_r = 8.9380 : x_a = 0.0816, y_a = 0.9670, z_a = -0.2413, c_a = 8.2980 : x_s = -0.1058, y_s = 0.2491, z_s = 0.9627, c_s = 30.1204 talairach xfm : Orientation : RAS Primary Slice Direction: axial voxel to ras transform: 0.9910 -0.0530 0.1227 -119.7136 0.0816 0.9670 -0.2413 -109.0345 -0.1058 0.2491 0.9627 -55.6108 0.0000 0.0000 0.0000 1.0000 voxel-to-ras determinant 1 ras to voxel transform: 0.9910 0.0816 -0.1058 121.6524 -0.0530 0.9670 0.2491 112.9455 0.1227 -0.2413 0.9627 41.9099 0.0000 0.0000 0.0000 1.0000 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL mri_convert /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz --conform /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) mri_convert /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz --conform reading from /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz... TR=8.40, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (0.991031, 0.0816006, -0.105821) j_ras = (-0.0530207, 0.967016, 0.249136) k_ras = (0.12266, -0.241291, 0.96267) changing data type from short to uchar (noscale = 0)... MRIchangeType: Building histogram 0 8718 1000, flo=0, fhi=0.999, dest_type=0 Reslicing using trilinear interpolation writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz... @#@FSTIME 2023:08:14:09:33:31 mri_convert N 3 e 3.54 S 0.02 U 3.51 P 99% M 34140 F 0 R 15436 W 0 c 33 w 1 I 0 O 7168 L 2.27 2.14 3.69 @#@FSLOADPOST 2023:08:14:09:33:35 mri_convert N 3 2.33 2.15 3.69 mri_add_xform_to_header -c /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/talairach.xfm /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) INFO: extension is mgz @#@FSTIME 2023:08:14:09:33:35 mri_add_xform_to_header N 4 e 0.84 S 0.02 U 0.82 P 99% M 23480 F 0 R 4574 W 0 c 16 w 1 I 0 O 7168 L 2.33 2.15 3.69 @#@FSLOADPOST 2023:08:14:09:33:36 mri_add_xform_to_header N 4 2.33 2.15 3.69 mri_info /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz orig.mgz ======================================== Volume information for /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz type: MGH dimensions: 256 x 256 x 256 voxel sizes: 1.000000, 1.000000, 1.000000 type: UCHAR (0) fov: 256.000 dof: 1 xstart: -128.0, xend: 128.0 ystart: -128.0, yend: 128.0 zstart: -128.0, zend: 128.0 TR: 8.40 msec, TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 degrees nframes: 1 PhEncDir: UNKNOWN FieldStrength: 0.000000 ras xform present xform info: x_r = -1.0000, y_r = 0.0000, z_r = -0.0000, c_r = 8.9380 : x_a = 0.0000, y_a = -0.0000, z_a = 1.0000, c_a = 8.2980 : x_s = 0.0000, y_s = -1.0000, z_s = 0.0000, c_s = 30.1204 talairach xfm : /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/talairach.xfm Orientation : LIA Primary Slice Direction: coronal voxel to ras transform: -1.0000 0.0000 -0.0000 136.9380 0.0000 -0.0000 1.0000 -119.7020 0.0000 -1.0000 0.0000 158.1204 0.0000 0.0000 0.0000 1.0000 voxel-to-ras determinant -1 ras to voxel transform: -1.0000 -0.0000 0.0000 136.9380 -0.0000 -0.0000 -1.0000 158.1204 0.0000 1.0000 -0.0000 119.7020 -0.0000 -0.0000 -0.0000 1.0000 #-------------------------------------------- #@# Talairach Mon 14 Aug 09:33:36 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --ants-n4 --n 1 --proto-iters 1000 --distance 50 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /usr/bin/bc /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri /home/rosalia/software/freesurfer/bin/mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --ants-n4 --n 1 --proto-iters 1000 --distance 50 nIters 1 mri_nu_correct.mni 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux Mon 14 Aug 09:33:36 CEST 2023 tmpdir is ./tmp.mri_nu_correct.mni.388614 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o ./tmp.mri_nu_correct.mni.388614/nu0.mgz --dtype uchar AntsN4BiasFieldCorrectionFs done mri_convert ./tmp.mri_nu_correct.mni.388614/nu0.mgz orig_nu.mgz --like orig.mgz --conform mri_convert ./tmp.mri_nu_correct.mni.388614/nu0.mgz orig_nu.mgz --like orig.mgz --conform reading from ./tmp.mri_nu_correct.mni.388614/nu0.mgz... TR=8.40, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 1.86265e-09, 7.45058e-09) j_ras = (0, -1.49012e-08, -1) k_ras = (-3.72529e-09, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to orig_nu.mgz... Mon 14 Aug 09:36:50 CEST 2023 mri_nu_correct.mni done @#@FSTIME 2023:08:14:09:33:36 mri_nu_correct.mni N 12 e 194.38 S 0.20 U 194.17 P 99% M 519572 F 0 R 147819 W 0 c 789 w 92 I 0 O 13664 L 2.33 2.15 3.69 @#@FSLOADPOST 2023:08:14:09:36:50 mri_nu_correct.mni N 12 3.25 2.69 3.60 talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm talairach_avi log file is transforms/talairach_avi.log... /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) mv -f /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/talsrcimg_to_711-2C_as_mni_average_305_t4_vox2vox.txt /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/talsrcimg_to_711-2C_as_mni_average_305_t4_vox2vox.txt Started at Mon 14 Aug 09:36:50 CEST 2023 Ended at Mon 14 Aug 09:37:14 CEST 2023 talairach_avi done @#@FSTIME 2023:08:14:09:36:50 talairach_avi N 4 e 23.55 S 1.02 U 16.53 P 74% M 255720 F 0 R 399581 W 0 c 162 w 181 I 0 O 295272 L 3.25 2.69 3.60 @#@FSLOADPOST 2023:08:14:09:37:14 talairach_avi N 4 3.95 2.89 3.65 cp transforms/talairach.auto.xfm transforms/talairach.xfm lta_convert --src orig.mgz --trg /home/rosalia/software/freesurfer/average/mni305.cor.mgz --inxfm transforms/talairach.xfm --outlta transforms/talairach.xfm.lta --subject fsaverage --ltavox2vox 7.3.1 --src: orig.mgz src image (geometry). --trg: /home/rosalia/software/freesurfer/average/mni305.cor.mgz trg image (geometry). --inmni: transforms/talairach.xfm input MNI/XFM transform. --outlta: transforms/talairach.xfm.lta output LTA. --s: fsaverage subject name --ltavox2vox: output LTA as VOX_TO_VOX transform. LTA read, type : 1 1.01976 0.08238 -0.10220 -6.64020; -0.05535 0.99120 0.37496 -24.33626; 0.10464 -0.39867 1.07385 -24.42830; 0.00000 0.00000 0.00000 1.00000; setting subject to fsaverage Writing LTA to file transforms/talairach.xfm.lta... lta_convert successful. #-------------------------------------------- #@# Talairach Failure Detection Mon 14 Aug 09:37:16 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.5876, pval=0.2817 >= threshold=0.0050) @#@FSTIME 2023:08:14:09:37:16 talairach_afd N 4 e 0.00 S 0.00 U 0.00 P 100% M 5968 F 0 R 231 W 0 c 0 w 0 I 0 O 0 L 3.95 2.89 3.65 @#@FSLOADPOST 2023:08:14:09:37:16 talairach_afd N 4 3.95 2.89 3.65 awk -f /home/rosalia/software/freesurfer/bin/extract_talairach_avi_QA.awk /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/talairach_avi.log tal_QC_AZS /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/talairach_avi.log TalAviQA: 0.93986 z-score: -8 #-------------------------------------------- #@# Nu Intensity Correction Mon 14 Aug 09:37:16 CEST 2023 mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2 --ants-n4 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /usr/bin/bc /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri /home/rosalia/software/freesurfer/bin/mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2 --ants-n4 nIters 2 mri_nu_correct.mni 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux Mon 14 Aug 09:37:16 CEST 2023 tmpdir is ./tmp.mri_nu_correct.mni.389328 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o ./tmp.mri_nu_correct.mni.389328/nu0.mgz --dtype uchar AntsN4BiasFieldCorrectionFs done mri_binarize --i ./tmp.mri_nu_correct.mni.389328/nu0.mgz --min -1 --o ./tmp.mri_nu_correct.mni.389328/ones.mgz 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri cmdline mri_binarize --i ./tmp.mri_nu_correct.mni.389328/nu0.mgz --min -1 --o ./tmp.mri_nu_correct.mni.389328/ones.mgz sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia input ./tmp.mri_nu_correct.mni.389328/nu0.mgz frame 0 nErode3d 0 nErode2d 0 output ./tmp.mri_nu_correct.mni.389328/ones.mgz Binarizing based on threshold min -1 max +infinity binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Starting parallel 1 Found 16777216 values in range Counting number of voxels in first frame Found 16777215 voxels in final mask Writing output to ./tmp.mri_nu_correct.mni.389328/ones.mgz Count: 16777215 16777215.000000 16777216 99.999994 mri_binarize done mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.389328/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.389328/sum.junk --avgwf ./tmp.mri_nu_correct.mni.389328/input.mean.dat 7.3.1 cwd cmdline mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.389328/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.389328/sum.junk --avgwf ./tmp.mri_nu_correct.mni.389328/input.mean.dat sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 Loading ./tmp.mri_nu_correct.mni.389328/ones.mgz Loading orig.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 1 segmentations Computing statistics for each segmentation Reporting on 1 segmentations Using PrintSegStat Computing spatial average of each frame Writing to ./tmp.mri_nu_correct.mni.389328/input.mean.dat mri_segstats done mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.389328/ones.mgz --i ./tmp.mri_nu_correct.mni.389328/nu0.mgz --sum ./tmp.mri_nu_correct.mni.389328/sum.junk --avgwf ./tmp.mri_nu_correct.mni.389328/output.mean.dat 7.3.1 cwd cmdline mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.389328/ones.mgz --i ./tmp.mri_nu_correct.mni.389328/nu0.mgz --sum ./tmp.mri_nu_correct.mni.389328/sum.junk --avgwf ./tmp.mri_nu_correct.mni.389328/output.mean.dat sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 Loading ./tmp.mri_nu_correct.mni.389328/ones.mgz Loading ./tmp.mri_nu_correct.mni.389328/nu0.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 1 segmentations Computing statistics for each segmentation Reporting on 1 segmentations Using PrintSegStat Computing spatial average of each frame Writing to ./tmp.mri_nu_correct.mni.389328/output.mean.dat mri_segstats done mris_calc -o ./tmp.mri_nu_correct.mni.389328/nu0.mgz ./tmp.mri_nu_correct.mni.389328/nu0.mgz mul 1.18832670438151986441 Saving result to './tmp.mri_nu_correct.mni.389328/nu0.mgz' (type = MGH ) [ ok ] mri_convert ./tmp.mri_nu_correct.mni.389328/nu0.mgz nu.mgz --like orig.mgz mri_convert ./tmp.mri_nu_correct.mni.389328/nu0.mgz nu.mgz --like orig.mgz reading from ./tmp.mri_nu_correct.mni.389328/nu0.mgz... TR=8.40, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 1.86265e-09, 7.45058e-09) j_ras = (0, -1.49012e-08, -1) k_ras = (-3.72529e-09, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to nu.mgz... mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz type change took 0 minutes and 7 seconds. FIRST_PERCENTILE 0.010000 WM_PERCENTILE 0.900000 MAX_R 50.000000 i1 = 0, i2 = 47 #mri_make_uchar# mapping 0 101 to 3 110 : b 2.55 m 1.06259 : thresh -2.39981 maxsat 237.581 : nzero 0 nsat 4425 Mon 14 Aug 09:41:02 CEST 2023 mri_nu_correct.mni done @#@FSTIME 2023:08:14:09:37:16 mri_nu_correct.mni N 9 e 225.53 S 1.05 U 224.46 P 99% M 614200 F 0 R 576867 W 0 c 1321 w 169 I 0 O 44736 L 3.95 2.89 3.65 @#@FSLOADPOST 2023:08:14:09:41:02 mri_nu_correct.mni N 9 3.73 3.35 3.67 mri_add_xform_to_header -c /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/talairach.xfm nu.mgz nu.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) INFO: extension is mgz @#@FSTIME 2023:08:14:09:41:02 mri_add_xform_to_header N 4 e 0.78 S 0.00 U 0.77 P 99% M 23708 F 0 R 4578 W 0 c 19 w 1 I 0 O 6832 L 3.73 3.35 3.67 @#@FSLOADPOST 2023:08:14:09:41:02 mri_add_xform_to_header N 4 3.73 3.35 3.67 #-------------------------------------------- #@# Intensity Normalization Mon 14 Aug 09:41:02 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_normalize -g 1 -seed 1234 -mprage nu.mgz T1.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) using max gradient = 1.000 setting seed for random number genererator to 1234 assuming input volume is MGH (Van der Kouwe) MP-RAGE reading mri_src from nu.mgz... normalizing image... NOT doing gentle normalization with control points/label talairach transform 1.01976 0.08238 -0.10220 -6.64020; -0.05535 0.99120 0.37496 -24.33626; 0.10464 -0.39867 1.07385 -24.42830; 0.00000 0.00000 0.00000 1.00000; processing without aseg, no1d=0 MRInormInit(): INFO: Modifying talairach volume c_(r,a,s) based on average_305 MRInormalize(): MRIsplineNormalize(): npeaks = 3 Starting OpenSpline(): npoints = 3 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Iterating 2 times --------------------------------- 3d normalization pass 1 of 2 white matter peak found at 110 white matter peak found at 110 gm peak at 70 (67), valley at 45 (42) csf peak at 34, setting threshold to 58 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... --------------------------------- 3d normalization pass 2 of 2 white matter peak found at 110 white matter peak found at 110 gm peak at 67 (64), valley at 45 (42) csf peak at 33, setting threshold to 55 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to T1.mgz 3D bias adjustment took 1 minutes and 53 seconds. @#@FSTIME 2023:08:14:09:41:02 mri_normalize N 7 e 113.88 S 0.40 U 113.46 P 99% M 583644 F 0 R 263276 W 0 c 848 w 1 I 0 O 7176 L 3.73 3.35 3.67 @#@FSLOADPOST 2023:08:14:09:42:56 mri_normalize N 7 3.28 3.31 3.61 #-------------------------------------------- #@# Skull Stripping Mon 14 Aug 09:42:56 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_em_register -skull nu.mgz /home/rosalia/software/freesurfer/average/RB_all_withskull_2020_01_02.gca transforms/talairach_with_skull.lta /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) aligning to atlas containing skull, setting unknown_nbr_spacing = 5 == Number of threads available to mri_em_register for OpenMP = 1 == reading 1 input volumes... logging results to talairach_with_skull.log reading '/home/rosalia/software/freesurfer/average/RB_all_withskull_2020_01_02.gca'... GCAread took 0 minutes and 1 seconds. average std = 23.0 using min determinant for regularization = 52.8 0 singular and 9205 ill-conditioned covariance matrices regularized reading 'nu.mgz'... freeing gibbs priors...done. accounting for voxel sizes in initial transform bounding unknown intensity as < 8.9 or > 556.0 total sample mean = 77.3 (1403 zeros) ************************************************ spacing=8, using 3292 sample points, tol=1.00e-05... ************************************************ register_mri: find_optimal_transform find_optimal_transform: nsamples 3292, passno 0, spacing 8 resetting wm mean[0]: 100 --> 108 resetting gm mean[0]: 61 --> 61 input volume #1 is the most T1-like using real data threshold=7.0 skull bounding box = (43, 59, 21) --> (213, 207, 219) finding center of left hemi white matter using (100, 108, 120) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 108, using box (79,90,96) --> (120, 126,144) to find MRI wm before smoothing, mri peak at 92 robust fit to distribution - 92 +- 7.3 after smoothing, mri peak at 92, scaling input intensities by 1.174 scaling channel 0 by 1.17391 initial log_p = -4.747 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.796412 @ (0.000, 0.000, 0.000) max log p = -4.676997 @ (-5.263, -15.789, -5.263) max log p = -4.606615 @ (2.632, 2.632, -2.632) max log p = -4.586327 @ (1.316, -1.316, -11.842) max log p = -4.585106 @ (0.658, -0.658, -0.658) max log p = -4.575509 @ (-0.329, 1.645, 2.961) max log p = -4.575509 @ (0.000, 0.000, 0.000) max log p = -4.575509 @ (0.000, 0.000, 0.000) Found translation: (-1.0, -13.5, -17.4): log p = -4.576 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.438, old_max_log_p =-4.576 (thresh=-4.6) 1.00000 0.00000 0.00000 -0.98684; 0.00000 1.06246 0.44009 -72.42976; 0.00000 -0.40708 0.98278 49.93211; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 42 seconds. **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.415, old_max_log_p =-4.438 (thresh=-4.4) 1.00000 0.00000 0.00000 -0.98684; 0.00000 1.10651 0.30804 -62.60153; 0.00000 -0.28479 1.10920 15.79932; 0.00000 0.00000 0.00000 1.00000; iteration took 2 minutes and 12 seconds. **************************************** Nine parameter search. iteration 2 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.415, old_max_log_p =-4.415 (thresh=-4.4) 1.00000 0.00000 0.00000 -0.98684; 0.00000 1.10651 0.30804 -62.60153; 0.00000 -0.28479 1.10920 15.79932; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 iteration took 1 minutes and 29 seconds. **************************************** Nine parameter search. iteration 3 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-4.311, old_max_log_p =-4.415 (thresh=-4.4) 0.99718 -0.06006 -0.06199 14.24483; 0.06855 1.09304 0.41607 -80.80404; 0.02764 -0.36893 1.01408 34.93810; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 19 seconds. **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-4.308, old_max_log_p =-4.311 (thresh=-4.3) 1.01305 -0.09759 -0.07698 17.78202; 0.10114 1.09049 0.41382 -86.18683; 0.02712 -0.36202 0.99507 36.36740; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 iteration took 1 minutes and 19 seconds. **************************************** Nine parameter search. iteration 5 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-4.286, old_max_log_p =-4.308 (thresh=-4.3) 1.01484 -0.09187 -0.09347 19.70911; 0.10090 1.09470 0.40617 -86.28936; 0.04457 -0.35503 0.99820 33.12878; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 12 seconds. **************************************** Nine parameter search. iteration 6 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-4.286, old_max_log_p =-4.286 (thresh=-4.3) 1.01484 -0.09187 -0.09347 19.70911; 0.10090 1.09470 0.40617 -86.28936; 0.04457 -0.35503 0.99820 33.12878; 0.00000 0.00000 0.00000 1.00000; min search scale 0.025000 reached *********************************************** Computing MAP estimate using 3292 samples... *********************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-05 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 1.01484 -0.09187 -0.09347 19.70911; 0.10090 1.09470 0.40617 -86.28936; 0.04457 -0.35503 0.99820 33.12878; 0.00000 0.00000 0.00000 1.00000; nsamples 3292 Quasinewton: input matrix 1.01484 -0.09187 -0.09347 19.70911; 0.10090 1.09470 0.40617 -86.28936; 0.04457 -0.35503 0.99820 33.12878; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 3 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 009: -log(p) = -0.0 tol 0.000010 Resulting transform: 1.01484 -0.09187 -0.09347 19.70911; 0.10090 1.09470 0.40617 -86.28936; 0.04457 -0.35503 0.99820 33.12878; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -4.286 (old=-4.747) transform before final EM align: 1.01484 -0.09187 -0.09347 19.70911; 0.10090 1.09470 0.40617 -86.28936; 0.04457 -0.35503 0.99820 33.12878; 0.00000 0.00000 0.00000 1.00000; ************************************************** EM alignment process ... Computing final MAP estimate using 364986 samples. ************************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-07 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 1.01484 -0.09187 -0.09347 19.70911; 0.10090 1.09470 0.40617 -86.28936; 0.04457 -0.35503 0.99820 33.12878; 0.00000 0.00000 0.00000 1.00000; nsamples 364986 Quasinewton: input matrix 1.01484 -0.09187 -0.09347 19.70911; 0.10090 1.09470 0.40617 -86.28936; 0.04457 -0.35503 0.99820 33.12878; 0.00000 0.00000 0.00000 1.00000; dfp_em_step_func: 010: -log(p) = 4.6 after pass:transform: ( 1.01, -0.09, -0.09, 19.71) ( 0.10, 1.09, 0.41, -86.29) ( 0.04, -0.36, 1.00, 33.13) IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 3 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESpass 2 through quasi-newton minimization... IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 3 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 012: -log(p) = 4.6 tol 0.000000 final transform: 1.01484 -0.09187 -0.09347 19.70911; 0.10090 1.09470 0.40617 -86.28936; 0.04457 -0.35503 0.99820 33.12878; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach_with_skull.lta... #VMPC# mri_em_register VmPeak 788968 FSRUNTIME@ mri_em_register 0.2039 hours 1 threads registration took 12 minutes and 14 seconds. @#@FSTIME 2023:08:14:09:42:56 mri_em_register N 4 e 733.94 S 1.00 U 732.68 P 99% M 629224 F 0 R 166633 W 0 c 3852 w 1 I 0 O 16 L 3.28 3.31 3.61 @#@FSLOADPOST 2023:08:14:09:55:10 mri_em_register N 4 2.20 2.68 3.28 mri_watershed -T1 -brain_atlas /home/rosalia/software/freesurfer/average/RB_all_withskull_2020_01_02.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Mode: T1 normalized volume Mode: Use the information of atlas (default parms, --help for details) ********************************************************* The input file is T1.mgz The output file is brainmask.auto.mgz Weighting the input with atlas information before watershed *************************WATERSHED************************** Sorting... first estimation of the COG coord: x=129 y=135 z=113 r=73 first estimation of the main basin volume: 1634125 voxels Looking for seedpoints 2 found in the cerebellum 16 found in the rest of the brain global maximum in x=102, y=120, z=83, Imax=255 CSF=18, WM_intensity=110, WM_VARIANCE=5 WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110 preflooding height equal to 10 percent done. Analyze... main basin size=1689442090987502 voxels, voxel volume =1.000 = 1689442090987502 mmm3 = 1689442028879.872 cm3 done. PostAnalyze...Basin Prior 118 basins merged thanks to atlas ***** 0 basin(s) merged in 1 iteration(s) ***** 0 voxel(s) added to the main basin done. Weighting the input with prior template ****************TEMPLATE DEFORMATION**************** second estimation of the COG coord: x=149,y=164, z=129, r=123161 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=4, CSF_MAX=27 , nb = 44184 RIGHT_CER CSF_MIN=0, CSF_intensity=4, CSF_MAX=34 , nb = 3906 LEFT_CER CSF_MIN=0, CSF_intensity=5, CSF_MAX=37 , nb = 4140 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=6, CSF_MAX=29 , nb = 9468 LEFT_BRAIN CSF_MIN=0, CSF_intensity=5, CSF_MAX=36 , nb = 16092 OTHER CSF_MIN=0, CSF_intensity=3, CSF_MAX=6 , nb = 9534 CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 27, 28, 31, 64 after analyzing : 27, 30, 31, 38 RIGHT_CER before analyzing : 34, 29, 23, 65 after analyzing : 22, 29, 29, 38 LEFT_CER before analyzing : 37, 34, 30, 75 after analyzing : 26, 34, 34, 44 RIGHT_BRAIN before analyzing : 29, 29, 30, 60 after analyzing : 22, 29, 30, 36 LEFT_BRAIN before analyzing : 36, 36, 36, 64 after analyzing : 28, 36, 36, 43 OTHER before analyzing : 6, 26, 60, 65 after analyzing : 6, 48, 60, 52 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...111 iterations *********************VALIDATION********************* curvature mean = 0.016, std = 0.071 curvature mean = 64.346, std = 15.447 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 27.03, sigma = 73.40 after rotation: sse = 27.03, sigma = 73.40 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 36.85, its var is 54.87 before Erosion-Dilatation 40.32% of inacurate vertices after Erosion-Dilatation 0.00% of inacurate vertices Validation of the shape of the surface done. Scaling of atlas fields onto current surface fields ********FINAL ITERATIVE TEMPLATE DEFORMATION******** Compute Local values csf/gray Fine Segmentation...102 iterations mri_strip_skull: done peeling brain Brain Size = 2204234 voxels, voxel volume = 1.000 mm3 = 2204234 mmm3 = 2204.234 cm3 ****************************** Saving brainmask.auto.mgz done mri_watershed done @#@FSTIME 2023:08:14:09:55:10 mri_watershed N 6 e 25.05 S 0.32 U 24.72 P 99% M 858096 F 0 R 217241 W 0 c 197 w 1 I 0 O 3008 L 2.20 2.68 3.28 @#@FSLOADPOST 2023:08:14:09:55:35 mri_watershed N 6 2.13 2.62 3.24 cp brainmask.auto.mgz brainmask.mgz #------------------------------------- #@# EM Registration Mon 14 Aug 09:55:36 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_em_register -uns 3 -mask brainmask.mgz nu.mgz /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca transforms/talairach.lta /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting unknown_nbr_spacing = 3 using MR volume brainmask.mgz to mask input volume... == Number of threads available to mri_em_register for OpenMP = 1 == reading 1 input volumes... logging results to talairach.log reading '/home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca'... GCAread took 0 minutes and 1 seconds. average std = 7.2 using min determinant for regularization = 5.2 0 singular and 884 ill-conditioned covariance matrices regularized reading 'nu.mgz'... MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 freeing gibbs priors...done. accounting for voxel sizes in initial transform bounding unknown intensity as < 5.9 or > 519.0 total sample mean = 79.1 (1017 zeros) ************************************************ spacing=8, using 2841 sample points, tol=1.00e-05... ************************************************ register_mri: find_optimal_transform find_optimal_transform: nsamples 2841, passno 0, spacing 8 resetting wm mean[0]: 98 --> 107 resetting gm mean[0]: 61 --> 61 input volume #1 is the most T1-like using real data threshold=8.0 skull bounding box = (56, 69, 36) --> (200, 207, 192) finding center of left hemi white matter using (104, 115, 114) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 107, using box (86,98,95) --> (121, 131,133) to find MRI wm before smoothing, mri peak at 95 robust fit to distribution - 95 +- 7.4 after smoothing, mri peak at 95, scaling input intensities by 1.126 scaling channel 0 by 1.12632 initial log_p = -4.419 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.326891 @ (-10.526, -10.526, -10.526) max log p = -4.192284 @ (5.263, -5.263, -5.263) max log p = -4.166476 @ (2.632, -2.632, 2.632) max log p = -4.147094 @ (1.316, 1.316, -1.316) max log p = -4.124690 @ (-0.658, -0.658, -0.658) max log p = -4.124690 @ (0.000, 0.000, 0.000) max log p = -4.124690 @ (0.000, 0.000, 0.000) max log p = -4.124690 @ (0.000, 0.000, 0.000) Found translation: (-2.0, -17.8, -15.1): log p = -4.125 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.058, old_max_log_p =-4.125 (thresh=-4.1) 0.99144 -0.12608 -0.03378 20.48009; 0.14032 1.02949 0.27585 -65.62814; 0.00000 -0.25882 0.96593 31.94818; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 23 seconds. **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.040, old_max_log_p =-4.058 (thresh=-4.1) 1.00112 0.00382 0.01866 -3.79227; 0.00915 1.06953 0.43060 -71.41283; -0.01831 -0.39098 0.92166 56.71344; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 22 seconds. **************************************** Nine parameter search. iteration 2 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.025, old_max_log_p =-4.040 (thresh=-4.0) 0.99136 -0.13582 -0.03770 22.21673; 0.13975 1.06088 0.42935 -86.82732; -0.01831 -0.39098 0.92166 56.71344; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 21 seconds. **************************************** Nine parameter search. iteration 3 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.025, old_max_log_p =-4.025 (thresh=-4.0) 0.99136 -0.13582 -0.03770 22.21673; 0.13975 1.06088 0.42935 -86.82732; -0.01831 -0.39098 0.92166 56.71344; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 iteration took 1 minutes and 25 seconds. **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.929, old_max_log_p =-4.025 (thresh=-4.0) 0.97058 -0.11232 -0.09767 28.45230; 0.13801 1.06385 0.36125 -79.40369; 0.05781 -0.34129 0.97864 34.05003; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 17 seconds. **************************************** Nine parameter search. iteration 5 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.928, old_max_log_p =-3.929 (thresh=-3.9) 0.97451 -0.07711 -0.08685 22.08377; 0.10617 1.09775 0.33828 -77.25654; 0.06230 -0.30630 0.98994 25.71216; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 iteration took 1 minutes and 27 seconds. **************************************** Nine parameter search. iteration 6 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.907, old_max_log_p =-3.928 (thresh=-3.9) 0.97475 -0.08612 -0.08978 23.57246; 0.11442 1.09196 0.34487 -77.82635; 0.06150 -0.31560 0.98830 27.69271; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 25 seconds. **************************************** Nine parameter search. iteration 7 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.906, old_max_log_p =-3.907 (thresh=-3.9) 0.97508 -0.07322 -0.06778 20.29326; 0.09844 1.09331 0.34603 -76.09037; 0.04554 -0.31414 0.98964 29.39213; 0.00000 0.00000 0.00000 1.00000; min search scale 0.025000 reached *********************************************** Computing MAP estimate using 2841 samples... *********************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-05 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.97508 -0.07322 -0.06778 20.29326; 0.09844 1.09331 0.34603 -76.09037; 0.04554 -0.31414 0.98964 29.39213; 0.00000 0.00000 0.00000 1.00000; nsamples 2841 Quasinewton: input matrix 0.97508 -0.07322 -0.06778 20.29326; 0.09844 1.09331 0.34603 -76.09037; 0.04554 -0.31414 0.98964 29.39213; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 3 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 010: -log(p) = -0.0 tol 0.000010 Resulting transform: 0.97508 -0.07322 -0.06778 20.29326; 0.09844 1.09331 0.34603 -76.09037; 0.04554 -0.31414 0.98964 29.39213; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -3.906 (old=-4.419) transform before final EM align: 0.97508 -0.07322 -0.06778 20.29326; 0.09844 1.09331 0.34603 -76.09037; 0.04554 -0.31414 0.98964 29.39213; 0.00000 0.00000 0.00000 1.00000; ************************************************** EM alignment process ... Computing final MAP estimate using 315638 samples. ************************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-07 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.97508 -0.07322 -0.06778 20.29326; 0.09844 1.09331 0.34603 -76.09037; 0.04554 -0.31414 0.98964 29.39213; 0.00000 0.00000 0.00000 1.00000; nsamples 315638 Quasinewton: input matrix 0.97508 -0.07322 -0.06778 20.29326; 0.09844 1.09331 0.34603 -76.09037; 0.04554 -0.31414 0.98964 29.39213; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 6 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 012: -log(p) = 4.2 tol 0.000000 final transform: 0.97508 -0.07322 -0.06778 20.29326; 0.09844 1.09331 0.34603 -76.09037; 0.04554 -0.31414 0.98964 29.39213; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach.lta... #VMPC# mri_em_register VmPeak 776416 FSRUNTIME@ mri_em_register 0.1994 hours 1 threads registration took 11 minutes and 58 seconds. @#@FSTIME 2023:08:14:09:55:36 mri_em_register N 7 e 717.75 S 1.15 U 716.56 P 99% M 616804 F 0 R 166659 W 0 c 3141 w 1 I 0 O 32 L 2.13 2.62 3.24 @#@FSLOADPOST 2023:08:14:10:07:34 mri_em_register N 7 4.21 3.43 3.24 #-------------------------------------- #@# CA Normalize Mon 14 Aug 10:07:34 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_ca_normalize -c ctrl_pts.mgz -mask brainmask.mgz nu.mgz /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca transforms/talairach.lta norm.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing control point volume to ctrl_pts.mgz using MR volume brainmask.mgz to mask input volume... reading 1 input volume reading atlas from '/home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca'... reading transform from 'transforms/talairach.lta'... reading input volume from nu.mgz... resetting wm mean[0]: 98 --> 107 resetting gm mean[0]: 61 --> 61 input volume #1 is the most T1-like using real data threshold=8.0 skull bounding box = (56, 69, 36) --> (200, 207, 192) finding center of left hemi white matter using (104, 115, 114) as brain centroid of Right_Cerebral_White_Matter... mean wm in atlas = 107, using box (86,98,95) --> (121, 131,133) to find MRI wm before smoothing, mri peak at 95 robust fit to distribution - 95 +- 7.4 after smoothing, mri peak at 95, scaling input intensities by 1.126 scaling channel 0 by 1.12632 using 246437 sample points... INFO: compute sample coordinates transform 0.97508 -0.07322 -0.06778 20.29326; 0.09844 1.09331 0.34603 -76.09037; 0.04554 -0.31414 0.98964 29.39213; 0.00000 0.00000 0.00000 1.00000; INFO: transform used finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (123, 72, 41) --> (195, 179, 197) Left_Cerebral_White_Matter: limiting intensities to 100.0 --> 132.0 14 of 335 (4.2%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (59, 73, 41) --> (129, 174, 199) Right_Cerebral_White_Matter: limiting intensities to 102.0 --> 132.0 26 of 241 (10.8%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (128, 152, 69) --> (180, 192, 121) Left_Cerebellum_White_Matter: limiting intensities to 136.0 --> 132.0 16 of 16 (100.0%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (84, 152, 69) --> (128, 194, 123) Right_Cerebellum_White_Matter: limiting intensities to 118.0 --> 132.0 10 of 27 (37.0%) samples deleted finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (111, 141, 103) --> (148, 202, 133) Brain_Stem: limiting intensities to 143.0 --> 132.0 12 of 12 (100.0%) samples deleted using 631 total control points for intensity normalization... bias field = 0.917 +- 0.073 0 of 553 control points discarded finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (123, 72, 41) --> (195, 179, 197) Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 2 of 525 (0.4%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (59, 73, 41) --> (129, 174, 199) Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 4 of 393 (1.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (128, 152, 69) --> (180, 192, 121) Left_Cerebellum_White_Matter: limiting intensities to 103.0 --> 132.0 0 of 52 (0.0%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (84, 152, 69) --> (128, 194, 123) Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 0 of 77 (0.0%) samples deleted finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (111, 141, 103) --> (148, 202, 133) Brain_Stem: limiting intensities to 109.0 --> 132.0 78 of 119 (65.5%) samples deleted using 1166 total control points for intensity normalization... bias field = 0.993 +- 0.098 1 of 1067 control points discarded finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (123, 72, 41) --> (195, 179, 197) Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 2 of 598 (0.3%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (59, 73, 41) --> (129, 174, 199) Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 3 of 406 (0.7%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (128, 152, 69) --> (180, 192, 121) Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 9 of 104 (8.7%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (84, 152, 69) --> (128, 194, 123) Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 21 of 102 (20.6%) samples deleted finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (111, 141, 103) --> (148, 202, 133) Brain_Stem: limiting intensities to 98.0 --> 132.0 72 of 178 (40.4%) samples deleted using 1388 total control points for intensity normalization... bias field = 0.988 +- 0.089 1 of 1256 control points discarded writing normalized volume to norm.mgz... writing control points to ctrl_pts.mgz freeing GCA...done. normalization took 1 minutes and 18 seconds. @#@FSTIME 2023:08:14:10:07:34 mri_ca_normalize N 8 e 78.35 S 0.77 U 77.56 P 99% M 683456 F 0 R 408177 W 0 c 452 w 0 I 0 O 3960 L 4.21 3.43 3.24 @#@FSLOADPOST 2023:08:14:10:08:53 mri_ca_normalize N 8 4.72 3.79 3.39 #-------------------------------------- #@# CA Reg Mon 14 Aug 10:08:53 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_ca_register -nobigventricles -T transforms/talairach.lta -align-after -mask brainmask.mgz norm.mgz /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca transforms/talairach.m3z /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) not handling expanded ventricles... using previously computed transform transforms/talairach.lta renormalizing sequences with structure alignment, equivalent to: -renormalize -regularize_mean 0.500 -regularize 0.500 using MR volume brainmask.mgz to mask input volume... == Number of threads available to mri_ca_register for OpenMP = 1 == reading 1 input volumes... logging results to talairach.log reading input volume 'norm.mgz'... reading GCA '/home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca'... label assignment complete, 0 changed (0.00%) freeing gibbs priors...done. average std[0] = 5.0 Starting GCAMregister() label assignment complete, 0 changed (0.00%) npasses = 1, nlevels = 6 #pass# 1 of 1 ************************ enabling zero nodes setting smoothness cost coefficient to 0.156 #GCAMreg# pass 0 level1 5 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.16 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 1.10288 #FOTS# QuadFit found better minimum quadopt=(dt=250.272,rms=1.03031) vs oldopt=(dt=369.92,rms=1.04187) #GCMRL# 0 dt 250.271813 rms 1.030 6.580% neg 0 invalid 762 tFOTS 14.6550 tGradient 8.8760 tsec 24.6870 #FOTS# QuadFit found better minimum quadopt=(dt=502.463,rms=0.972767) vs oldopt=(dt=369.92,rms=0.97724) #GCMRL# 1 dt 502.462745 rms 0.973 5.585% neg 0 invalid 762 tFOTS 18.4410 tGradient 9.6730 tsec 29.9250 #FOTS# QuadFit found better minimum quadopt=(dt=136.629,rms=0.962955) vs oldopt=(dt=92.48,rms=0.964268) #GCMRL# 2 dt 136.629213 rms 0.963 1.009% neg 0 invalid 762 tFOTS 15.8330 tGradient 10.0010 tsec 27.5420 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.95225) vs oldopt=(dt=369.92,rms=0.954026) #GCMRL# 3 dt 517.888000 rms 0.952 1.112% neg 0 invalid 762 tFOTS 19.4490 tGradient 9.4430 tsec 29.9330 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.94008) vs oldopt=(dt=369.92,rms=0.941224) #GCMRL# 4 dt 517.888000 rms 0.940 1.278% neg 0 invalid 762 tFOTS 14.0030 tGradient 8.9450 tsec 24.5450 #FOTS# QuadFit found better minimum quadopt=(dt=110.976,rms=0.938334) vs oldopt=(dt=92.48,rms=0.938349) #GCMRL# 5 dt 110.976000 rms 0.938 0.000% neg 0 invalid 762 tFOTS 19.4190 tGradient 9.0810 tsec 29.9430 #GCMRL# 6 dt 110.976000 rms 0.938 0.061% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.9270 tsec 9.9280 #GCMRL# 7 dt 110.976000 rms 0.937 0.092% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.6760 tsec 9.7010 #GCMRL# 8 dt 110.976000 rms 0.935 0.230% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.3010 tsec 10.2910 #GCMRL# 9 dt 110.976000 rms 0.930 0.465% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.4130 tsec 9.4050 #GCMRL# 10 dt 110.976000 rms 0.925 0.592% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.5670 tsec 9.5840 #GCMRL# 11 dt 110.976000 rms 0.919 0.585% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.6480 tsec 9.6920 #GCMRL# 12 dt 110.976000 rms 0.915 0.509% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.8420 tsec 9.8520 #GCMRL# 13 dt 110.976000 rms 0.911 0.431% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.5930 tsec 9.5980 #GCMRL# 14 dt 110.976000 rms 0.907 0.371% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.1800 tsec 10.2250 #GCMRL# 15 dt 110.976000 rms 0.904 0.377% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.4690 tsec 10.5270 #GCMRL# 16 dt 110.976000 rms 0.900 0.441% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.2210 tsec 10.2350 #GCMRL# 17 dt 110.976000 rms 0.896 0.470% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.5340 tsec 10.6710 #GCMRL# 18 dt 110.976000 rms 0.892 0.450% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.4470 tsec 11.6670 #GCMRL# 19 dt 110.976000 rms 0.888 0.389% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.4350 tsec 12.1650 #GCMRL# 20 dt 110.976000 rms 0.886 0.310% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.4320 tsec 11.5160 #GCMRL# 21 dt 110.976000 rms 0.884 0.230% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.2840 tsec 12.3050 #GCMRL# 22 dt 110.976000 rms 0.882 0.211% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.1170 tsec 15.1260 #GCMRL# 23 dt 110.976000 rms 0.879 0.249% neg 0 invalid 762 tFOTS 0.0000 tGradient 16.3870 tsec 17.9330 #GCMRL# 24 dt 110.976000 rms 0.877 0.281% neg 0 invalid 762 tFOTS 0.0000 tGradient 16.3580 tsec 18.2630 #GCMRL# 25 dt 110.976000 rms 0.875 0.278% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.4420 tsec 16.3220 #GCMRL# 26 dt 110.976000 rms 0.873 0.220% neg 0 invalid 762 tFOTS 0.0000 tGradient 16.8430 tsec 18.3730 #GCMRL# 27 dt 110.976000 rms 0.871 0.175% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.1680 tsec 16.2190 #GCMRL# 28 dt 110.976000 rms 0.870 0.130% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.8810 tsec 17.2900 #GCMRL# 29 dt 110.976000 rms 0.869 0.124% neg 0 invalid 762 tFOTS 0.0000 tGradient 18.2260 tsec 19.7680 #GCMRL# 30 dt 110.976000 rms 0.868 0.149% neg 0 invalid 762 tFOTS 0.0000 tGradient 17.3840 tsec 19.4000 #GCMRL# 31 dt 110.976000 rms 0.866 0.161% neg 0 invalid 762 tFOTS 0.0000 tGradient 16.8840 tsec 18.5170 #GCMRL# 32 dt 110.976000 rms 0.865 0.146% neg 0 invalid 762 tFOTS 0.0000 tGradient 18.6340 tsec 20.7590 #GCMRL# 33 dt 110.976000 rms 0.864 0.106% neg 0 invalid 762 tFOTS 0.0000 tGradient 16.5040 tsec 17.9780 #GCMRL# 34 dt 110.976000 rms 0.863 0.088% neg 0 invalid 762 tFOTS 0.0000 tGradient 17.9130 tsec 20.8050 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.862963) vs oldopt=(dt=369.92,rms=0.863028) #GCMRL# 35 dt 517.888000 rms 0.863 0.000% neg 0 invalid 762 tFOTS 26.3750 tGradient 16.6810 tsec 45.2830 #GCAMreg# pass 0 level1 5 level2 1 tsec 640.677 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.16 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.863675 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.861506) vs oldopt=(dt=92.48,rms=0.861724) #GCMRL# 37 dt 129.472000 rms 0.862 0.251% neg 0 invalid 762 tFOTS 25.4240 tGradient 16.1500 tsec 42.9600 #FOTS# QuadFit found better minimum quadopt=(dt=221.952,rms=0.860864) vs oldopt=(dt=369.92,rms=0.861027) #GCMRL# 38 dt 221.952000 rms 0.861 0.000% neg 0 invalid 762 tFOTS 24.6640 tGradient 17.0330 tsec 44.2710 #GCMRL# 39 dt 221.952000 rms 0.861 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 16.0880 tsec 18.2120 #GCMRL# 40 dt 221.952000 rms 0.861 0.008% neg 0 invalid 762 tFOTS 0.0000 tGradient 17.2480 tsec 18.6850 setting smoothness cost coefficient to 0.615 #GCAMreg# pass 0 level1 4 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.62 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.877052 #FOTS# QuadFit found better minimum quadopt=(dt=31.104,rms=0.875768) vs oldopt=(dt=25.92,rms=0.875776) #GCMRL# 42 dt 31.104000 rms 0.876 0.146% neg 0 invalid 762 tFOTS 24.6850 tGradient 9.1180 tsec 35.9860 #FOTS# QuadFit found better minimum quadopt=(dt=31.104,rms=0.875256) vs oldopt=(dt=25.92,rms=0.875272) #GCMRL# 43 dt 31.104000 rms 0.875 0.000% neg 0 invalid 762 tFOTS 23.5530 tGradient 9.1650 tsec 34.3400 #GCMRL# 44 dt 31.104000 rms 0.875 0.065% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.9630 tsec 12.0860 #GCMRL# 45 dt 31.104000 rms 0.874 0.072% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.0990 tsec 11.5250 #GCMRL# 46 dt 31.104000 rms 0.873 0.088% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.0850 tsec 12.4570 #GCMRL# 47 dt 31.104000 rms 0.871 0.216% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.7590 tsec 13.1830 #GCMRL# 48 dt 31.104000 rms 0.867 0.454% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.4110 tsec 12.1910 #GCMRL# 49 dt 31.104000 rms 0.861 0.734% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.3830 tsec 10.7310 #GCMRL# 50 dt 31.104000 rms 0.853 0.952% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.5190 tsec 11.9860 #GCMRL# 51 dt 31.104000 rms 0.844 1.045% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.7790 tsec 10.8130 #GCMRL# 52 dt 31.104000 rms 0.836 0.992% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.0740 tsec 11.4370 #GCMRL# 53 dt 31.104000 rms 0.829 0.806% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.4590 tsec 11.8260 #GCMRL# 54 dt 31.104000 rms 0.824 0.553% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.2360 tsec 12.2110 #GCMRL# 55 dt 31.104000 rms 0.822 0.279% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.1280 tsec 11.5340 #GCMRL# 56 dt 31.104000 rms 0.821 0.064% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.4310 tsec 12.0040 #GCMRL# 57 dt 31.104000 rms 0.821 -0.081% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.9030 tsec 13.2450 #GCAMreg# pass 0 level1 4 level2 1 tsec 281.707 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.62 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.822316 #GCMRL# 59 dt 0.000000 rms 0.821 0.105% neg 0 invalid 762 tFOTS 23.6250 tGradient 9.9370 tsec 34.9770 setting smoothness cost coefficient to 2.353 #GCAMreg# pass 0 level1 3 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=2.35 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.86786 #GCMRL# 61 dt 0.000000 rms 0.867 0.094% neg 0 invalid 762 tFOTS 21.2980 tGradient 8.1830 tsec 30.8310 #GCAMreg# pass 0 level1 3 level2 1 tsec 67.357 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=2.35 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.86786 #GCMRL# 63 dt 0.000000 rms 0.867 0.094% neg 0 invalid 762 tFOTS 14.1960 tGradient 5.8650 tsec 21.6970 setting smoothness cost coefficient to 8.000 #GCAMreg# pass 0 level1 2 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=8.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 1.00168 #FOTS# QuadFit found better minimum quadopt=(dt=3.06221,rms=0.966395) vs oldopt=(dt=2.88,rms=0.966516) #GCMRL# 65 dt 3.062211 rms 0.966 3.522% neg 0 invalid 762 tFOTS 17.4840 tGradient 4.6540 tsec 23.1570 #FOTS# QuadFit found better minimum quadopt=(dt=1.32558,rms=0.964026) vs oldopt=(dt=0.72,rms=0.964517) #GCMRL# 66 dt 1.325581 rms 0.964 0.000% neg 0 invalid 762 tFOTS 17.5310 tGradient 4.5890 tsec 23.7940 #GCAMreg# pass 0 level1 2 level2 1 tsec 60.421 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=8.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.96474 #FOTS# QuadFit found better minimum quadopt=(dt=0.166667,rms=0.964004) vs oldopt=(dt=0.18,rms=0.964005) #GCMRL# 68 dt 0.166667 rms 0.964 0.076% neg 0 invalid 762 tFOTS 22.1920 tGradient 8.0890 tsec 32.0240 #FOTS# QuadFit found better minimum quadopt=(dt=0.027,rms=0.963993) vs oldopt=(dt=0.045,rms=0.963993) #GCMRL# 69 dt 0.027000 rms 0.964 0.000% neg 0 invalid 762 tFOTS 20.2580 tGradient 7.0030 tsec 29.7900 #GCMRL# 70 dt 0.027000 rms 0.964 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.4650 tsec 10.3810 setting smoothness cost coefficient to 20.000 #GCAMreg# pass 0 level1 1 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=20.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 1.09333 #FOTS# QuadFit found better minimum quadopt=(dt=0.916667,rms=1.08478) vs oldopt=(dt=1.28,rms=1.08565) #GCMRL# 72 dt 0.916667 rms 1.085 0.782% neg 0 invalid 762 tFOTS 28.9770 tGradient 8.2110 tsec 39.5770 #FOTS# QuadFit found better minimum quadopt=(dt=0.561404,rms=1.07444) vs oldopt=(dt=0.32,rms=1.07686) #GCMRL# 73 dt 0.561404 rms 1.074 0.953% neg 0 invalid 762 tFOTS 27.0100 tGradient 7.7400 tsec 37.6020 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=1.07123) vs oldopt=(dt=0.32,rms=1.07137) #GCMRL# 74 dt 0.256000 rms 1.071 0.299% neg 0 invalid 762 tFOTS 28.6970 tGradient 7.3670 tsec 37.7730 #FOTS# QuadFit found better minimum quadopt=(dt=0.768,rms=1.06628) vs oldopt=(dt=1.28,rms=1.06805) #GCMRL# 75 dt 0.768000 rms 1.066 0.462% neg 0 invalid 762 tFOTS 27.7040 tGradient 8.4440 tsec 37.7560 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=1.06272) vs oldopt=(dt=0.32,rms=1.06291) #GCMRL# 76 dt 0.256000 rms 1.063 0.334% neg 0 invalid 762 tFOTS 27.1720 tGradient 8.5200 tsec 37.6130 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=1.06006) vs oldopt=(dt=0.32,rms=1.06032) #GCMRL# 77 dt 0.448000 rms 1.060 0.000% neg 0 invalid 762 tFOTS 27.8740 tGradient 8.7630 tsec 38.4030 #GCMRL# 78 dt 0.448000 rms 1.059 0.076% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.5200 tsec 10.2450 #GCMRL# 79 dt 0.448000 rms 1.053 0.587% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.1720 tsec 10.4860 #GCMRL# 80 dt 0.448000 rms 1.051 0.179% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.2650 tsec 10.3660 #GCMRL# 81 dt 0.448000 rms 1.049 0.203% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.2250 tsec 10.7800 #GCMRL# 82 dt 0.448000 rms 1.048 0.094% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8590 tsec 10.5170 #GCMRL# 83 dt 0.448000 rms 1.048 -0.190% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.6130 tsec 12.8330 #GCMRL# 84 dt 0.320000 rms 1.046 0.161% neg 0 invalid 762 tFOTS 30.2110 tGradient 8.4830 tsec 41.4930 #GCAMreg# pass 0 level1 1 level2 1 tsec 388.289 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=20.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 1.04587 #GCMRL# 86 dt 0.320000 rms 1.044 0.188% neg 0 invalid 762 tFOTS 28.3980 tGradient 6.8310 tsec 37.8560 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=1.04345) vs oldopt=(dt=0.32,rms=1.04348) #GCMRL# 87 dt 0.256000 rms 1.043 0.000% neg 0 invalid 762 tFOTS 28.9500 tGradient 9.8090 tsec 40.6940 #GCMRL# 88 dt 0.256000 rms 1.043 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.6240 tsec 11.3840 #GCMRL# 89 dt 0.256000 rms 1.043 0.038% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.4360 tsec 11.5580 #GCMRL# 90 dt 0.256000 rms 1.042 0.037% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.6610 tsec 10.5900 resetting metric properties... setting smoothness cost coefficient to 40.000 #GCAMreg# pass 0 level1 0 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=40.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.995617 #FOTS# QuadFit found better minimum quadopt=(dt=0.320375,rms=0.984749) vs oldopt=(dt=0.32,rms=0.98475) #GCMRL# 92 dt 0.320375 rms 0.985 1.092% neg 0 invalid 762 tFOTS 27.7440 tGradient 6.5460 tsec 36.7280 #FOTS# QuadFit found better minimum quadopt=(dt=0.028,rms=0.984347) vs oldopt=(dt=0.02,rms=0.984394) #GCMRL# 93 dt 0.028000 rms 0.984 0.000% neg 0 invalid 762 tFOTS 28.0770 tGradient 6.3460 tsec 36.5070 #GCAMreg# pass 0 level1 0 level2 1 tsec 93.58 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=40.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.985195 #FOTS# QuadFit found better minimum quadopt=(dt=0.016,rms=0.984265) vs oldopt=(dt=0.02,rms=0.984269) #GCMRL# 95 dt 0.016000 rms 0.984 0.094% neg 0 invalid 762 tFOTS 25.5500 tGradient 5.7410 tsec 34.2100 GCAMregister done in 35.3157 min Starting GCAmapRenormalizeWithAlignment() without scales renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.10253 (16) mri peak = 0.16343 (12) Left_Lateral_Ventricle (4): linear fit = 0.50 x + 0.0 (2259 voxels, overlap=0.075) Left_Lateral_Ventricle (4): linear fit = 0.50 x + 0.0 (2259 voxels, peak = 8), gca=7.9 gca peak = 0.17690 (16) mri peak = 0.20324 (12) Right_Lateral_Ventricle (43): linear fit = 0.70 x + 0.0 (1814 voxels, overlap=0.272) Right_Lateral_Ventricle (43): linear fit = 0.70 x + 0.0 (1814 voxels, peak = 11), gca=11.3 gca peak = 0.28275 (96) mri peak = 0.05397 (105) Right_Pallidum (52): linear fit = 1.12 x + 0.0 (640 voxels, overlap=0.038) Right_Pallidum (52): linear fit = 1.12 x + 0.0 (640 voxels, peak = 108), gca=108.0 gca peak = 0.18948 (93) mri peak = 0.09438 (105) Left_Pallidum (13): linear fit = 1.12 x + 0.0 (517 voxels, overlap=0.113) Left_Pallidum (13): linear fit = 1.12 x + 0.0 (517 voxels, peak = 104), gca=103.7 gca peak = 0.20755 (55) mri peak = 0.10577 (62) Right_Hippocampus (53): linear fit = 1.12 x + 0.0 (523 voxels, overlap=0.567) Right_Hippocampus (53): linear fit = 1.12 x + 0.0 (523 voxels, peak = 61), gca=61.3 gca peak = 0.31831 (58) mri peak = 0.07805 (66) Left_Hippocampus (17): linear fit = 1.14 x + 0.0 (233 voxels, overlap=0.164) Left_Hippocampus (17): linear fit = 1.14 x + 0.0 (233 voxels, peak = 66), gca=66.4 gca peak = 0.11957 (102) mri peak = 0.06641 (105) Right_Cerebral_White_Matter (41): linear fit = 1.04 x + 0.0 (47373 voxels, overlap=0.645) Right_Cerebral_White_Matter (41): linear fit = 1.04 x + 0.0 (47373 voxels, peak = 107), gca=106.6 gca peak = 0.11429 (102) mri peak = 0.06871 (104) Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (48714 voxels, overlap=0.729) Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (48714 voxels, peak = 107), gca=106.6 gca peak = 0.14521 (59) mri peak = 0.03077 (64) Left_Cerebral_Cortex (3): linear fit = 1.12 x + 0.0 (13601 voxels, overlap=0.459) Left_Cerebral_Cortex (3): linear fit = 1.12 x + 0.0 (13601 voxels, peak = 66), gca=66.4 gca peak = 0.14336 (58) mri peak = 0.03253 (63) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (13037 voxels, overlap=0.989) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (13037 voxels, peak = 59), gca=59.4 gca peak = 0.13305 (70) mri peak = 0.05431 (75) Right_Caudate (50): linear fit = 1.24 x + 0.0 (855 voxels, overlap=0.032) Right_Caudate (50): linear fit = 1.24 x + 0.0 (855 voxels, peak = 86), gca=86.5 gca peak = 0.15761 (71) mri peak = 0.07001 (69) Left_Caudate (11): linear fit = 0.93 x + 0.0 (610 voxels, overlap=0.432) Left_Caudate (11): linear fit = 0.93 x + 0.0 (610 voxels, peak = 66), gca=65.7 gca peak = 0.13537 (57) mri peak = 0.02532 (34) Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (20999 voxels, overlap=0.000) Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (20999 voxels, peak = 60), gca=59.6 gca peak = 0.13487 (56) mri peak = 0.02647 ( 6) Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (23103 voxels, overlap=0.000) Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (23103 voxels, peak = 53), gca=52.9 gca peak = 0.19040 (84) mri peak = 0.07347 (94) Left_Cerebellum_White_Matter (7): linear fit = 1.12 x + 0.0 (8431 voxels, overlap=0.002) Left_Cerebellum_White_Matter (7): linear fit = 1.12 x + 0.0 (8431 voxels, peak = 94), gca=94.5 gca peak = 0.18871 (83) mri peak = 0.07402 (90) Right_Cerebellum_White_Matter (46): linear fit = 1.12 x + 0.0 (7445 voxels, overlap=0.194) Right_Cerebellum_White_Matter (46): linear fit = 1.12 x + 0.0 (7445 voxels, peak = 93), gca=92.5 gca peak = 0.24248 (57) mri peak = 0.08926 (62) Left_Amygdala (18): linear fit = 1.08 x + 0.0 (300 voxels, overlap=0.542) Left_Amygdala (18): linear fit = 1.08 x + 0.0 (300 voxels, peak = 61), gca=61.3 gca peak = 0.35833 (56) mri peak = 0.10723 (65) Right_Amygdala (54): linear fit = 1.13 x + 0.0 (428 voxels, overlap=0.336) Right_Amygdala (54): linear fit = 1.13 x + 0.0 (428 voxels, peak = 64), gca=63.6 gca peak = 0.12897 (85) mri peak = 0.05081 (93) Left_Thalamus (10): linear fit = 1.07 x + 0.0 (3672 voxels, overlap=0.891) Left_Thalamus (10): linear fit = 1.07 x + 0.0 (3672 voxels, peak = 91), gca=90.5 gca peak = 0.13127 (83) mri peak = 0.04757 (80) Right_Thalamus (49): linear fit = 1.01 x + 0.0 (2975 voxels, overlap=0.848) Right_Thalamus (49): linear fit = 1.01 x + 0.0 (2975 voxels, peak = 84), gca=84.2 gca peak = 0.12974 (78) mri peak = 0.05869 (81) Left_Putamen (12): linear fit = 1.04 x + 0.0 (1828 voxels, overlap=0.675) Left_Putamen (12): linear fit = 1.04 x + 0.0 (1828 voxels, peak = 82), gca=81.5 gca peak = 0.17796 (79) mri peak = 0.06543 (80) Right_Putamen (51): linear fit = 1.10 x + 0.0 (1880 voxels, overlap=0.772) Right_Putamen (51): linear fit = 1.10 x + 0.0 (1880 voxels, peak = 87), gca=86.5 gca peak = 0.10999 (80) mri peak = 0.05297 (90) Brain_Stem (16): linear fit = 1.21 x + 0.0 (10437 voxels, overlap=0.071) Brain_Stem (16): linear fit = 1.21 x + 0.0 (10437 voxels, peak = 96), gca=96.4 gca peak = 0.13215 (88) mri peak = 0.11438 (106) Right_VentralDC (60): linear fit = 1.24 x + 0.0 (815 voxels, overlap=0.013) Right_VentralDC (60): linear fit = 1.24 x + 0.0 (815 voxels, peak = 109), gca=108.7 gca peak = 0.11941 (89) mri peak = 0.14121 (108) Left_VentralDC (28): linear fit = 1.22 x + 0.0 (833 voxels, overlap=0.012) Left_VentralDC (28): linear fit = 1.22 x + 0.0 (833 voxels, peak = 108), gca=108.1 gca peak = 0.20775 (25) mri peak = 0.20044 (12) Third_Ventricle (14): linear fit = 0.44 x + 0.0 (109 voxels, overlap=0.052) Third_Ventricle (14): linear fit = 0.44 x + 0.0 (109 voxels, peak = 11), gca=10.9 gca peak = 0.13297 (21) mri peak = 0.18878 ( 9) Fourth_Ventricle (15): linear fit = 0.38 x + 0.0 (240 voxels, overlap=0.151) Fourth_Ventricle (15): linear fit = 0.38 x + 0.0 (240 voxels, peak = 8), gca=8.1 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.19087 (28) gca peak Third_Ventricle = 0.20775 (25) gca peak Fourth_Ventricle = 0.13297 (21) gca peak CSF = 0.16821 (33) gca peak Left_Accumbens_area = 0.32850 (63) gca peak Left_undetermined = 0.98480 (28) gca peak Left_vessel = 0.40887 (53) gca peak Left_choroid_plexus = 0.10898 (46) gca peak Right_Inf_Lat_Vent = 0.17798 (26) gca peak Right_Accumbens_area = 0.30137 (64) gca peak Right_vessel = 0.47828 (52) gca peak Right_choroid_plexus = 0.11612 (45) gca peak Fifth_Ventricle = 0.59466 (35) gca peak WM_hypointensities = 0.10053 (78) gca peak non_WM_hypointensities = 0.07253 (60) gca peak Optic_Chiasm = 0.25330 (73) not using caudate to estimate GM means estimating mean gm scale to be 1.10 x + 0.0 estimating mean wm scale to be 1.04 x + 0.0 estimating mean csf scale to be 0.60 x + 0.0 Left_Pallidum too bright - rescaling by 0.997 (from 1.115) to 103.4 (was 103.7) Right_Pallidum too bright - rescaling by 0.957 (from 1.125) to 103.4 (was 108.0) saving intensity scales to talairach.label_intensities.txt GCAmapRenormalizeWithAlignment() took 8.41717 min noneg pre Starting GCAMregister() label assignment complete, 0 changed (0.00%) npasses = 1, nlevels = 6 #pass# 1 of 1 ************************ enabling zero nodes setting smoothness cost coefficient to 0.008 #GCAMreg# pass 0 level1 5 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.01 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 1.03075 #FOTS# QuadFit found better minimum quadopt=(dt=180.136,rms=1.00513) vs oldopt=(dt=92.48,rms=1.01143) #GCMRL# 97 dt 180.135770 rms 1.005 2.486% neg 0 invalid 762 tFOTS 24.7300 tGradient 12.5060 tsec 38.6600 #FOTS# QuadFit found better minimum quadopt=(dt=517.888,rms=0.974816) vs oldopt=(dt=369.92,rms=0.978683) #GCMRL# 98 dt 517.888000 rms 0.975 3.015% neg 0 invalid 762 tFOTS 24.0670 tGradient 12.1080 tsec 38.1970 #FOTS# QuadFit found better minimum quadopt=(dt=175.342,rms=0.969428) vs oldopt=(dt=92.48,rms=0.971089) #GCMRL# 99 dt 175.342466 rms 0.969 0.553% neg 0 invalid 762 tFOTS 24.4210 tGradient 14.2850 tsec 41.5900 #FOTS# QuadFit found better minimum quadopt=(dt=887.808,rms=0.95687) vs oldopt=(dt=1479.68,rms=0.960509) #GCMRL# 100 dt 887.808000 rms 0.957 1.295% neg 0 invalid 762 tFOTS 26.5950 tGradient 14.4940 tsec 42.5050 #FOTS# QuadFit found better minimum quadopt=(dt=145.735,rms=0.949504) vs oldopt=(dt=92.48,rms=0.950785) #GCMRL# 101 dt 145.734940 rms 0.950 0.770% neg 0 invalid 762 tFOTS 25.9800 tGradient 12.3690 tsec 41.2340 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.949052) vs oldopt=(dt=92.48,rms=0.949137) #GCMRL# 102 dt 129.472000 rms 0.949 0.000% neg 0 invalid 762 tFOTS 24.9040 tGradient 13.5550 tsec 41.3250 #GCMRL# 103 dt 129.472000 rms 0.948 0.137% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.5830 tsec 14.1520 #GCMRL# 104 dt 129.472000 rms 0.945 0.256% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.1780 tsec 14.7480 #GCMRL# 105 dt 129.472000 rms 0.942 0.348% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.1520 tsec 15.8330 #GCMRL# 106 dt 129.472000 rms 0.938 0.443% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.0340 tsec 13.7730 #GCMRL# 107 dt 129.472000 rms 0.933 0.533% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.7050 tsec 15.3440 #GCMRL# 108 dt 129.472000 rms 0.927 0.602% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.0210 tsec 13.4870 #GCMRL# 109 dt 129.472000 rms 0.921 0.638% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.5500 tsec 15.0600 #GCMRL# 110 dt 129.472000 rms 0.915 0.633% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.7940 tsec 14.2240 #GCMRL# 111 dt 129.472000 rms 0.910 0.595% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.6960 tsec 14.4960 #GCMRL# 112 dt 129.472000 rms 0.905 0.589% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.7130 tsec 14.6310 #GCMRL# 113 dt 129.472000 rms 0.900 0.555% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.4620 tsec 13.8880 #GCMRL# 114 dt 129.472000 rms 0.895 0.538% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.9780 tsec 13.3670 #GCMRL# 115 dt 129.472000 rms 0.890 0.496% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.3470 tsec 15.8030 #GCMRL# 116 dt 129.472000 rms 0.886 0.454% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.0040 tsec 15.4700 #GCMRL# 117 dt 129.472000 rms 0.883 0.430% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.8600 tsec 13.2630 #GCMRL# 118 dt 129.472000 rms 0.879 0.401% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.4680 tsec 15.6210 #GCMRL# 119 dt 129.472000 rms 0.876 0.350% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.4860 tsec 13.9790 #GCMRL# 120 dt 129.472000 rms 0.873 0.281% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.8130 tsec 14.8750 #GCMRL# 121 dt 129.472000 rms 0.871 0.244% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.4070 tsec 14.8310 #GCMRL# 122 dt 129.472000 rms 0.869 0.237% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.0140 tsec 15.0680 #GCMRL# 123 dt 129.472000 rms 0.867 0.248% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.8890 tsec 14.4310 #GCMRL# 124 dt 129.472000 rms 0.865 0.258% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.7470 tsec 14.1980 #GCMRL# 125 dt 129.472000 rms 0.863 0.261% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.3790 tsec 14.2860 #GCMRL# 126 dt 129.472000 rms 0.860 0.247% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.1780 tsec 14.6940 #GCMRL# 127 dt 129.472000 rms 0.859 0.221% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.6590 tsec 16.3440 #GCMRL# 128 dt 129.472000 rms 0.857 0.202% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.5380 tsec 14.0000 #GCMRL# 129 dt 129.472000 rms 0.855 0.196% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.3850 tsec 14.7750 #GCMRL# 130 dt 129.472000 rms 0.854 0.187% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.1040 tsec 13.9990 #GCMRL# 131 dt 129.472000 rms 0.852 0.172% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.0440 tsec 13.0170 #GCMRL# 132 dt 129.472000 rms 0.851 0.159% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.6880 tsec 15.1470 #GCMRL# 133 dt 129.472000 rms 0.849 0.151% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.1810 tsec 11.1450 #GCMRL# 134 dt 129.472000 rms 0.848 0.156% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.7570 tsec 14.2700 #GCMRL# 135 dt 129.472000 rms 0.847 0.162% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.9690 tsec 12.1450 #GCMRL# 136 dt 129.472000 rms 0.845 0.166% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.9700 tsec 12.3900 #GCMRL# 137 dt 129.472000 rms 0.844 0.155% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.6140 tsec 14.0180 #GCMRL# 138 dt 129.472000 rms 0.843 0.125% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.4510 tsec 12.8310 #GCMRL# 139 dt 129.472000 rms 0.842 0.119% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.8550 tsec 13.6590 #GCMRL# 140 dt 129.472000 rms 0.841 0.109% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.3580 tsec 12.4650 #GCMRL# 141 dt 129.472000 rms 0.840 0.108% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.5880 tsec 10.7020 #GCMRL# 142 dt 129.472000 rms 0.839 0.108% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.7410 tsec 12.4470 #GCMRL# 143 dt 129.472000 rms 0.838 0.098% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.3310 tsec 13.9090 #GCMRL# 144 dt 129.472000 rms 0.838 0.085% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.7090 tsec 12.8190 #GCMRL# 145 dt 129.472000 rms 0.837 0.081% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.5310 tsec 11.7050 #GCMRL# 146 dt 129.472000 rms 0.836 0.084% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.9670 tsec 12.0110 #GCMRL# 147 dt 129.472000 rms 0.836 0.088% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.5260 tsec 13.0890 #GCMRL# 148 dt 129.472000 rms 0.835 0.088% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.2760 tsec 15.6410 #GCMRL# 149 dt 129.472000 rms 0.834 0.081% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.6380 tsec 17.5490 #GCMRL# 150 dt 129.472000 rms 0.834 0.076% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.2390 tsec 17.0960 #GCMRL# 151 dt 129.472000 rms 0.833 0.073% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.4850 tsec 16.2870 #GCMRL# 152 dt 129.472000 rms 0.832 0.079% neg 0 invalid 762 tFOTS 0.0000 tGradient 16.8010 tsec 18.6600 #GCMRL# 153 dt 129.472000 rms 0.832 0.077% neg 0 invalid 762 tFOTS 0.0000 tGradient 16.3870 tsec 18.2970 #GCMRL# 154 dt 129.472000 rms 0.831 0.072% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.7570 tsec 16.6720 #GCMRL# 155 dt 129.472000 rms 0.831 0.062% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.6910 tsec 17.5630 #GCMRL# 156 dt 129.472000 rms 0.830 0.057% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.6260 tsec 18.5630 #GCMRL# 157 dt 129.472000 rms 0.830 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.6370 tsec 17.2950 #GCMRL# 158 dt 129.472000 rms 0.829 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.9060 tsec 17.5610 #GCMRL# 159 dt 129.472000 rms 0.829 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.0960 tsec 16.3430 #GCMRL# 160 dt 129.472000 rms 0.828 0.054% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.7250 tsec 17.2700 #GCMRL# 161 dt 129.472000 rms 0.828 0.061% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.9140 tsec 15.7590 #GCMRL# 162 dt 129.472000 rms 0.827 0.063% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.7320 tsec 17.3810 #GCMRL# 163 dt 129.472000 rms 0.827 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.9300 tsec 16.4060 #GCMRL# 164 dt 129.472000 rms 0.827 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.1370 tsec 14.8420 #GCMRL# 165 dt 129.472000 rms 0.826 0.052% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.8070 tsec 16.8380 #GCMRL# 166 dt 129.472000 rms 0.826 0.054% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.1990 tsec 14.7030 #GCMRL# 167 dt 129.472000 rms 0.825 0.053% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.5710 tsec 16.3530 #GCMRL# 168 dt 129.472000 rms 0.825 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.1340 tsec 15.5150 #GCMRL# 169 dt 129.472000 rms 0.824 0.044% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.2600 tsec 15.9340 #GCMRL# 170 dt 129.472000 rms 0.824 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.7770 tsec 16.0320 #GCMRL# 171 dt 129.472000 rms 0.824 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.8640 tsec 14.5130 #GCMRL# 172 dt 129.472000 rms 0.823 0.049% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.5550 tsec 14.8810 #GCMRL# 173 dt 129.472000 rms 0.823 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.1290 tsec 10.4170 #GCMRL# 174 dt 129.472000 rms 0.823 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.8640 tsec 18.1360 #GCMRL# 175 dt 129.472000 rms 0.822 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.3320 tsec 17.6240 #GCMRL# 176 dt 129.472000 rms 0.822 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.7580 tsec 17.8560 #GCMRL# 177 dt 129.472000 rms 0.821 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.7030 tsec 16.4800 #GCMRL# 178 dt 129.472000 rms 0.821 0.045% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.3050 tsec 14.5050 #GCMRL# 179 dt 129.472000 rms 0.821 0.044% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.1820 tsec 11.1500 #GCMRL# 180 dt 129.472000 rms 0.820 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.4610 tsec 7.4350 #GCMRL# 181 dt 129.472000 rms 0.820 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3960 tsec 8.3620 #GCMRL# 182 dt 129.472000 rms 0.820 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5470 tsec 8.5210 #GCMRL# 183 dt 129.472000 rms 0.820 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.4810 tsec 14.7320 #GCMRL# 184 dt 129.472000 rms 0.819 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.9370 tsec 17.9680 #GCMRL# 185 dt 129.472000 rms 0.819 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 17.5560 tsec 19.2060 #GCMRL# 186 dt 129.472000 rms 0.819 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.6970 tsec 16.6750 #GCMRL# 187 dt 129.472000 rms 0.818 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.1120 tsec 15.7320 #GCMRL# 188 dt 129.472000 rms 0.818 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.1290 tsec 16.6610 #GCMRL# 189 dt 129.472000 rms 0.818 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.9030 tsec 16.6520 #GCMRL# 190 dt 129.472000 rms 0.818 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 16.5470 tsec 18.4990 #GCMRL# 191 dt 129.472000 rms 0.817 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.0930 tsec 17.1870 #GCMRL# 192 dt 129.472000 rms 0.817 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.8500 tsec 16.6290 #GCMRL# 193 dt 129.472000 rms 0.817 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.1090 tsec 15.7450 #GCMRL# 194 dt 129.472000 rms 0.816 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.0620 tsec 16.4100 #GCMRL# 195 dt 129.472000 rms 0.816 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.0860 tsec 16.7130 #GCMRL# 196 dt 129.472000 rms 0.816 0.029% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.1870 tsec 17.1880 #GCMRL# 197 dt 129.472000 rms 0.816 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.9510 tsec 16.7080 #GCMRL# 198 dt 129.472000 rms 0.815 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 14.0200 tsec 16.2960 #GCMRL# 199 dt 129.472000 rms 0.815 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.1500 tsec 14.5710 #GCMRL# 200 dt 129.472000 rms 0.815 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.2970 tsec 14.7480 #GCMRL# 201 dt 129.472000 rms 0.815 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.8640 tsec 13.3780 #GCMRL# 202 dt 129.472000 rms 0.815 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 13.7330 tsec 15.2290 #GCMRL# 203 dt 129.472000 rms 0.814 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.6060 tsec 14.4770 #GCMRL# 204 dt 129.472000 rms 0.814 0.027% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.1370 tsec 14.2430 #GCMRL# 205 dt 129.472000 rms 0.814 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 12.9730 tsec 14.6610 #GCMRL# 206 dt 129.472000 rms 0.814 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 15.7610 tsec 16.9800 #GCMRL# 207 dt 129.472000 rms 0.814 0.022% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.9970 tsec 11.1300 #FOTS# QuadFit found better minimum quadopt=(dt=8286.21,rms=0.812291) vs oldopt=(dt=5918.72,rms=0.81247) #GCMRL# 208 dt 8286.208000 rms 0.812 0.161% neg 0 invalid 762 tFOTS 19.7300 tGradient 8.4100 tsec 29.3420 #FOTS# QuadFit found better minimum quadopt=(dt=73.984,rms=0.812073) vs oldopt=(dt=92.48,rms=0.812092) #GCMRL# 209 dt 73.984000 rms 0.812 0.000% neg 0 invalid 762 tFOTS 17.6910 tGradient 8.1420 tsec 27.4900 #GCAMreg# pass 0 level1 5 level2 1 tsec 1889.79 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.01 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.813252 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.811096) vs oldopt=(dt=92.48,rms=0.811166) #GCMRL# 211 dt 129.472000 rms 0.811 0.265% neg 0 invalid 762 tFOTS 19.5390 tGradient 8.7070 tsec 30.1380 #GCMRL# 212 dt 369.920000 rms 0.810 0.118% neg 0 invalid 762 tFOTS 17.9050 tGradient 8.8170 tsec 28.5490 #FOTS# QuadFit found better minimum quadopt=(dt=295.936,rms=0.809762) vs oldopt=(dt=369.92,rms=0.809799) #GCMRL# 213 dt 295.936000 rms 0.810 0.000% neg 0 invalid 762 tFOTS 18.1540 tGradient 8.9540 tsec 28.4050 #GCMRL# 214 dt 295.936000 rms 0.809 0.086% neg 0 invalid 762 tFOTS 0.0000 tGradient 11.0840 tsec 12.3010 #GCMRL# 215 dt 295.936000 rms 0.809 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.6360 tsec 9.7300 #GCMRL# 216 dt 295.936000 rms 0.809 0.010% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.2760 tsec 9.4530 #GCMRL# 217 dt 295.936000 rms 0.808 0.116% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.7790 tsec 9.9620 #GCMRL# 218 dt 295.936000 rms 0.808 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.7290 tsec 9.9420 #GCMRL# 219 dt 295.936000 rms 0.808 -0.014% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8410 tsec 10.5170 #FOTS# QuadFit found better minimum quadopt=(dt=0.00677344,rms=0.80753) vs oldopt=(dt=0.00564453,rms=0.80753) #GCMRL# 220 dt 0.006773 rms 0.808 0.000% neg 0 invalid 762 tFOTS 27.3210 tGradient 8.8220 tsec 37.2770 setting smoothness cost coefficient to 0.031 #GCAMreg# pass 0 level1 4 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.03 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.81181 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.803435) vs oldopt=(dt=103.68,rms=0.803603) #GCMRL# 222 dt 124.416000 rms 0.803 1.032% neg 0 invalid 762 tFOTS 15.4910 tGradient 5.4490 tsec 22.0620 #FOTS# QuadFit found better minimum quadopt=(dt=157.193,rms=0.794606) vs oldopt=(dt=103.68,rms=0.795561) #GCMRL# 223 dt 157.192982 rms 0.795 1.099% neg 0 invalid 762 tFOTS 14.8140 tGradient 5.0790 tsec 20.9780 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.78799) vs oldopt=(dt=103.68,rms=0.788353) #GCMRL# 224 dt 82.944000 rms 0.788 0.833% neg 0 invalid 762 tFOTS 14.1500 tGradient 4.7470 tsec 19.9590 #FOTS# QuadFit found better minimum quadopt=(dt=186.744,rms=0.781285) vs oldopt=(dt=103.68,rms=0.782476) #GCMRL# 225 dt 186.743961 rms 0.781 0.851% neg 0 invalid 762 tFOTS 15.0240 tGradient 4.6600 tsec 20.7980 #FOTS# QuadFit found better minimum quadopt=(dt=68.5376,rms=0.775801) vs oldopt=(dt=103.68,rms=0.776918) #GCMRL# 226 dt 68.537566 rms 0.776 0.702% neg 0 invalid 762 tFOTS 14.6630 tGradient 4.7450 tsec 20.5410 #FOTS# QuadFit found better minimum quadopt=(dt=331.776,rms=0.768892) vs oldopt=(dt=414.72,rms=0.769516) #GCMRL# 227 dt 331.776000 rms 0.769 0.891% neg 0 invalid 762 tFOTS 14.8680 tGradient 5.1370 tsec 21.1450 #FOTS# QuadFit found better minimum quadopt=(dt=69.8776,rms=0.762633) vs oldopt=(dt=25.92,rms=0.764458) #GCMRL# 228 dt 69.877551 rms 0.763 0.814% neg 0 invalid 762 tFOTS 15.5480 tGradient 4.8600 tsec 21.5670 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.75979) vs oldopt=(dt=103.68,rms=0.759853) #GCMRL# 229 dt 124.416000 rms 0.760 0.373% neg 0 invalid 762 tFOTS 19.2860 tGradient 6.5990 tsec 27.0000 #FOTS# QuadFit found better minimum quadopt=(dt=76.3871,rms=0.757305) vs oldopt=(dt=103.68,rms=0.757567) #GCMRL# 230 dt 76.387097 rms 0.757 0.327% neg 0 invalid 762 tFOTS 21.1220 tGradient 8.3050 tsec 30.5370 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.754659) vs oldopt=(dt=103.68,rms=0.754936) #GCMRL# 231 dt 145.152000 rms 0.755 0.349% neg 0 invalid 762 tFOTS 21.0390 tGradient 8.1060 tsec 30.2100 #FOTS# QuadFit found better minimum quadopt=(dt=73.7173,rms=0.752274) vs oldopt=(dt=103.68,rms=0.752596) #GCMRL# 232 dt 73.717277 rms 0.752 0.316% neg 0 invalid 762 tFOTS 24.8870 tGradient 9.4980 tsec 35.9590 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.749813) vs oldopt=(dt=103.68,rms=0.750105) #GCMRL# 233 dt 145.152000 rms 0.750 0.327% neg 0 invalid 762 tFOTS 28.1010 tGradient 9.7910 tsec 39.8020 #FOTS# QuadFit found better minimum quadopt=(dt=72.1127,rms=0.747831) vs oldopt=(dt=103.68,rms=0.748182) #GCMRL# 234 dt 72.112676 rms 0.748 0.264% neg 0 invalid 762 tFOTS 27.7620 tGradient 11.1860 tsec 42.3090 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.745664) vs oldopt=(dt=103.68,rms=0.745939) #GCMRL# 235 dt 145.152000 rms 0.746 0.290% neg 0 invalid 762 tFOTS 24.7610 tGradient 9.8540 tsec 37.1630 #FOTS# QuadFit found better minimum quadopt=(dt=75.246,rms=0.743778) vs oldopt=(dt=103.68,rms=0.744018) #GCMRL# 236 dt 75.246006 rms 0.744 0.253% neg 0 invalid 762 tFOTS 25.3330 tGradient 9.7600 tsec 36.6120 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.741949) vs oldopt=(dt=103.68,rms=0.74206) #GCMRL# 237 dt 145.152000 rms 0.742 0.246% neg 0 invalid 762 tFOTS 26.3750 tGradient 9.4160 tsec 37.2500 #FOTS# QuadFit found better minimum quadopt=(dt=68.3127,rms=0.740024) vs oldopt=(dt=103.68,rms=0.740466) #GCMRL# 238 dt 68.312668 rms 0.740 0.259% neg 0 invalid 762 tFOTS 26.6580 tGradient 9.5030 tsec 38.3350 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.7383) vs oldopt=(dt=103.68,rms=0.738529) #GCMRL# 239 dt 145.152000 rms 0.738 0.233% neg 0 invalid 762 tFOTS 24.6810 tGradient 9.7920 tsec 37.6570 #FOTS# QuadFit found better minimum quadopt=(dt=73.1429,rms=0.736704) vs oldopt=(dt=103.68,rms=0.736935) #GCMRL# 240 dt 73.142857 rms 0.737 0.216% neg 0 invalid 762 tFOTS 27.7190 tGradient 9.8500 tsec 39.0530 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.735299) vs oldopt=(dt=103.68,rms=0.735368) #GCMRL# 241 dt 124.416000 rms 0.735 0.191% neg 0 invalid 762 tFOTS 24.9730 tGradient 9.5730 tsec 37.1770 #FOTS# QuadFit found better minimum quadopt=(dt=78.9533,rms=0.733879) vs oldopt=(dt=103.68,rms=0.734013) #GCMRL# 242 dt 78.953271 rms 0.734 0.193% neg 0 invalid 762 tFOTS 25.2980 tGradient 9.8580 tsec 37.8240 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.732668) vs oldopt=(dt=103.68,rms=0.732672) #GCMRL# 243 dt 124.416000 rms 0.733 0.165% neg 0 invalid 762 tFOTS 26.1870 tGradient 9.7750 tsec 37.5610 #FOTS# QuadFit found better minimum quadopt=(dt=70.6718,rms=0.731255) vs oldopt=(dt=103.68,rms=0.73152) #GCMRL# 244 dt 70.671815 rms 0.731 0.193% neg 0 invalid 762 tFOTS 26.1460 tGradient 9.5550 tsec 37.9750 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.730033) vs oldopt=(dt=103.68,rms=0.73013) #GCMRL# 245 dt 145.152000 rms 0.730 0.167% neg 0 invalid 762 tFOTS 24.5150 tGradient 9.6720 tsec 35.6590 #FOTS# QuadFit found better minimum quadopt=(dt=69.4154,rms=0.728609) vs oldopt=(dt=103.68,rms=0.728897) #GCMRL# 246 dt 69.415385 rms 0.729 0.195% neg 0 invalid 762 tFOTS 24.0060 tGradient 9.9070 tsec 35.2940 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.72742) vs oldopt=(dt=103.68,rms=0.727524) #GCMRL# 247 dt 145.152000 rms 0.727 0.163% neg 0 invalid 762 tFOTS 25.6980 tGradient 9.3930 tsec 36.2770 #FOTS# QuadFit found better minimum quadopt=(dt=70.8085,rms=0.726088) vs oldopt=(dt=103.68,rms=0.726325) #GCMRL# 248 dt 70.808511 rms 0.726 0.183% neg 0 invalid 762 tFOTS 25.6140 tGradient 7.7020 tsec 34.6460 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.724985) vs oldopt=(dt=103.68,rms=0.725061) #GCMRL# 249 dt 145.152000 rms 0.725 0.152% neg 0 invalid 762 tFOTS 24.9480 tGradient 9.1680 tsec 35.4620 #FOTS# QuadFit found better minimum quadopt=(dt=68.8855,rms=0.723697) vs oldopt=(dt=103.68,rms=0.724005) #GCMRL# 250 dt 68.885496 rms 0.724 0.178% neg 0 invalid 762 tFOTS 23.0720 tGradient 9.6580 tsec 34.1690 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.722809) vs oldopt=(dt=103.68,rms=0.722839) #GCMRL# 251 dt 124.416000 rms 0.723 0.123% neg 0 invalid 762 tFOTS 23.4210 tGradient 9.3870 tsec 34.2900 #FOTS# QuadFit found better minimum quadopt=(dt=78.5965,rms=0.721702) vs oldopt=(dt=103.68,rms=0.721807) #GCMRL# 252 dt 78.596491 rms 0.722 0.153% neg 0 invalid 762 tFOTS 23.6030 tGradient 8.8450 tsec 33.4960 #GCMRL# 253 dt 103.680000 rms 0.721 0.100% neg 0 invalid 762 tFOTS 20.1580 tGradient 7.0060 tsec 28.6260 #FOTS# QuadFit found better minimum quadopt=(dt=85.6615,rms=0.719907) vs oldopt=(dt=103.68,rms=0.719955) #GCMRL# 254 dt 85.661538 rms 0.720 0.149% neg 0 invalid 762 tFOTS 24.1430 tGradient 9.6290 tsec 36.0410 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.719209) vs oldopt=(dt=103.68,rms=0.719224) #GCMRL# 255 dt 82.944000 rms 0.719 0.097% neg 0 invalid 762 tFOTS 21.4380 tGradient 9.1600 tsec 31.6020 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.71829) vs oldopt=(dt=103.68,rms=0.7183) #GCMRL# 256 dt 124.416000 rms 0.718 0.128% neg 0 invalid 762 tFOTS 23.3190 tGradient 9.3150 tsec 34.7760 #FOTS# QuadFit found better minimum quadopt=(dt=66.0382,rms=0.717536) vs oldopt=(dt=103.68,rms=0.71775) #GCMRL# 257 dt 66.038217 rms 0.718 0.105% neg 0 invalid 762 tFOTS 26.5400 tGradient 9.4420 tsec 37.1640 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.716472) vs oldopt=(dt=103.68,rms=0.71661) #GCMRL# 258 dt 145.152000 rms 0.716 0.148% neg 0 invalid 762 tFOTS 20.4150 tGradient 6.6030 tsec 29.5740 #FOTS# QuadFit found better minimum quadopt=(dt=62.2466,rms=0.715801) vs oldopt=(dt=103.68,rms=0.716029) #GCMRL# 259 dt 62.246575 rms 0.716 0.094% neg 0 invalid 762 tFOTS 20.1580 tGradient 8.3860 tsec 29.6660 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.714786) vs oldopt=(dt=103.68,rms=0.714968) #GCMRL# 260 dt 145.152000 rms 0.715 0.142% neg 0 invalid 762 tFOTS 16.6250 tGradient 6.8210 tsec 24.5140 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.714105) vs oldopt=(dt=103.68,rms=0.714133) #GCMRL# 261 dt 82.944000 rms 0.714 0.095% neg 0 invalid 762 tFOTS 20.3310 tGradient 7.9830 tsec 29.4910 #GCMRL# 262 dt 103.680000 rms 0.713 0.104% neg 0 invalid 762 tFOTS 26.1610 tGradient 9.4110 tsec 37.8580 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.712806) vs oldopt=(dt=103.68,rms=0.712876) #GCMRL# 263 dt 82.944000 rms 0.713 0.078% neg 0 invalid 762 tFOTS 28.3120 tGradient 8.9860 tsec 39.1620 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.712171) vs oldopt=(dt=103.68,rms=0.71218) #GCMRL# 264 dt 82.944000 rms 0.712 0.089% neg 0 invalid 762 tFOTS 26.9570 tGradient 11.7250 tsec 41.7090 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.711552) vs oldopt=(dt=103.68,rms=0.711564) #GCMRL# 265 dt 124.416000 rms 0.712 0.087% neg 0 invalid 762 tFOTS 29.3670 tGradient 9.7900 tsec 41.0360 #FOTS# QuadFit found better minimum quadopt=(dt=62.208,rms=0.710894) vs oldopt=(dt=103.68,rms=0.711062) #GCMRL# 266 dt 62.208000 rms 0.711 0.093% neg 0 invalid 762 tFOTS 29.1050 tGradient 9.6270 tsec 41.2510 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.710171) vs oldopt=(dt=103.68,rms=0.7103) #GCMRL# 267 dt 145.152000 rms 0.710 0.102% neg 0 invalid 762 tFOTS 31.2120 tGradient 9.3030 tsec 42.3560 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.709601) vs oldopt=(dt=103.68,rms=0.709665) #GCMRL# 268 dt 82.944000 rms 0.710 0.080% neg 0 invalid 762 tFOTS 27.8080 tGradient 12.1480 tsec 41.6960 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.709144) vs oldopt=(dt=103.68,rms=0.709166) #GCMRL# 269 dt 82.944000 rms 0.709 0.065% neg 0 invalid 762 tFOTS 31.5430 tGradient 10.7030 tsec 44.0110 #GCMRL# 270 dt 103.680000 rms 0.709 0.084% neg 0 invalid 762 tFOTS 26.3750 tGradient 11.9960 tsec 41.5100 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.708154) vs oldopt=(dt=103.68,rms=0.7082) #GCMRL# 271 dt 82.944000 rms 0.708 0.056% neg 0 invalid 762 tFOTS 30.4870 tGradient 10.4570 tsec 43.5470 #GCMRL# 272 dt 103.680000 rms 0.708 0.083% neg 0 invalid 762 tFOTS 29.4910 tGradient 10.4350 tsec 42.3080 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.707147) vs oldopt=(dt=103.68,rms=0.707206) #GCMRL# 273 dt 82.944000 rms 0.707 0.059% neg 0 invalid 762 tFOTS 33.4210 tGradient 10.7180 tsec 47.3130 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.706677) vs oldopt=(dt=103.68,rms=0.706685) #GCMRL# 274 dt 82.944000 rms 0.707 0.067% neg 0 invalid 762 tFOTS 27.5980 tGradient 10.9050 tsec 40.3140 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.706141) vs oldopt=(dt=103.68,rms=0.706151) #GCMRL# 275 dt 124.416000 rms 0.706 0.076% neg 0 invalid 762 tFOTS 30.2950 tGradient 9.7440 tsec 41.6520 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.705781) vs oldopt=(dt=25.92,rms=0.705853) #GCMRL# 276 dt 36.288000 rms 0.706 0.051% neg 0 invalid 762 tFOTS 29.1090 tGradient 11.9900 tsec 42.8360 #FOTS# QuadFit found better minimum quadopt=(dt=145.152,rms=0.705262) vs oldopt=(dt=103.68,rms=0.705375) #GCMRL# 277 dt 145.152000 rms 0.705 0.074% neg 0 invalid 762 tFOTS 25.4630 tGradient 11.1320 tsec 38.4780 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.704681) vs oldopt=(dt=103.68,rms=0.704694) #GCMRL# 278 dt 124.416000 rms 0.705 0.082% neg 0 invalid 762 tFOTS 30.0240 tGradient 10.6410 tsec 43.5710 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.70439) vs oldopt=(dt=25.92,rms=0.70445) #GCMRL# 279 dt 36.288000 rms 0.704 0.000% neg 0 invalid 762 tFOTS 24.9780 tGradient 10.8710 tsec 38.0470 #GCMRL# 280 dt 36.288000 rms 0.704 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.4770 tsec 10.9920 #GCMRL# 281 dt 36.288000 rms 0.704 0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.3620 tsec 11.8590 #GCMRL# 282 dt 36.288000 rms 0.704 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.0410 tsec 13.5600 #GCMRL# 283 dt 36.288000 rms 0.704 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.7290 tsec 11.0140 #GCMRL# 284 dt 18.144000 rms 0.703 0.007% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.7130 tsec 12.7840 #GCMRL# 285 dt 0.008859 rms 0.703 0.003% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.3850 tsec 20.7200 #GCAMreg# pass 0 level1 4 level2 1 tsec 2148.94 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.03 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.704206 #FOTS# QuadFit found better minimum quadopt=(dt=66.2208,rms=0.702119) vs oldopt=(dt=103.68,rms=0.702538) #GCMRL# 287 dt 66.220820 rms 0.702 0.296% neg 0 invalid 762 tFOTS 29.6840 tGradient 10.0090 tsec 42.7100 #GCMRL# 288 dt 25.920000 rms 0.701 0.089% neg 0 invalid 762 tFOTS 24.4550 tGradient 8.9920 tsec 34.9520 #FOTS# QuadFit found better minimum quadopt=(dt=0.567,rms=0.7015) vs oldopt=(dt=0.405,rms=0.701503) #GCMRL# 289 dt 0.567000 rms 0.702 0.000% neg 0 invalid 762 tFOTS 19.5100 tGradient 10.8550 tsec 34.8870 #GCMRL# 290 dt 0.567000 rms 0.702 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.5750 tsec 12.0330 #GCMRL# 291 dt 0.283500 rms 0.701 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.6610 tsec 13.7090 setting smoothness cost coefficient to 0.118 #GCAMreg# pass 0 level1 3 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.12 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.714622 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.697609) vs oldopt=(dt=32,rms=0.70145) #GCMRL# 293 dt 44.800000 rms 0.698 2.381% neg 0 invalid 762 tFOTS 25.2940 tGradient 8.6470 tsec 35.7120 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.683127) vs oldopt=(dt=32,rms=0.686963) #GCMRL# 294 dt 44.800000 rms 0.683 2.076% neg 0 invalid 762 tFOTS 25.3710 tGradient 7.8460 tsec 34.7110 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.672787) vs oldopt=(dt=32,rms=0.675444) #GCMRL# 295 dt 44.800000 rms 0.673 1.514% neg 0 invalid 762 tFOTS 23.7310 tGradient 8.6120 tsec 34.3320 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.665324) vs oldopt=(dt=32,rms=0.667119) #GCMRL# 296 dt 44.800000 rms 0.665 1.109% neg 0 invalid 762 tFOTS 16.7430 tGradient 6.8700 tsec 25.1930 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.657684) vs oldopt=(dt=32,rms=0.659331) #GCMRL# 297 dt 44.800000 rms 0.658 1.148% neg 0 invalid 762 tFOTS 23.7690 tGradient 5.2500 tsec 30.4910 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.653965) vs oldopt=(dt=32,rms=0.654331) #GCMRL# 298 dt 44.800000 rms 0.654 0.566% neg 0 invalid 762 tFOTS 22.4670 tGradient 8.6210 tsec 32.4580 #GCMRL# 299 dt 32.000000 rms 0.648 0.839% neg 0 invalid 762 tFOTS 24.6370 tGradient 7.4600 tsec 33.5560 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.644962) vs oldopt=(dt=32,rms=0.645685) #GCMRL# 300 dt 44.800000 rms 0.645 0.542% neg 0 invalid 762 tFOTS 25.7600 tGradient 8.6140 tsec 36.0240 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.643405) vs oldopt=(dt=8,rms=0.643807) #GCMRL# 301 dt 11.200000 rms 0.643 0.241% neg 0 invalid 762 tFOTS 22.2800 tGradient 9.3180 tsec 34.3050 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.642291) vs oldopt=(dt=8,rms=0.642592) #GCMRL# 302 dt 11.200000 rms 0.642 0.173% neg 0 invalid 762 tFOTS 23.5390 tGradient 7.5250 tsec 32.5180 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.641371) vs oldopt=(dt=8,rms=0.641634) #GCMRL# 303 dt 11.200000 rms 0.641 0.143% neg 0 invalid 762 tFOTS 24.3870 tGradient 7.6070 tsec 33.9320 #FOTS# QuadFit found better minimum quadopt=(dt=0.7,rms=0.641311) vs oldopt=(dt=0.5,rms=0.641326) #GCMRL# 304 dt 0.700000 rms 0.641 0.000% neg 0 invalid 762 tFOTS 21.3690 tGradient 7.7790 tsec 30.7690 #GCMRL# 305 dt 0.700000 rms 0.641 0.008% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4030 tsec 8.9790 #GCMRL# 306 dt 0.087500 rms 0.641 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.0390 tsec 13.6930 #GCMRL# 307 dt 0.043750 rms 0.641 0.001% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.5010 tsec 11.9390 #FOTS# QuadFit found better minimum quadopt=(dt=0.0109375,rms=0.641245) vs oldopt=(dt=0.0078125,rms=0.641245) #GCAMreg# pass 0 level1 3 level2 1 tsec 463.722 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.12 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.642066 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.638471) vs oldopt=(dt=32,rms=0.63858) #GCMRL# 309 dt 38.400000 rms 0.638 0.560% neg 0 invalid 762 tFOTS 24.6260 tGradient 8.1320 tsec 34.7610 #GCMRL# 310 dt 128.000000 rms 0.632 1.075% neg 0 invalid 762 tFOTS 23.8920 tGradient 8.9090 tsec 35.7030 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.630385) vs oldopt=(dt=8,rms=0.630661) #GCMRL# 311 dt 11.200000 rms 0.630 0.194% neg 0 invalid 762 tFOTS 23.8670 tGradient 7.5560 tsec 34.1550 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.629206) vs oldopt=(dt=32,rms=0.629215) #GCMRL# 312 dt 25.600000 rms 0.629 0.187% neg 0 invalid 762 tFOTS 23.6950 tGradient 7.1110 tsec 32.2170 #FOTS# QuadFit found better minimum quadopt=(dt=153.6,rms=0.62315) vs oldopt=(dt=128,rms=0.623552) #GCMRL# 313 dt 153.600000 rms 0.623 0.962% neg 0 invalid 762 tFOTS 24.5770 tGradient 7.4220 tsec 33.4850 #FOTS# QuadFit found better minimum quadopt=(dt=25.4297,rms=0.620956) vs oldopt=(dt=32,rms=0.621204) #GCMRL# 314 dt 25.429658 rms 0.621 0.352% neg 0 invalid 762 tFOTS 25.4040 tGradient 8.1480 tsec 34.9600 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.619756) vs oldopt=(dt=32,rms=0.619911) #GCMRL# 315 dt 44.800000 rms 0.620 0.193% neg 0 invalid 762 tFOTS 24.6970 tGradient 8.8970 tsec 35.1340 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.618595) vs oldopt=(dt=32,rms=0.618654) #GCMRL# 316 dt 38.400000 rms 0.619 0.187% neg 0 invalid 762 tFOTS 26.1570 tGradient 8.2060 tsec 35.8150 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.617795) vs oldopt=(dt=32,rms=0.617803) #GCMRL# 317 dt 25.600000 rms 0.618 0.129% neg 0 invalid 762 tFOTS 24.7480 tGradient 8.2150 tsec 35.0810 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.616792) vs oldopt=(dt=32,rms=0.616868) #GCMRL# 318 dt 44.800000 rms 0.617 0.162% neg 0 invalid 762 tFOTS 26.1820 tGradient 9.3440 tsec 38.2050 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.61594) vs oldopt=(dt=32,rms=0.616002) #GCMRL# 319 dt 25.600000 rms 0.616 0.138% neg 0 invalid 762 tFOTS 25.0550 tGradient 8.4990 tsec 36.3360 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.615066) vs oldopt=(dt=32,rms=0.615102) #GCMRL# 320 dt 38.400000 rms 0.615 0.142% neg 0 invalid 762 tFOTS 26.3990 tGradient 7.0220 tsec 35.6650 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.614429) vs oldopt=(dt=32,rms=0.614456) #GCMRL# 321 dt 25.600000 rms 0.614 0.104% neg 0 invalid 762 tFOTS 27.4170 tGradient 7.3440 tsec 36.2930 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.61355) vs oldopt=(dt=32,rms=0.613634) #GCMRL# 322 dt 44.800000 rms 0.614 0.143% neg 0 invalid 762 tFOTS 27.0980 tGradient 8.3910 tsec 37.6900 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.612896) vs oldopt=(dt=32,rms=0.612963) #GCMRL# 323 dt 25.600000 rms 0.613 0.107% neg 0 invalid 762 tFOTS 24.9430 tGradient 7.0590 tsec 34.9390 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.612152) vs oldopt=(dt=32,rms=0.612175) #GCMRL# 324 dt 38.400000 rms 0.612 0.121% neg 0 invalid 762 tFOTS 25.9650 tGradient 7.1060 tsec 34.8550 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.611684) vs oldopt=(dt=32,rms=0.611753) #GCMRL# 325 dt 25.600000 rms 0.612 0.076% neg 0 invalid 762 tFOTS 20.0050 tGradient 7.6780 tsec 29.3530 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.610951) vs oldopt=(dt=32,rms=0.610973) #GCMRL# 326 dt 38.400000 rms 0.611 0.120% neg 0 invalid 762 tFOTS 17.4010 tGradient 5.4560 tsec 23.9900 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.610442) vs oldopt=(dt=32,rms=0.610509) #GCMRL# 327 dt 25.600000 rms 0.610 0.083% neg 0 invalid 762 tFOTS 17.4470 tGradient 5.0050 tsec 23.9050 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.609862) vs oldopt=(dt=32,rms=0.609867) #GCMRL# 328 dt 38.400000 rms 0.610 0.095% neg 0 invalid 762 tFOTS 30.2280 tGradient 8.2110 tsec 40.7920 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.609373) vs oldopt=(dt=32,rms=0.609426) #GCMRL# 329 dt 25.600000 rms 0.609 0.080% neg 0 invalid 762 tFOTS 27.7240 tGradient 8.6930 tsec 38.3270 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.60875) vs oldopt=(dt=32,rms=0.608774) #GCMRL# 330 dt 38.400000 rms 0.609 0.102% neg 0 invalid 762 tFOTS 29.1480 tGradient 7.9100 tsec 38.8450 #FOTS# QuadFit found better minimum quadopt=(dt=19.2,rms=0.608398) vs oldopt=(dt=32,rms=0.608509) #GCMRL# 331 dt 19.200000 rms 0.608 0.058% neg 0 invalid 762 tFOTS 27.8730 tGradient 7.9140 tsec 37.7100 #GCMRL# 332 dt 128.000000 rms 0.607 0.219% neg 0 invalid 762 tFOTS 24.8400 tGradient 8.4730 tsec 35.6070 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.60627) vs oldopt=(dt=8,rms=0.606423) #GCMRL# 333 dt 11.200000 rms 0.606 0.131% neg 0 invalid 762 tFOTS 26.1180 tGradient 8.3020 tsec 37.2730 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.60602) vs oldopt=(dt=8,rms=0.606054) #GCMRL# 334 dt 11.200000 rms 0.606 0.000% neg 0 invalid 762 tFOTS 27.9420 tGradient 9.5370 tsec 40.3760 #GCMRL# 335 dt 11.200000 rms 0.606 0.022% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4230 tsec 9.5880 #GCMRL# 336 dt 11.200000 rms 0.606 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8750 tsec 9.5010 #GCMRL# 337 dt 11.200000 rms 0.605 0.066% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.1030 tsec 10.3090 #GCMRL# 338 dt 11.200000 rms 0.605 0.083% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7420 tsec 9.2330 #GCMRL# 339 dt 11.200000 rms 0.604 0.098% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.9020 tsec 10.4600 #GCMRL# 340 dt 11.200000 rms 0.604 0.101% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.4170 tsec 10.3470 #GCMRL# 341 dt 11.200000 rms 0.603 0.109% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.2830 tsec 11.1300 #GCMRL# 342 dt 11.200000 rms 0.602 0.110% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.7620 tsec 9.3940 #GCMRL# 343 dt 11.200000 rms 0.601 0.124% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.7670 tsec 10.2790 #GCMRL# 344 dt 11.200000 rms 0.601 0.132% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.0750 tsec 9.5140 #GCMRL# 345 dt 11.200000 rms 0.600 0.133% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.2900 tsec 9.9930 #GCMRL# 346 dt 11.200000 rms 0.599 0.128% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4860 tsec 10.4340 #GCMRL# 347 dt 11.200000 rms 0.598 0.131% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.0930 tsec 10.4860 #GCMRL# 348 dt 11.200000 rms 0.597 0.139% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5340 tsec 9.0850 #GCMRL# 349 dt 11.200000 rms 0.597 0.136% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.0990 tsec 10.7200 #GCMRL# 350 dt 11.200000 rms 0.596 0.132% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.4260 tsec 11.0590 #GCMRL# 351 dt 11.200000 rms 0.595 0.124% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.1310 tsec 11.0440 #GCMRL# 352 dt 11.200000 rms 0.594 0.122% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8820 tsec 9.6260 #GCMRL# 353 dt 11.200000 rms 0.594 0.111% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.1290 tsec 8.4180 #GCMRL# 354 dt 11.200000 rms 0.593 0.106% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.4160 tsec 8.9920 #GCMRL# 355 dt 11.200000 rms 0.593 0.100% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.3320 tsec 7.9250 #GCMRL# 356 dt 11.200000 rms 0.592 0.101% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.5830 tsec 9.1640 #GCMRL# 357 dt 11.200000 rms 0.591 0.097% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3700 tsec 8.9280 #GCMRL# 358 dt 11.200000 rms 0.591 0.087% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3500 tsec 8.8300 #GCMRL# 359 dt 11.200000 rms 0.590 0.083% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.3890 tsec 9.6080 #GCMRL# 360 dt 11.200000 rms 0.590 0.078% neg 0 invalid 762 tFOTS 0.0000 tGradient 6.7660 tsec 8.9330 #GCMRL# 361 dt 11.200000 rms 0.589 0.077% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.4980 tsec 10.3960 #GCMRL# 362 dt 11.200000 rms 0.589 0.082% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.8630 tsec 11.5710 #GCMRL# 363 dt 11.200000 rms 0.588 0.084% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.3540 tsec 11.2570 #GCMRL# 364 dt 11.200000 rms 0.588 0.083% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.5580 tsec 11.1630 #GCMRL# 365 dt 11.200000 rms 0.588 0.072% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.2660 tsec 10.8700 #GCMRL# 366 dt 11.200000 rms 0.587 0.065% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.0250 tsec 9.3870 #GCMRL# 367 dt 11.200000 rms 0.587 0.062% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.4620 tsec 13.2080 #GCMRL# 368 dt 11.200000 rms 0.587 0.051% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.5380 tsec 11.3360 #GCMRL# 369 dt 11.200000 rms 0.586 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 10.2720 tsec 12.3400 #GCMRL# 370 dt 11.200000 rms 0.586 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.5550 tsec 12.1010 #GCMRL# 371 dt 11.200000 rms 0.586 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.3530 tsec 10.8640 #GCMRL# 372 dt 11.200000 rms 0.586 0.025% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.2830 tsec 9.9760 #GCMRL# 373 dt 11.200000 rms 0.585 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.2470 tsec 11.0060 #GCMRL# 374 dt 11.200000 rms 0.585 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.4130 tsec 12.4310 #GCMRL# 375 dt 11.200000 rms 0.585 0.056% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.6230 tsec 11.0210 #GCMRL# 376 dt 11.200000 rms 0.584 0.058% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.0890 tsec 10.8350 #GCMRL# 377 dt 11.200000 rms 0.584 0.053% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.7970 tsec 11.0070 #GCMRL# 378 dt 11.200000 rms 0.584 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.7770 tsec 11.5840 #GCMRL# 379 dt 11.200000 rms 0.584 0.020% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.6460 tsec 10.4090 #GCMRL# 380 dt 11.200000 rms 0.584 0.028% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.9500 tsec 11.8960 #GCMRL# 381 dt 11.200000 rms 0.583 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.2320 tsec 10.0400 #GCMRL# 382 dt 11.200000 rms 0.583 0.040% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.8160 tsec 10.6550 #GCMRL# 383 dt 11.200000 rms 0.583 0.041% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.8100 tsec 10.8450 #GCMRL# 384 dt 11.200000 rms 0.583 0.052% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.1070 tsec 10.7950 #GCMRL# 385 dt 11.200000 rms 0.582 0.046% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.8140 tsec 11.2540 #GCMRL# 386 dt 11.200000 rms 0.582 0.015% neg 0 invalid 762 tFOTS 0.0000 tGradient 7.0960 tsec 10.3130 #GCMRL# 387 dt 11.200000 rms 0.582 0.019% neg 0 invalid 762 tFOTS 0.0000 tGradient 8.4230 tsec 10.0470 #GCMRL# 388 dt 11.200000 rms 0.582 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 9.1940 tsec 10.7730 #FOTS# QuadFit found better minimum quadopt=(dt=2.8,rms=0.58217) vs oldopt=(dt=2,rms=0.582171) setting smoothness cost coefficient to 0.400 #GCAMreg# pass 0 level1 2 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.40 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.613701 #GCMRL# 390 dt 0.000000 rms 0.613 0.084% neg 0 invalid 762 tFOTS 18.1440 tGradient 6.4490 tsec 25.7200 #GCMRL# 391 dt 0.150000 rms 0.613 0.000% neg 0 invalid 762 tFOTS 19.3550 tGradient 6.1270 tsec 28.3790 #GCAMreg# pass 0 level1 2 level2 1 tsec 66.95 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.40 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.613701 #GCMRL# 393 dt 0.000000 rms 0.613 0.084% neg 0 invalid 762 tFOTS 17.6740 tGradient 5.0350 tsec 23.7740 #GCMRL# 394 dt 0.150000 rms 0.613 0.000% neg 0 invalid 762 tFOTS 15.8330 tGradient 4.4310 tsec 22.4150 setting smoothness cost coefficient to 1.000 #GCAMreg# pass 0 level1 1 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=1.00 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.674838 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=0.674185) vs oldopt=(dt=0.32,rms=0.674197) #GCMRL# 396 dt 0.256000 rms 0.674 0.097% neg 0 invalid 762 tFOTS 14.8310 tGradient 4.0960 tsec 20.0410 #FOTS# QuadFit found better minimum quadopt=(dt=0.016,rms=0.674178) vs oldopt=(dt=0.02,rms=0.674178) #GCMRL# 397 dt 0.016000 rms 0.674 0.000% neg 0 invalid 762 tFOTS 15.1860 tGradient 4.2080 tsec 20.4760 #GCAMreg# pass 0 level1 1 level2 1 tsec 51.325 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=1.00 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.674651 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.674116) vs oldopt=(dt=0.08,rms=0.674127) #GCMRL# 399 dt 0.112000 rms 0.674 0.079% neg 0 invalid 762 tFOTS 13.5530 tGradient 4.1090 tsec 18.7680 #FOTS# QuadFit found better minimum quadopt=(dt=0.064,rms=0.674111) vs oldopt=(dt=0.08,rms=0.674112) #GCMRL# 400 dt 0.064000 rms 0.674 0.000% neg 0 invalid 762 tFOTS 15.1710 tGradient 4.1090 tsec 20.3810 resetting metric properties... setting smoothness cost coefficient to 2.000 #GCAMreg# pass 0 level1 0 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=2.00 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=2.0,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.575433 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.569754) vs oldopt=(dt=0.08,rms=0.57121) #GCMRL# 402 dt 0.112000 rms 0.570 0.987% neg 0 invalid 762 tFOTS 13.1440 tGradient 3.4960 tsec 17.7330 #FOTS# QuadFit found better minimum quadopt=(dt=0.384,rms=0.555383) vs oldopt=(dt=0.32,rms=0.557725) #GCMRL# 403 dt 0.384000 rms 0.555 2.522% neg 0 invalid 762 tFOTS 14.3830 tGradient 3.2800 tsec 18.7790 #GCMRL# 404 dt 0.320000 rms 0.551 0.794% neg 0 invalid 762 tFOTS 14.6460 tGradient 2.7440 tsec 18.5030 #GCMRL# 405 dt 0.320000 rms 0.548 0.480% neg 0 invalid 762 tFOTS 14.2960 tGradient 2.7630 tsec 18.1150 #GCMRL# 406 dt 0.320000 rms 0.547 0.300% neg 0 invalid 762 tFOTS 13.6760 tGradient 3.3770 tsec 18.0540 #GCMRL# 407 dt 0.320000 rms 0.546 0.210% neg 0 invalid 762 tFOTS 12.9650 tGradient 2.5890 tsec 17.3300 #GCMRL# 408 dt 0.320000 rms 0.545 0.150% neg 0 invalid 762 tFOTS 12.8620 tGradient 2.7860 tsec 16.8020 #GCMRL# 409 dt 0.320000 rms 0.544 0.123% neg 0 invalid 762 tFOTS 13.4970 tGradient 2.7670 tsec 17.3510 #GCMRL# 410 dt 0.320000 rms 0.544 0.090% neg 0 invalid 762 tFOTS 13.1840 tGradient 3.6400 tsec 18.5720 #GCMRL# 411 dt 0.320000 rms 0.543 0.084% neg 0 invalid 762 tFOTS 15.1770 tGradient 3.5050 tsec 19.8460 #GCMRL# 412 dt 0.320000 rms 0.543 0.056% neg 0 invalid 762 tFOTS 15.2990 tGradient 2.9580 tsec 19.3840 #GCMRL# 413 dt 0.320000 rms 0.542 0.062% neg 0 invalid 762 tFOTS 15.6750 tGradient 3.4210 tsec 20.3070 #GCMRL# 414 dt 0.320000 rms 0.542 0.000% neg 0 invalid 762 tFOTS 14.5220 tGradient 3.5610 tsec 19.2570 #GCMRL# 415 dt 0.320000 rms 0.542 0.045% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9150 tsec 4.1210 #GCMRL# 416 dt 0.320000 rms 0.542 0.076% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.5580 tsec 4.6890 #GCMRL# 417 dt 0.160000 rms 0.541 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6230 tsec 5.6090 #GCMRL# 418 dt 0.160000 rms 0.541 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.4430 tsec 4.6910 #GCMRL# 419 dt 0.160000 rms 0.541 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.4910 tsec 4.7030 #GCMRL# 420 dt 0.160000 rms 0.541 0.016% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6440 tsec 5.2010 #GCMRL# 421 dt 0.160000 rms 0.541 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8120 tsec 3.9140 #GCMRL# 422 dt 0.160000 rms 0.541 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3640 tsec 4.4620 #GCMRL# 423 dt 0.160000 rms 0.541 0.013% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.6610 tsec 4.2040 #GCMRL# 424 dt 0.160000 rms 0.540 0.020% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.7020 tsec 3.7630 #GCMRL# 425 dt 0.160000 rms 0.540 0.022% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3820 tsec 4.4850 #GCMRL# 426 dt 0.160000 rms 0.540 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.4010 tsec 4.5030 #GCMRL# 427 dt 0.160000 rms 0.540 0.030% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.7650 tsec 4.5540 #GCMRL# 428 dt 0.160000 rms 0.540 0.034% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.5940 tsec 4.7200 #GCMRL# 429 dt 0.160000 rms 0.540 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.7720 tsec 4.5320 #GCMRL# 430 dt 0.160000 rms 0.539 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.8440 tsec 4.0000 #GCMRL# 431 dt 0.160000 rms 0.539 0.031% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6480 tsec 4.8330 #GCMRL# 432 dt 0.160000 rms 0.539 0.023% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9090 tsec 4.0920 #GCMRL# 433 dt 0.160000 rms 0.539 0.020% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.5160 tsec 4.7480 #FOTS# QuadFit found better minimum quadopt=(dt=0.096,rms=0.539072) vs oldopt=(dt=0.08,rms=0.539072) #GCAMreg# pass 0 level1 0 level2 1 tsec 351.079 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=2.00 tol=5.00e-02, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=0.5,type=2, relabel=0, neg=no blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.539592 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.537625) vs oldopt=(dt=0.08,rms=0.538035) #GCMRL# 435 dt 0.112000 rms 0.538 0.365% neg 0 invalid 762 tFOTS 14.0140 tGradient 3.2610 tsec 18.3910 #GCMRL# 436 dt 0.320000 rms 0.534 0.586% neg 0 invalid 762 tFOTS 13.5980 tGradient 3.3830 tsec 18.0210 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.534109) vs oldopt=(dt=0.08,rms=0.534215) #GCMRL# 437 dt 0.112000 rms 0.534 0.069% neg 0 invalid 762 tFOTS 12.8880 tGradient 2.6510 tsec 18.4110 #GCMRL# 438 dt 0.320000 rms 0.533 0.156% neg 0 invalid 762 tFOTS 27.3730 tGradient 5.2760 tsec 35.2600 #FOTS# QuadFit found better minimum quadopt=(dt=0.112,rms=0.533174) vs oldopt=(dt=0.08,rms=0.533203) #GCMRL# 439 dt 0.112000 rms 0.533 0.000% neg 0 invalid 762 tFOTS 26.1180 tGradient 5.0160 tsec 33.4560 #GCMRL# 440 dt 0.112000 rms 0.533 0.017% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4170 tsec 5.7830 #GCMRL# 441 dt 0.112000 rms 0.533 0.024% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3290 tsec 4.4320 #GCMRL# 442 dt 0.112000 rms 0.533 0.026% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9790 tsec 4.4960 #GCMRL# 443 dt 0.112000 rms 0.533 0.023% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.7450 tsec 3.8560 #GCMRL# 444 dt 0.112000 rms 0.533 0.006% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.7130 tsec 4.8520 GCAMregister done in 119.076 min ********************* ALLOWING NEGATIVE NODES IN DEFORMATION******************************** noneg post Starting GCAMregister() label assignment complete, 0 changed (0.00%) npasses = 1, nlevels = 6 #pass# 1 of 1 ************************ enabling zero nodes setting smoothness cost coefficient to 0.008 #GCAMreg# pass 0 level1 5 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.01 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.530735 #FOTS# QuadFit found better minimum quadopt=(dt=0,rms=0.530204) vs oldopt=(dt=0,rms=0.530204) #GCMRL# 446 dt 0.000000 rms 0.530 0.100% neg 0 invalid 762 tFOTS 16.5510 tGradient 7.7560 tsec 25.3380 #GCAMreg# pass 0 level1 5 level2 1 tsec 53.624 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.01 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.530735 #FOTS# QuadFit found better minimum quadopt=(dt=129.472,rms=0.529806) vs oldopt=(dt=92.48,rms=0.529874) #GCMRL# 448 dt 129.472000 rms 0.530 0.175% neg 0 invalid 762 tFOTS 15.4570 tGradient 6.0670 tsec 22.6060 #FOTS# QuadFit found better minimum quadopt=(dt=4.624,rms=0.529799) vs oldopt=(dt=5.78,rms=0.529799) #GCMRL# 449 dt 4.624000 rms 0.530 0.000% neg 0 invalid 762 tFOTS 16.0030 tGradient 6.1240 tsec 23.2250 setting smoothness cost coefficient to 0.031 #GCAMreg# pass 0 level1 4 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.03 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.530356 #FOTS# QuadFit found better minimum quadopt=(dt=9.072,rms=0.529659) vs oldopt=(dt=6.48,rms=0.52969) #GCMRL# 451 dt 9.072000 rms 0.530 0.131% neg 0 invalid 762 tFOTS 16.1390 tGradient 5.0910 tsec 22.2890 #FOTS# QuadFit found better minimum quadopt=(dt=7.776,rms=0.529628) vs oldopt=(dt=6.48,rms=0.529629) #GCMRL# 452 dt 7.776000 rms 0.530 0.000% neg 0 invalid 762 tFOTS 16.1050 tGradient 4.5860 tsec 21.7810 #GCAMreg# pass 0 level1 4 level2 1 tsec 54.751 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.03 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.530137 #FOTS# QuadFit found better minimum quadopt=(dt=124.416,rms=0.527898) vs oldopt=(dt=103.68,rms=0.527959) #GCMRL# 454 dt 124.416000 rms 0.528 0.422% neg 0 invalid 762 tFOTS 16.7880 tGradient 4.6230 tsec 22.4710 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.527149) vs oldopt=(dt=25.92,rms=0.527228) #GCMRL# 455 dt 36.288000 rms 0.527 0.000% neg 0 invalid 762 tFOTS 16.5440 tGradient 4.5740 tsec 22.2800 #GCMRL# 456 dt 36.288000 rms 0.527 0.033% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.5400 tsec 5.6660 #GCMRL# 457 dt 36.288000 rms 0.527 0.058% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.7390 tsec 5.9110 #GCMRL# 458 dt 36.288000 rms 0.526 0.115% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4890 tsec 5.6330 #GCMRL# 459 dt 36.288000 rms 0.526 0.107% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4880 tsec 5.4910 #GCMRL# 460 dt 36.288000 rms 0.525 0.096% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4600 tsec 5.5630 #FOTS# QuadFit found better minimum quadopt=(dt=36.288,rms=0.524916) vs oldopt=(dt=25.92,rms=0.52493) setting smoothness cost coefficient to 0.118 #GCAMreg# pass 0 level1 3 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.12 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.525622 #FOTS# QuadFit found better minimum quadopt=(dt=23.7214,rms=0.523388) vs oldopt=(dt=32,rms=0.523652) #GCMRL# 462 dt 23.721393 rms 0.523 0.425% neg 0 invalid 762 tFOTS 16.5310 tGradient 3.8970 tsec 21.5110 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.522099) vs oldopt=(dt=32,rms=0.522189) #GCMRL# 463 dt 44.800000 rms 0.522 0.000% neg 0 invalid 762 tFOTS 16.4620 tGradient 3.8390 tsec 21.4440 #GCMRL# 464 dt 44.800000 rms 0.521 0.139% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9220 tsec 4.9190 iter 0, gcam->neg = 3 after 8 iterations, nbhd size=1, neg = 0 #GCMRL# 465 dt 44.800000 rms 0.520 0.287% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8470 tsec 9.8550 iter 0, gcam->neg = 4 after 7 iterations, nbhd size=1, neg = 0 #GCMRL# 466 dt 44.800000 rms 0.520 0.061% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9400 tsec 9.4220 iter 0, gcam->neg = 11 after 4 iterations, nbhd size=0, neg = 0 #GCMRL# 467 dt 44.800000 rms 0.520 -0.247% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.7720 tsec 8.6040 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.519284) vs oldopt=(dt=8,rms=0.519335) iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 468 dt 11.200000 rms 0.519 0.053% neg 0 invalid 762 tFOTS 16.0720 tGradient 3.9070 tsec 22.4290 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.518929) vs oldopt=(dt=32,rms=0.518964) iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 469 dt 44.800000 rms 0.519 0.065% neg 0 invalid 762 tFOTS 15.3560 tGradient 3.9500 tsec 21.8000 #FOTS# QuadFit found better minimum quadopt=(dt=44.8,rms=0.518303) vs oldopt=(dt=32,rms=0.518371) #GCMRL# 470 dt 44.800000 rms 0.518 0.125% neg 0 invalid 762 tFOTS 16.3250 tGradient 4.5550 tsec 21.9700 #FOTS# QuadFit found better minimum quadopt=(dt=6.4,rms=0.518276) vs oldopt=(dt=8,rms=0.518277) #GCAMreg# pass 0 level1 3 level2 1 tsec 166.733 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.12 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.518792 #FOTS# QuadFit found better minimum quadopt=(dt=38.3116,rms=0.513047) vs oldopt=(dt=32,rms=0.513138) #GCMRL# 472 dt 38.311637 rms 0.513 1.108% neg 0 invalid 762 tFOTS 16.1570 tGradient 3.6640 tsec 20.8830 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.511211) vs oldopt=(dt=32,rms=0.511293) #GCMRL# 473 dt 25.600000 rms 0.511 0.358% neg 0 invalid 762 tFOTS 16.1610 tGradient 3.8010 tsec 21.0360 #FOTS# QuadFit found better minimum quadopt=(dt=19.2,rms=0.510488) vs oldopt=(dt=32,rms=0.510667) #GCMRL# 474 dt 19.200000 rms 0.510 0.000% neg 0 invalid 762 tFOTS 16.3210 tGradient 3.8670 tsec 21.2570 #GCMRL# 475 dt 19.200000 rms 0.510 0.126% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8640 tsec 4.9010 #GCMRL# 476 dt 19.200000 rms 0.509 0.152% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6860 tsec 4.7790 #GCMRL# 477 dt 19.200000 rms 0.508 0.156% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.4580 tsec 5.5180 #GCMRL# 478 dt 19.200000 rms 0.508 0.134% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.6110 tsec 5.7120 #GCMRL# 479 dt 19.200000 rms 0.507 0.127% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8390 tsec 4.8970 #GCMRL# 480 dt 19.200000 rms 0.506 0.096% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8080 tsec 4.8410 #GCMRL# 481 dt 19.200000 rms 0.506 0.081% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8720 tsec 4.9290 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.505554) vs oldopt=(dt=32,rms=0.505557) #GCMRL# 482 dt 38.400000 rms 0.506 0.098% neg 0 invalid 762 tFOTS 16.2840 tGradient 3.9180 tsec 21.3010 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.505309) vs oldopt=(dt=8,rms=0.505343) #GCMRL# 483 dt 11.200000 rms 0.505 0.000% neg 0 invalid 762 tFOTS 15.3340 tGradient 3.9160 tsec 20.3980 #GCMRL# 484 dt 11.200000 rms 0.505 0.021% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8710 tsec 4.9030 #GCMRL# 485 dt 11.200000 rms 0.505 0.032% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.9160 tsec 4.9450 #GCMRL# 486 dt 11.200000 rms 0.505 0.035% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.7890 tsec 4.8260 #GCMRL# 487 dt 11.200000 rms 0.505 0.043% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.8290 tsec 4.9150 #GCMRL# 488 dt 11.200000 rms 0.504 0.050% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.7860 tsec 4.8300 #GCMRL# 489 dt 11.200000 rms 0.504 0.048% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.7860 tsec 4.8780 setting smoothness cost coefficient to 0.400 #GCAMreg# pass 0 level1 2 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.40 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.507286 #FOTS# QuadFit found better minimum quadopt=(dt=4.88889,rms=0.506303) vs oldopt=(dt=2.88,rms=0.506364) #GCMRL# 491 dt 4.888889 rms 0.506 0.194% neg 0 invalid 762 tFOTS 15.9700 tGradient 3.5550 tsec 20.6580 #FOTS# QuadFit found better minimum quadopt=(dt=8.55556,rms=0.505725) vs oldopt=(dt=11.52,rms=0.505804) #GCMRL# 492 dt 8.555556 rms 0.506 0.000% neg 0 invalid 762 tFOTS 16.3650 tGradient 3.4450 tsec 20.9280 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 493 dt 8.555556 rms 0.505 0.128% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.5150 tsec 5.5480 #GCMRL# 494 dt 8.555556 rms 0.504 0.124% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.4640 tsec 4.5320 iter 0, gcam->neg = 9 after 13 iterations, nbhd size=1, neg = 0 #GCMRL# 495 dt 8.555556 rms 0.504 0.047% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.4590 tsec 11.7240 #FOTS# QuadFit found better minimum quadopt=(dt=20.0816,rms=0.502051) vs oldopt=(dt=11.52,rms=0.502436) iter 0, gcam->neg = 266 after 25 iterations, nbhd size=1, neg = 0 #GCMRL# 496 dt 20.081633 rms 0.503 0.205% neg 0 invalid 762 tFOTS 16.2950 tGradient 3.4370 tsec 33.9440 #FOTS# QuadFit found better minimum quadopt=(dt=8.86056,rms=0.502342) vs oldopt=(dt=11.52,rms=0.50244) iter 0, gcam->neg = 6 after 10 iterations, nbhd size=1, neg = 0 #GCMRL# 497 dt 8.860558 rms 0.502 0.000% neg 0 invalid 762 tFOTS 16.2240 tGradient 3.4750 tsec 26.8760 iter 0, gcam->neg = 11 after 5 iterations, nbhd size=0, neg = 0 #GCMRL# 498 dt 8.860558 rms 0.502 0.057% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.5200 tsec 8.2050 iter 0, gcam->neg = 80 after 15 iterations, nbhd size=1, neg = 0 #GCMRL# 499 dt 8.860558 rms 0.502 0.042% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.3710 tsec 12.5780 iter 0, gcam->neg = 106 after 18 iterations, nbhd size=1, neg = 0 #GCMRL# 500 dt 8.860558 rms 0.502 0.054% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.5020 tsec 14.6020 iter 0, gcam->neg = 163 after 19 iterations, nbhd size=1, neg = 0 #GCMRL# 501 dt 8.860558 rms 0.501 0.069% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.6510 tsec 15.1370 iter 0, gcam->neg = 320 after 25 iterations, nbhd size=1, neg = 0 #GCAMreg# pass 0 level1 2 level2 1 tsec 197.432 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=0.40 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.501771 #FOTS# QuadFit found better minimum quadopt=(dt=11.3922,rms=0.497271) vs oldopt=(dt=11.52,rms=0.497271) iter 0, gcam->neg = 97 after 18 iterations, nbhd size=1, neg = 0 #GCMRL# 503 dt 11.392226 rms 0.498 0.793% neg 0 invalid 762 tFOTS 16.2910 tGradient 3.7160 tsec 30.6670 #FOTS# QuadFit found better minimum quadopt=(dt=8.19726,rms=0.496759) vs oldopt=(dt=11.52,rms=0.496998) iter 0, gcam->neg = 34 after 5 iterations, nbhd size=0, neg = 0 #GCMRL# 504 dt 8.197260 rms 0.497 0.000% neg 0 invalid 762 tFOTS 16.1170 tGradient 3.4770 tsec 24.1930 iter 0, gcam->neg = 18 after 9 iterations, nbhd size=1, neg = 0 #GCMRL# 505 dt 8.197260 rms 0.496 0.215% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.4960 tsec 10.0380 iter 0, gcam->neg = 25 after 9 iterations, nbhd size=0, neg = 0 #GCMRL# 506 dt 8.197260 rms 0.495 0.163% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.4780 tsec 9.7110 iter 0, gcam->neg = 42 after 19 iterations, nbhd size=1, neg = 0 #GCMRL# 507 dt 8.197260 rms 0.495 -0.078% neg 0 invalid 762 tFOTS 0.0000 tGradient 3.5690 tsec 16.0020 #FOTS# QuadFit found better minimum quadopt=(dt=2.304,rms=0.49485) vs oldopt=(dt=2.88,rms=0.494851) iter 0, gcam->neg = 3 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 508 dt 2.304000 rms 0.495 0.013% neg 0 invalid 762 tFOTS 16.5290 tGradient 3.4620 tsec 22.6290 #FOTS# QuadFit found better minimum quadopt=(dt=6.912,rms=0.494707) vs oldopt=(dt=11.52,rms=0.494756) iter 0, gcam->neg = 11 after 18 iterations, nbhd size=1, neg = 0 setting smoothness cost coefficient to 1.000 #GCAMreg# pass 0 level1 1 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=1.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.500722 #GCMRL# 510 dt 0.000000 rms 0.500 0.113% neg 0 invalid 762 tFOTS 15.2980 tGradient 3.2470 tsec 19.6140 #GCAMreg# pass 0 level1 1 level2 1 tsec 44.807 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=1.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.500722 #GCMRL# 512 dt 0.000000 rms 0.500 0.113% neg 0 invalid 762 tFOTS 15.2960 tGradient 3.3200 tsec 19.7080 resetting metric properties... setting smoothness cost coefficient to 2.000 #GCAMreg# pass 0 level1 0 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=2.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.491749 #FOTS# QuadFit found better minimum quadopt=(dt=1.77283,rms=0.454308) vs oldopt=(dt=1.28,rms=0.45747) iter 0, gcam->neg = 2578 after 19 iterations, nbhd size=1, neg = 0 #GCMRL# 514 dt 1.772826 rms 0.458 6.884% neg 0 invalid 762 tFOTS 16.5950 tGradient 2.6640 tsec 31.0380 #GCMRL# 515 dt 0.000013 rms 0.458 0.000% neg 0 invalid 762 tFOTS 20.6090 tGradient 2.7170 tsec 24.4090 #GCMRL# 516 dt 0.000013 rms 0.458 0.000% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.6250 tsec 3.6940 #GCAMreg# pass 0 level1 0 level2 1 tsec 67.986 sigma 0.5 l_jacobian=1.00 l_label=1.00 l_log_likelihood=0.20 l_smoothness=2.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.458551 #FOTS# QuadFit found better minimum quadopt=(dt=0.007,rms=0.457862) vs oldopt=(dt=0.005,rms=0.457863) #GCMRL# 518 dt 0.007000 rms 0.458 0.150% neg 0 invalid 762 tFOTS 16.5890 tGradient 2.6520 tsec 20.3100 #FOTS# QuadFit found better minimum quadopt=(dt=0.00175,rms=0.457863) vs oldopt=(dt=0.00125,rms=0.457863) label assignment complete, 0 changed (0.00%) GCAMregister done in 19.262 min Starting GCAMcomputeMaxPriorLabels() Morphing with label term set to 0 ******************************* Starting GCAMregister() label assignment complete, 0 changed (0.00%) npasses = 1, nlevels = 6 #pass# 1 of 1 ************************ enabling zero nodes setting smoothness cost coefficient to 0.008 #GCAMreg# pass 0 level1 5 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.01 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.44282 #GCAMreg# pass 0 level1 5 level2 1 tsec 30.29 sigma 0.5 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.01 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=256, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.44282 #FOTS# QuadFit found better minimum quadopt=(dt=55.488,rms=0.442773) vs oldopt=(dt=92.48,rms=0.442786) #GCMRL# 521 dt 55.488000 rms 0.443 0.010% neg 0 invalid 762 tFOTS 15.6270 tGradient 8.0140 tsec 24.7070 #FOTS# QuadFit found better minimum quadopt=(dt=73.984,rms=0.442764) vs oldopt=(dt=92.48,rms=0.442765) #GCMRL# 522 dt 73.984000 rms 0.443 0.000% neg 0 invalid 762 tFOTS 15.4110 tGradient 7.9320 tsec 24.3960 setting smoothness cost coefficient to 0.031 #GCAMreg# pass 0 level1 4 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.03 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.442949 #GCMRL# 524 dt 6.480000 rms 0.443 0.006% neg 0 invalid 762 tFOTS 16.3780 tGradient 4.0940 tsec 21.5060 #FOTS# QuadFit found better minimum quadopt=(dt=0.0014175,rms=0.442921) vs oldopt=(dt=0.0010125,rms=0.442921) #GCMRL# 525 dt 0.001417 rms 0.443 0.000% neg 0 invalid 762 tFOTS 20.6810 tGradient 4.1080 tsec 25.8210 #GCAMreg# pass 0 level1 4 level2 1 tsec 57.573 sigma 0.5 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.03 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=64, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.442921 #FOTS# QuadFit found better minimum quadopt=(dt=62.208,rms=0.442699) vs oldopt=(dt=103.68,rms=0.44277) iter 0, gcam->neg = 3 after 8 iterations, nbhd size=1, neg = 0 #GCMRL# 527 dt 62.208000 rms 0.443 0.043% neg 0 invalid 762 tFOTS 15.4070 tGradient 4.1770 tsec 25.5260 #FOTS# QuadFit found better minimum quadopt=(dt=82.944,rms=0.442592) vs oldopt=(dt=103.68,rms=0.442596) iter 0, gcam->neg = 13 after 9 iterations, nbhd size=1, neg = 0 #GCMRL# 528 dt 82.944000 rms 0.443 0.000% neg 0 invalid 762 tFOTS 15.4940 tGradient 4.1260 tsec 26.3160 iter 0, gcam->neg = 8 after 2 iterations, nbhd size=0, neg = 0 #GCMRL# 529 dt 82.944000 rms 0.443 0.006% neg 0 invalid 762 tFOTS 0.0000 tGradient 4.0760 tsec 7.1450 iter 0, gcam->neg = 12 after 14 iterations, nbhd size=1, neg = 0 setting smoothness cost coefficient to 0.118 #GCAMreg# pass 0 level1 3 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.12 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.443297 #FOTS# QuadFit found better minimum quadopt=(dt=11.2,rms=0.442632) vs oldopt=(dt=8,rms=0.442706) iter 0, gcam->neg = 34 after 16 iterations, nbhd size=1, neg = 0 #GCMRL# 531 dt 11.200000 rms 0.443 0.025% neg 0 invalid 762 tFOTS 16.3930 tGradient 3.3430 tsec 29.8590 iter 0, gcam->neg = 24 after 9 iterations, nbhd size=1, neg = 0 #GCMRL# 532 dt 8.000000 rms 0.443 0.000% neg 0 invalid 762 tFOTS 16.0720 tGradient 3.3610 tsec 25.9890 iter 0, gcam->neg = 22 after 11 iterations, nbhd size=1, neg = 0 #GCAMreg# pass 0 level1 3 level2 1 tsec 71.633 sigma 0.5 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.12 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=16, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.443145 #FOTS# QuadFit found better minimum quadopt=(dt=38.4,rms=0.441537) vs oldopt=(dt=32,rms=0.44156) iter 0, gcam->neg = 58 after 14 iterations, nbhd size=1, neg = 0 #GCMRL# 534 dt 38.400000 rms 0.443 0.069% neg 0 invalid 762 tFOTS 16.4180 tGradient 3.3160 tsec 28.7180 #FOTS# QuadFit found better minimum quadopt=(dt=25.6,rms=0.441989) vs oldopt=(dt=32,rms=0.441992) iter 0, gcam->neg = 42 after 11 iterations, nbhd size=1, neg = 0 #GCMRL# 535 dt 25.600000 rms 0.442 0.170% neg 0 invalid 762 tFOTS 16.5120 tGradient 3.3510 tsec 27.4010 iter 0, gcam->neg = 35 after 17 iterations, nbhd size=1, neg = 0 #GCMRL# 536 dt 32.000000 rms 0.442 0.000% neg 0 invalid 762 tFOTS 15.8530 tGradient 3.4140 tsec 29.7450 iter 0, gcam->neg = 30 after 23 iterations, nbhd size=2, neg = 0 setting smoothness cost coefficient to 0.400 #GCAMreg# pass 0 level1 2 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.40 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.444297 #FOTS# QuadFit found better minimum quadopt=(dt=10.9192,rms=0.441865) vs oldopt=(dt=11.52,rms=0.441873) iter 0, gcam->neg = 146 after 17 iterations, nbhd size=1, neg = 0 #GCMRL# 538 dt 10.919220 rms 0.443 0.380% neg 0 invalid 762 tFOTS 15.8780 tGradient 2.9320 tsec 29.1920 #FOTS# QuadFit found better minimum quadopt=(dt=13.5484,rms=0.441302) vs oldopt=(dt=11.52,rms=0.441334) iter 0, gcam->neg = 133 after 25 iterations, nbhd size=1, neg = 0 #GCMRL# 539 dt 13.548387 rms 0.443 0.000% neg 0 invalid 762 tFOTS 15.9380 tGradient 2.9170 tsec 34.5590 iter 0, gcam->neg = 133 after 25 iterations, nbhd size=1, neg = 0 #GCAMreg# pass 0 level1 2 level2 1 tsec 86.134 sigma 0.5 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=0.40 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=4, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.442608 #FOTS# QuadFit found better minimum quadopt=(dt=11.8693,rms=0.440012) vs oldopt=(dt=11.52,rms=0.440013) iter 0, gcam->neg = 84 after 23 iterations, nbhd size=1, neg = 0 #GCMRL# 541 dt 11.869281 rms 0.441 0.309% neg 0 invalid 762 tFOTS 16.0690 tGradient 2.9380 tsec 32.4550 #FOTS# QuadFit found better minimum quadopt=(dt=12.4545,rms=0.439689) vs oldopt=(dt=11.52,rms=0.4397) iter 0, gcam->neg = 95 after 25 iterations, nbhd size=1, neg = 0 #GCMRL# 542 dt 12.454545 rms 0.440 0.000% neg 0 invalid 762 tFOTS 15.9970 tGradient 3.0140 tsec 33.4950 iter 0, gcam->neg = 95 after 31 iterations, nbhd size=1, neg = 0 #GCMRL# 543 dt 12.454545 rms 0.439 0.247% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9810 tsec 20.2080 iter 0, gcam->neg = 185 after 30 iterations, nbhd size=1, neg = 0 #GCMRL# 544 dt 12.454545 rms 0.439 0.062% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9800 tsec 19.8200 iter 0, gcam->neg = 318 after 25 iterations, nbhd size=1, neg = 0 #GCMRL# 545 dt 12.454545 rms 0.439 -0.036% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.9540 tsec 18.1940 #FOTS# QuadFit found better minimum quadopt=(dt=9.15723,rms=0.438148) vs oldopt=(dt=11.52,rms=0.438197) iter 0, gcam->neg = 60 after 23 iterations, nbhd size=1, neg = 0 #GCMRL# 546 dt 9.157233 rms 0.438 0.125% neg 0 invalid 762 tFOTS 16.2940 tGradient 2.9550 tsec 32.6280 #FOTS# QuadFit found better minimum quadopt=(dt=12.8,rms=0.437717) vs oldopt=(dt=11.52,rms=0.437725) iter 0, gcam->neg = 72 after 23 iterations, nbhd size=1, neg = 0 setting smoothness cost coefficient to 1.000 #GCAMreg# pass 0 level1 1 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=1.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.444046 #FOTS# QuadFit found better minimum quadopt=(dt=6.25e-05,rms=0.444046) vs oldopt=(dt=7.8125e-05,rms=0.444046) #GCMRL# 548 dt 0.000063 rms 0.444 0.000% neg 0 invalid 762 tFOTS 18.5560 tGradient 2.6100 tsec 22.1330 #GCAMreg# pass 0 level1 1 level2 1 tsec 45.171 sigma 0.5 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=1.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=1, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.444046 resetting metric properties... setting smoothness cost coefficient to 2.000 #GCAMreg# pass 0 level1 0 level2 0 tsec 0 sigma 2 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=2.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=2.0,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=2.000... GCAMRegisterLevel(): init RMS 0.433683 #FOTS# QuadFit found better minimum quadopt=(dt=0.883178,rms=0.423434) vs oldopt=(dt=0.32,rms=0.427356) iter 0, gcam->neg = 1800 after 28 iterations, nbhd size=1, neg = 0 #GCMRL# 551 dt 0.883178 rms 0.428 1.264% neg 0 invalid 762 tFOTS 15.4080 tGradient 1.9720 tsec 31.5930 #FOTS# QuadFit found better minimum quadopt=(dt=0.064,rms=0.42807) vs oldopt=(dt=0.08,rms=0.428072) #GCMRL# 552 dt 0.064000 rms 0.428 0.000% neg 0 invalid 762 tFOTS 14.7820 tGradient 2.0470 tsec 17.8140 #GCMRL# 553 dt 0.064000 rms 0.428 0.013% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.0330 tsec 3.0230 #GCAMreg# pass 0 level1 0 level2 1 tsec 61.445 sigma 0.5 l_jacobian=1.00 l_log_likelihood=0.20 l_smoothness=2.00 tol=2.50e-01, dt=5.00e-02, exp_k=20.0, momentum=0.90, levels=6, niter=500, lbl_dist=10.00, avgs=0, sigma=0.5,type=2, relabel=0, neg=yes blurring input image with Gaussian with sigma=0.500... GCAMRegisterLevel(): init RMS 0.428014 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.425997) vs oldopt=(dt=0.32,rms=0.426101) iter 0, gcam->neg = 15 after 3 iterations, nbhd size=0, neg = 0 #GCMRL# 555 dt 0.448000 rms 0.426 0.467% neg 0 invalid 762 tFOTS 14.7760 tGradient 2.0150 tsec 19.9190 #FOTS# QuadFit found better minimum quadopt=(dt=0.448,rms=0.423801) vs oldopt=(dt=0.32,rms=0.424112) iter 0, gcam->neg = 80 after 3 iterations, nbhd size=0, neg = 0 #GCMRL# 556 dt 0.448000 rms 0.424 0.515% neg 0 invalid 762 tFOTS 14.7180 tGradient 1.9940 tsec 19.9320 iter 0, gcam->neg = 6 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 557 dt 0.320000 rms 0.423 0.000% neg 0 invalid 762 tFOTS 14.6770 tGradient 2.0040 tsec 18.5790 iter 0, gcam->neg = 4 after 0 iterations, nbhd size=0, neg = 0 #GCMRL# 558 dt 0.320000 rms 0.422 0.240% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.0030 tsec 3.8800 iter 0, gcam->neg = 18 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 559 dt 0.320000 rms 0.421 0.288% neg 0 invalid 762 tFOTS 0.0000 tGradient 2.7180 tsec 5.0520 iter 0, gcam->neg = 30 after 15 iterations, nbhd size=1, neg = 0 #GCMRL# 560 dt 0.320000 rms 0.420 0.226% neg 0 invalid 762 tFOTS 0.0000 tGradient 1.9280 tsec 10.5690 iter 0, gcam->neg = 70 after 19 iterations, nbhd size=1, neg = 0 #GCMRL# 561 dt 0.320000 rms 0.420 -0.014% neg 0 invalid 762 tFOTS 0.0000 tGradient 1.9890 tsec 13.2100 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=0.419201) vs oldopt=(dt=0.32,rms=0.419258) iter 0, gcam->neg = 3 after 1 iterations, nbhd size=0, neg = 0 #GCMRL# 562 dt 0.256000 rms 0.419 0.096% neg 0 invalid 762 tFOTS 14.7690 tGradient 1.9910 tsec 19.0960 #FOTS# QuadFit found better minimum quadopt=(dt=0.256,rms=0.41895) vs oldopt=(dt=0.32,rms=0.418995) iter 0, gcam->neg = 1 after 6 iterations, nbhd size=1, neg = 0 GCAMregister done in 15.7854 min writing output transformation to transforms/talairach.m3z... GCAMwrite Calls to gcamLogLikelihoodEnergy 4851 tmin = 27.3318 Calls to gcamLabelEnergy 4223 tmin = 1.76493 Calls to gcamJacobianEnergy 4851 tmin = 17.4992 Calls to gcamSmoothnessEnergy 4851 tmin = 22.6484 Calls to gcamLogLikelihoodTerm 564 tmin = 7.13885 Calls to gcamLabelTerm 520 tmin = 12.0693 Calls to gcamJacobianTerm 564 tmin = 15.4664 Calls to gcamSmoothnessTerm 564 tmin = 4.85945 Calls to gcamComputeGradient 564 tmin = 77.6733 Calls to gcamComputeMetricProperties 7158 tmin = 29.5098 mri_ca_register took 3 hours, 18 minutes and 5 seconds. #VMPC# mri_ca_register VmPeak 2025704 FSRUNTIME@ mri_ca_register 3.3015 hours 1 threads @#@FSTIME 2023:08:14:10:08:53 mri_ca_register N 9 e 11885.73 S 4.52 U 11708.87 P 98% M 1334928 F 0 R 1287923 W 0 c 268263 w 6 I 8 O 64624 L 4.72 3.79 3.39 @#@FSLOADPOST 2023:08:14:13:26:58 mri_ca_register N 9 3.28 3.29 3.87 #-------------------------------------- #@# SubCort Seg Mon 14 Aug 13:26:59 CEST 2023 mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca aseg.auto_noCCseg.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca aseg.auto_noCCseg.mgz relabeling unlikely voxels with window_size = 9 and prior threshold 0.30 using Gibbs prior factor = 0.500 renormalizing sequences with structure alignment, equivalent to: -renormalize -renormalize_mean 0.500 -regularize 0.500 == Number of threads available to for OpenMP = 1 == reading 1 input volumes reading classifier array from /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca reading input volume from norm.mgz average std[0] = 7.2 reading transform from transforms/talairach.m3z setting orig areas to linear transform determinant scaled 6.82 Atlas used for the 3D morph was /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca average std = 7.2 using min determinant for regularization = 5.2 0 singular and 0 ill-conditioned covariance matrices regularized labeling volume... renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.15521 (20) mri peak = 0.14733 (10) Left_Lateral_Ventricle (4): linear fit = 0.50 x + 0.0 (16558 voxels, overlap=0.028) Left_Lateral_Ventricle (4): linear fit = 0.50 x + 0.0 (16558 voxels, peak = 10), gca=10.1 gca peak = 0.20380 (13) mri peak = 0.15505 (12) Right_Lateral_Ventricle (43): linear fit = 0.69 x + 0.0 (17464 voxels, overlap=0.364) Right_Lateral_Ventricle (43): linear fit = 0.69 x + 0.0 (17464 voxels, peak = 9), gca=9.0 gca peak = 0.26283 (96) mri peak = 0.09171 (108) Right_Pallidum (52): linear fit = 1.09 x + 0.0 (560 voxels, overlap=0.025) Right_Pallidum (52): linear fit = 1.09 x + 0.0 (560 voxels, peak = 104), gca=104.2 gca peak = 0.15814 (97) mri peak = 0.11345 (105) Left_Pallidum (13): linear fit = 1.11 x + 0.0 (471 voxels, overlap=0.222) Left_Pallidum (13): linear fit = 1.11 x + 0.0 (471 voxels, peak = 107), gca=107.2 gca peak = 0.27624 (56) mri peak = 0.11423 (62) Right_Hippocampus (53): linear fit = 1.12 x + 0.0 (597 voxels, overlap=0.577) Right_Hippocampus (53): linear fit = 1.12 x + 0.0 (597 voxels, peak = 62), gca=62.4 gca peak = 0.28723 (59) mri peak = 0.08202 (65) Left_Hippocampus (17): linear fit = 1.14 x + 0.0 (653 voxels, overlap=0.267) Left_Hippocampus (17): linear fit = 1.14 x + 0.0 (653 voxels, peak = 68), gca=67.6 gca peak = 0.07623 (103) mri peak = 0.07079 (105) Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (22810 voxels, overlap=0.665) Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (22810 voxels, peak = 106), gca=105.6 gca peak = 0.07837 (105) mri peak = 0.07509 (106) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (22550 voxels, overlap=0.666) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (22550 voxels, peak = 108), gca=107.6 gca peak = 0.10165 (58) mri peak = 0.03905 (68) Left_Cerebral_Cortex (3): linear fit = 1.15 x + 0.0 (14561 voxels, overlap=0.449) Left_Cerebral_Cortex (3): linear fit = 1.15 x + 0.0 (14561 voxels, peak = 67), gca=67.0 gca peak = 0.11113 (58) mri peak = 0.04124 (67) Right_Cerebral_Cortex (42): linear fit = 1.10 x + 0.0 (14443 voxels, overlap=0.917) Right_Cerebral_Cortex (42): linear fit = 1.10 x + 0.0 (14443 voxels, peak = 64), gca=63.5 gca peak = 0.27796 (67) mri peak = 0.07989 (82) Right_Caudate (50): linear fit = 1.21 x + 0.0 (1078 voxels, overlap=0.023) Right_Caudate (50): linear fit = 1.21 x + 0.0 (1078 voxels, peak = 81), gca=80.7 gca peak = 0.14473 (69) mri peak = 0.13217 (73) Left_Caudate (11): linear fit = 1.02 x + 0.0 (720 voxels, overlap=0.940) Left_Caudate (11): linear fit = 1.02 x + 0.0 (720 voxels, peak = 71), gca=70.7 gca peak = 0.14301 (56) mri peak = 0.04996 (59) Left_Cerebellum_Cortex (8): linear fit = 1.07 x + 0.0 (13117 voxels, overlap=0.960) Left_Cerebellum_Cortex (8): linear fit = 1.07 x + 0.0 (13117 voxels, peak = 60), gca=59.6 gca peak = 0.14610 (55) mri peak = 0.05695 (55) Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (14112 voxels, overlap=0.997) Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (14112 voxels, peak = 54), gca=54.2 gca peak = 0.16309 (85) mri peak = 0.11125 (96) Left_Cerebellum_White_Matter (7): linear fit = 1.13 x + 0.0 (5244 voxels, overlap=0.003) Left_Cerebellum_White_Matter (7): linear fit = 1.13 x + 0.0 (5244 voxels, peak = 96), gca=96.5 gca peak = 0.15172 (84) mri peak = 0.09658 (90) Right_Cerebellum_White_Matter (46): linear fit = 1.11 x + 0.0 (5020 voxels, overlap=0.366) Right_Cerebellum_White_Matter (46): linear fit = 1.11 x + 0.0 (5020 voxels, peak = 93), gca=92.8 gca peak = 0.30461 (58) mri peak = 0.08662 (62) Left_Amygdala (18): linear fit = 1.04 x + 0.0 (398 voxels, overlap=1.023) Left_Amygdala (18): linear fit = 1.04 x + 0.0 (398 voxels, peak = 61), gca=60.6 gca peak = 0.32293 (57) mri peak = 0.10321 (65) Right_Amygdala (54): linear fit = 1.12 x + 0.0 (434 voxels, overlap=0.579) Right_Amygdala (54): linear fit = 1.12 x + 0.0 (434 voxels, peak = 64), gca=63.6 gca peak = 0.11083 (90) mri peak = 0.05693 (93) Left_Thalamus (10): linear fit = 1.05 x + 0.0 (2999 voxels, overlap=0.912) Left_Thalamus (10): linear fit = 1.05 x + 0.0 (2999 voxels, peak = 95), gca=94.9 gca peak = 0.11393 (83) mri peak = 0.06433 (86) Right_Thalamus (49): linear fit = 1.04 x + 0.0 (2576 voxels, overlap=0.923) Right_Thalamus (49): linear fit = 1.04 x + 0.0 (2576 voxels, peak = 87), gca=86.7 gca peak = 0.08575 (81) mri peak = 0.06792 (83) Left_Putamen (12): linear fit = 1.01 x + 0.0 (1121 voxels, overlap=0.795) Left_Putamen (12): linear fit = 1.01 x + 0.0 (1121 voxels, peak = 82), gca=82.2 gca peak = 0.08618 (78) mri peak = 0.09333 (81) Right_Putamen (51): linear fit = 1.07 x + 0.0 (1215 voxels, overlap=0.809) Right_Putamen (51): linear fit = 1.07 x + 0.0 (1215 voxels, peak = 83), gca=83.1 gca peak = 0.08005 (78) mri peak = 0.04956 (92) Brain_Stem (16): linear fit = 1.18 x + 0.0 (9662 voxels, overlap=0.235) Brain_Stem (16): linear fit = 1.18 x + 0.0 (9662 voxels, peak = 92), gca=92.4 gca peak = 0.12854 (88) mri peak = 0.09343 (103) Right_VentralDC (60): linear fit = 1.21 x + 0.0 (828 voxels, overlap=0.015) Right_VentralDC (60): linear fit = 1.21 x + 0.0 (828 voxels, peak = 106), gca=106.0 gca peak = 0.15703 (87) mri peak = 0.10912 (108) Left_VentralDC (28): linear fit = 1.21 x + 0.0 (883 voxels, overlap=0.012) Left_VentralDC (28): linear fit = 1.21 x + 0.0 (883 voxels, peak = 105), gca=104.8 gca peak = 0.17522 (25) mri peak = 0.19670 (12) Third_Ventricle (14): linear fit = 0.41 x + 0.0 (203 voxels, overlap=0.054) Third_Ventricle (14): linear fit = 0.41 x + 0.0 (203 voxels, peak = 10), gca=10.1 gca peak = 0.17113 (14) mri peak = 0.25194 ( 9) Fourth_Ventricle (15): linear fit = 0.56 x + 0.0 (316 voxels, overlap=0.399) Fourth_Ventricle (15): linear fit = 0.56 x + 0.0 (316 voxels, peak = 8), gca=7.9 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.16627 (28) gca peak Third_Ventricle = 0.17522 (25) gca peak Fourth_Ventricle = 0.17113 (14) gca peak CSF = 0.20346 (36) gca peak Left_Accumbens_area = 0.70646 (62) gca peak Left_undetermined = 1.00000 (28) gca peak Left_vessel = 0.89917 (53) gca peak Left_choroid_plexus = 0.11689 (35) gca peak Right_Inf_Lat_Vent = 0.25504 (23) gca peak Right_Accumbens_area = 0.31650 (65) gca peak Right_vessel = 0.77268 (52) gca peak Right_choroid_plexus = 0.13275 (38) gca peak Fifth_Ventricle = 0.60973 (33) gca peak WM_hypointensities = 0.11013 (77) gca peak non_WM_hypointensities = 0.11354 (41) gca peak Optic_Chiasm = 0.51646 (76) not using caudate to estimate GM means estimating mean gm scale to be 1.11 x + 0.0 estimating mean wm scale to be 1.02 x + 0.0 estimating mean csf scale to be 0.60 x + 0.0 Left_Pallidum too bright - rescaling by 0.965 (from 1.105) to 103.4 (was 107.2) Right_Pallidum too bright - rescaling by 0.993 (from 1.085) to 103.4 (was 104.2) saving intensity scales to aseg.auto_noCCseg.label_intensities.txt renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.29252 ( 9) mri peak = 0.14733 (10) Left_Lateral_Ventricle (4): linear fit = 1.04 x + 0.0 (16558 voxels, overlap=0.888) Left_Lateral_Ventricle (4): linear fit = 1.04 x + 0.0 (16558 voxels, peak = 9), gca=9.4 gca peak = 0.27069 ( 9) mri peak = 0.15505 (12) Right_Lateral_Ventricle (43): linear fit = 1.05 x + 0.0 (17464 voxels, overlap=0.674) Right_Lateral_Ventricle (43): linear fit = 1.05 x + 0.0 (17464 voxels, peak = 9), gca=9.5 gca peak = 0.21308 (103) mri peak = 0.09171 (108) Right_Pallidum (52): linear fit = 1.02 x + 0.0 (560 voxels, overlap=1.003) Right_Pallidum (52): linear fit = 1.02 x + 0.0 (560 voxels, peak = 106), gca=105.6 gca peak = 0.15540 (101) mri peak = 0.11345 (105) Left_Pallidum (13): linear fit = 1.05 x + 0.0 (471 voxels, overlap=0.955) Left_Pallidum (13): linear fit = 1.05 x + 0.0 (471 voxels, peak = 107), gca=106.6 gca peak = 0.27444 (62) mri peak = 0.11423 (62) Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (597 voxels, overlap=0.998) Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (597 voxels, peak = 62), gca=62.0 gca peak = 0.24344 (65) mri peak = 0.08202 (65) Left_Hippocampus (17): linear fit = 0.95 x + 0.0 (653 voxels, overlap=1.004) Left_Hippocampus (17): linear fit = 0.95 x + 0.0 (653 voxels, peak = 62), gca=62.1 gca peak = 0.07796 (106) mri peak = 0.07079 (105) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (22810 voxels, overlap=0.764) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (22810 voxels, peak = 105), gca=105.5 gca peak = 0.07736 (107) mri peak = 0.07509 (106) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (22550 voxels, overlap=0.774) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (22550 voxels, peak = 107), gca=107.0 gca peak = 0.08675 (67) mri peak = 0.03905 (68) Left_Cerebral_Cortex (3): linear fit = 1.03 x + 0.0 (14561 voxels, overlap=0.962) Left_Cerebral_Cortex (3): linear fit = 1.03 x + 0.0 (14561 voxels, peak = 69), gca=69.3 gca peak = 0.10322 (64) mri peak = 0.04124 (67) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (14443 voxels, overlap=0.979) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (14443 voxels, peak = 66), gca=65.6 gca peak = 0.21063 (80) mri peak = 0.07989 (82) Right_Caudate (50): linear fit = 0.99 x + 0.0 (1078 voxels, overlap=1.001) Right_Caudate (50): linear fit = 0.99 x + 0.0 (1078 voxels, peak = 79), gca=78.8 gca peak = 0.12693 (70) mri peak = 0.13217 (73) Left_Caudate (11): linear fit = 0.99 x + 0.0 (720 voxels, overlap=0.912) Left_Caudate (11): linear fit = 0.99 x + 0.0 (720 voxels, peak = 69), gca=69.0 gca peak = 0.13001 (60) mri peak = 0.04996 (59) Left_Cerebellum_Cortex (8): linear fit = 1.02 x + 0.0 (13117 voxels, overlap=0.999) Left_Cerebellum_Cortex (8): linear fit = 1.02 x + 0.0 (13117 voxels, peak = 62), gca=61.5 gca peak = 0.14118 (55) mri peak = 0.05695 (55) Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (14112 voxels, overlap=0.998) Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (14112 voxels, peak = 54), gca=54.2 gca peak = 0.15417 (96) mri peak = 0.11125 (96) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (5244 voxels, overlap=0.934) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (5244 voxels, peak = 96), gca=95.5 gca peak = 0.14250 (93) mri peak = 0.09658 (90) Right_Cerebellum_White_Matter (46): linear fit = 0.99 x + 0.0 (5020 voxels, overlap=0.948) Right_Cerebellum_White_Matter (46): linear fit = 0.99 x + 0.0 (5020 voxels, peak = 92), gca=91.6 gca peak = 0.29374 (61) mri peak = 0.08662 (62) Left_Amygdala (18): linear fit = 1.10 x + 0.0 (398 voxels, overlap=1.012) Left_Amygdala (18): linear fit = 1.10 x + 0.0 (398 voxels, peak = 67), gca=66.8 gca peak = 0.31839 (64) mri peak = 0.10321 (65) Right_Amygdala (54): linear fit = 1.00 x + 0.0 (434 voxels, overlap=0.910) Right_Amygdala (54): linear fit = 1.00 x + 0.0 (434 voxels, peak = 64), gca=64.0 gca peak = 0.10563 (93) mri peak = 0.05693 (93) Left_Thalamus (10): linear fit = 0.99 x + 0.0 (2999 voxels, overlap=0.965) Left_Thalamus (10): linear fit = 0.99 x + 0.0 (2999 voxels, peak = 92), gca=91.6 gca peak = 0.10025 (87) mri peak = 0.06433 (86) Right_Thalamus (49): linear fit = 0.98 x + 0.0 (2576 voxels, overlap=0.983) Right_Thalamus (49): linear fit = 0.98 x + 0.0 (2576 voxels, peak = 85), gca=84.8 gca peak = 0.08227 (82) mri peak = 0.06792 (83) Left_Putamen (12): linear fit = 1.01 x + 0.0 (1121 voxels, overlap=0.841) Left_Putamen (12): linear fit = 1.01 x + 0.0 (1121 voxels, peak = 83), gca=83.2 gca peak = 0.08516 (83) mri peak = 0.09333 (81) Right_Putamen (51): linear fit = 0.99 x + 0.0 (1215 voxels, overlap=0.930) Right_Putamen (51): linear fit = 0.99 x + 0.0 (1215 voxels, peak = 82), gca=81.8 gca peak = 0.07902 (93) mri peak = 0.04956 (92) Brain_Stem (16): linear fit = 1.02 x + 0.0 (9662 voxels, overlap=0.907) Brain_Stem (16): linear fit = 1.02 x + 0.0 (9662 voxels, peak = 95), gca=95.3 gca peak = 0.10851 (106) mri peak = 0.09343 (103) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (828 voxels, overlap=0.774) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (828 voxels, peak = 106), gca=106.0 gca peak = 0.13193 (103) mri peak = 0.10912 (108) Left_VentralDC (28): linear fit = 1.01 x + 0.0 (883 voxels, overlap=0.810) Left_VentralDC (28): linear fit = 1.01 x + 0.0 (883 voxels, peak = 105), gca=104.5 gca peak = 0.30294 (16) mri peak = 0.19670 (12) Third_Ventricle (14): linear fit = 0.68 x + 0.0 (203 voxels, overlap=0.736) Third_Ventricle (14): linear fit = 0.68 x + 0.0 (203 voxels, peak = 11), gca=10.8 gca peak = 0.23653 ( 9) mri peak = 0.25194 ( 9) Fourth_Ventricle (15): linear fit = 0.85 x + 0.0 (316 voxels, overlap=0.879) Fourth_Ventricle (15): linear fit = 0.85 x + 0.0 (316 voxels, peak = 8), gca=7.6 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.17659 (32) gca peak CSF = 0.23546 (22) gca peak Left_Accumbens_area = 0.81827 (64) gca peak Left_undetermined = 1.00000 (28) gca peak Left_vessel = 0.89837 (53) gca peak Left_choroid_plexus = 0.11689 (35) gca peak Right_Inf_Lat_Vent = 0.27261 (26) gca peak Right_Accumbens_area = 0.29049 (78) gca peak Right_vessel = 0.77268 (52) gca peak Right_choroid_plexus = 0.13275 (38) gca peak Fifth_Ventricle = 0.60735 (20) gca peak WM_hypointensities = 0.10788 (78) gca peak non_WM_hypointensities = 0.11377 (42) gca peak Optic_Chiasm = 0.54515 (76) not using caudate to estimate GM means estimating mean gm scale to be 1.02 x + 0.0 estimating mean wm scale to be 1.00 x + 0.0 estimating mean csf scale to be 0.90 x + 0.0 Left_Pallidum too bright - rescaling by 0.967 (from 1.055) to 103.0 (was 106.6) Right_Pallidum too bright - rescaling by 0.976 (from 1.025) to 103.0 (was 105.6) saving intensity scales to aseg.auto_noCCseg.label_intensities.txt saving sequentially combined intensity scales to aseg.auto_noCCseg.label_intensities.txt 45015 voxels changed in iteration 0 of unlikely voxel relabeling 88 voxels changed in iteration 1 of unlikely voxel relabeling 0 voxels changed in iteration 2 of unlikely voxel relabeling 34830 gm and wm labels changed (%28 to gray, %72 to white out of all changed labels) 377 hippocampal voxels changed. 0 amygdala voxels changed. Reclassifying using Gibbs Priors pass 1: 62449 changed. image ll: -2.338, PF=0.500 pass 2: 13706 changed. image ll: -2.338, PF=0.500 pass 3: 3906 changed. 28655 voxels changed in iteration 0 of unlikely voxel relabeling 58 voxels changed in iteration 1 of unlikely voxel relabeling 0 voxels changed in iteration 2 of unlikely voxel relabeling 4919 voxels changed in iteration 0 of unlikely voxel relabeling 73 voxels changed in iteration 1 of unlikely voxel relabeling 0 voxels changed in iteration 2 of unlikely voxel relabeling 5068 voxels changed in iteration 0 of unlikely voxel relabeling 52 voxels changed in iteration 1 of unlikely voxel relabeling 1 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 4729 voxels changed in iteration 0 of unlikely voxel relabeling 37 voxels changed in iteration 1 of unlikely voxel relabeling 0 voxels changed in iteration 2 of unlikely voxel relabeling !!!!!!!!! ventricle segment 2 with volume 40231 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 0 with volume 2119 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 1 with volume 41821 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 0 with volume 1558 above threshold 100 - not erasing !!!!!!!!!! writing labeled volume to aseg.auto_noCCseg.mgz mri_ca_label utimesec 2384.105409 mri_ca_label stimesec 1.611863 mri_ca_label ru_maxrss 2107000 mri_ca_label ru_ixrss 0 mri_ca_label ru_idrss 0 mri_ca_label ru_isrss 0 mri_ca_label ru_minflt 1123245 mri_ca_label ru_majflt 0 mri_ca_label ru_nswap 0 mri_ca_label ru_inblock 0 mri_ca_label ru_oublock 696 mri_ca_label ru_msgsnd 0 mri_ca_label ru_msgrcv 0 mri_ca_label ru_nsignals 0 mri_ca_label ru_nvcsw 0 mri_ca_label ru_nivcsw 10023 auto-labeling took 39 minutes and 46 seconds. @#@FSTIME 2023:08:14:13:26:59 mri_ca_label N 10 e 2386.10 S 1.76 U 2384.10 P 99% M 2107000 F 0 R 1123248 W 0 c 10023 w 1 I 0 O 696 L 3.28 3.29 3.87 @#@FSLOADPOST 2023:08:14:14:06:45 mri_ca_label N 10 3.06 3.06 3.13 #-------------------------------------- #@# CC Seg Mon 14 Aug 14:06:45 CEST 2023 mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/cc_up.lta sub-073_ses-BSL /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) will read input aseg from aseg.auto_noCCseg.mgz writing aseg with cc labels to aseg.auto.mgz will write lta as /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/cc_up.lta reading aseg from /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/aseg.auto_noCCseg.mgz reading norm from /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/norm.mgz 42297 voxels in left wm, 25537 in right wm, xrange [121, 134] searching rotation angles z=[-2 12], y=[-12 2] searching scale 1 Z rot -1.6 searching scale 1 Z rot -1.4 searching scale 1 Z rot -1.1 searching scale 1 Z rot -0.9 searching scale 1 Z rot -0.6 searching scale 1 Z rot -0.4 searching scale 1 Z rot -0.1 searching scale 1 Z rot 0.1 searching scale 1 Z rot 0.4 searching scale 1 Z rot 0.6 searching scale 1 Z rot 0.9 searching scale 1 Z rot 1.1 searching scale 1 Z rot 1.4 searching scale 1 Z rot 1.6 searching scale 1 Z rot 1.9 searching scale 1 Z rot 2.1 searching scale 1 Z rot 2.4 searching scale 1 Z rot 2.6 searching scale 1 Z rot 2.9 searching scale 1 Z rot 3.1 searching scale 1 Z rot 3.4 searching scale 1 Z rot 3.6 searching scale 1 Z rot 3.9 searching scale 1 Z rot 4.1 searching scale 1 Z rot 4.4 searching scale 1 Z rot 4.6 searching scale 1 Z rot 4.9 searching scale 1 Z rot 5.1 searching scale 1 Z rot 5.4 searching scale 1 Z rot 5.6 searching scale 1 Z rot 5.9 searching scale 1 Z rot 6.1 searching scale 1 Z rot 6.4 searching scale 1 Z rot 6.6 searching scale 1 Z rot 6.9 searching scale 1 Z rot 7.1 searching scale 1 Z rot 7.4 searching scale 1 Z rot 7.6 searching scale 1 Z rot 7.9 searching scale 1 Z rot 8.1 searching scale 1 Z rot 8.4 searching scale 1 Z rot 8.6 searching scale 1 Z rot 8.9 searching scale 1 Z rot 9.1 searching scale 1 Z rot 9.4 searching scale 1 Z rot 9.6 searching scale 1 Z rot 9.9 searching scale 1 Z rot 10.1 searching scale 1 Z rot 10.4 searching scale 1 Z rot 10.6 searching scale 1 Z rot 10.9 searching scale 1 Z rot 11.1 searching scale 1 Z rot 11.4 searching scale 1 Z rot 11.6 searching scale 1 Z rot 11.9 global minimum found at slice 125.0, rotations (-4.29, 5.13) final transformation (x=125.0, yr=-4.285, zr=5.133): 0.99320 -0.08947 -0.07442 22.05934; 0.08922 0.99599 -0.00669 -9.02862; 0.07472 -0.00000 0.99720 26.91720; 0.00000 0.00000 0.00000 1.00000; updating x range to be [125, 131] in xformed coordinates best xformed slice 127 min_x_fornix = 144 min_x_fornix = 138 min_x_fornix = 139 min_x_fornix = 139 min_x_fornix = 138 cc center is found at 127 127 92 eigenvectors: 0.00016 0.00901 0.99996; -0.19809 -0.98014 0.00886; 0.98018 -0.19808 0.00163; error in mid anterior detected - correcting... error in mid anterior detected - correcting... writing aseg with callosum to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/aseg.auto.mgz... corpus callosum segmentation took 0.6 minutes #VMPC# mri_cc VmPeak 439280 mri_cc done @#@FSTIME 2023:08:14:14:06:45 mri_cc N 7 e 35.46 S 0.34 U 35.11 P 99% M 344864 F 0 R 277425 W 0 c 118 w 1 I 0 O 680 L 3.06 3.06 3.13 @#@FSLOADPOST 2023:08:14:14:07:20 mri_cc N 7 3.32 3.12 3.15 #-------------------------------------- #@# Merge ASeg Mon 14 Aug 14:07:20 CEST 2023 cp aseg.auto.mgz aseg.presurf.mgz #-------------------------------------------- #@# Intensity Normalization2 Mon 14 Aug 14:07:20 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_normalize -seed 1234 -mprage -aseg aseg.presurf.mgz -mask brainmask.mgz norm.mgz brain.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 assuming input volume is MGH (Van der Kouwe) MP-RAGE using segmentation for initial intensity normalization using MR volume brainmask.mgz to mask input volume... reading mri_src from norm.mgz... Reading aseg aseg.presurf.mgz normalizing image... NOT doing gentle normalization with control points/label processing with aseg removing outliers in the aseg WM... 732 control points removed Building bias image building Voronoi diagram... performing soap bubble smoothing, sigma = 0... Smoothing with sigma 8 Applying bias correction building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Iterating 2 times --------------------------------- 3d normalization pass 1 of 2 white matter peak found at 110 white matter peak found at 108 gm peak at 69 (69), valley at 44 (44) csf peak at 10, setting threshold to 49 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... --------------------------------- 3d normalization pass 2 of 2 white matter peak found at 110 white matter peak found at 110 gm peak at 68 (68), valley at 44 (44) csf peak at 10, setting threshold to 48 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to brain.mgz 3D bias adjustment took 2 minutes and 42 seconds. @#@FSTIME 2023:08:14:14:07:20 mri_normalize N 9 e 164.89 S 1.43 U 163.44 P 99% M 1210244 F 0 R 635100 W 0 c 550 w 1 I 0 O 3032 L 3.32 3.12 3.15 @#@FSLOADPOST 2023:08:14:14:10:05 mri_normalize N 9 3.57 3.25 3.19 #-------------------------------------------- #@# Mask BFS Mon 14 Aug 14:10:05 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) threshold mask volume at 5 DoAbs = 0 Found 1693861 voxels in mask (pct= 10.10) Writing masked volume to brain.finalsurfs.mgz...done. @#@FSTIME 2023:08:14:14:10:05 mri_mask N 5 e 1.47 S 0.03 U 1.44 P 99% M 74564 F 0 R 17268 W 0 c 9 w 1 I 0 O 2960 L 3.57 3.25 3.19 @#@FSLOADPOST 2023:08:14:14:10:07 mri_mask N 5 3.60 3.27 3.19 #-------------------------------------------- #@# WM Segmentation Mon 14 Aug 14:10:07 CEST 2023 AntsDenoiseImageFs -i brain.mgz -o antsdn.brain.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) @#@FSTIME 2023:08:14:14:10:07 AntsDenoiseImageFs N 4 e 51.23 S 0.12 U 51.10 P 99% M 350952 F 0 R 86504 W 0 c 333 w 1 I 0 O 3040 L 3.60 3.27 3.19 @#@FSLOADPOST 2023:08:14:14:10:58 AntsDenoiseImageFs N 4 3.33 3.24 3.18 mri_segment -wsizemm 13 -mprage antsdn.brain.mgz wm.seg.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) wsizemm = 13, voxres = 1, wsize = 13 Widening wm low from 89 to 79 assuming input volume is MGH (Van der Kouwe) MP-RAGE wm mean: 110 wsize: 13 wm low: 79 wm hi: 125 gray low: 30 gray hi: 99 Doing initial trinary intensity segmentation Using local statistics to label ambiguous voxels Autodetecting stats Computing class statistics for intensity windows... CCS WM (103.0): 104.2 +- 6.1 [79.0 --> 125.0] CCS GM (70.0) : 66.7 +- 12.6 [30.0 --> 95.0] white_mean 104.213 white_sigma 6.08817 gray_mean 66.6546 gray_sigma 12.6301 setting bottom of white matter range wm_low to 79.3 setting top of gray matter range gray_hi to 91.9 wm_low 79.2847 wm_hi 125 gray_low 30 gray_hi 91.9149 Redoing initial intensity segmentation... Recomputing local statistics to label ambiguous voxels... wm_low 79.2847 wm_hi 125 gray_low 30 gray_hi 91.9149 using local geometry to label remaining ambiguous voxels... polvwsize = 5, polvlen = 3, gray_hi = 91.9149, wm_low = 79.2847 MRIcpolvMedianCurveSegment(): wsize=5, len=3, gmhi=91.9149, wmlow=79.2847 146125 voxels processed (0.87%) 72806 voxels white (0.43%) 73319 voxels non-white (0.44%) Reclassifying voxels using Gaussian border classifier niter=1 MRIreclassify(): wm_low=74.2847, gray_hi=91.9149, wsize=13 226717 voxels tested (1.35%) 51505 voxels changed (0.31%) 42745 multi-scale searches (0.25%) Recovering bright white MRIrecoverBrightWhite() wm_low 79.2847 wm_hi 125 slack 6.08817 pct_thresh 0.33 intensity_thresh 131.088 nvox_thresh 8.58 1205 voxels tested (0.01%) 941 voxels changed (0.01%) removing voxels with positive offset direction... MRIremoveWrongDirection() wsize=3, lowthr=74.2847, hithr=91.9149 smoothing input volume with sigma = 0.250 111393 voxels tested (0.66%) 16867 voxels changed (0.10%) thicken = 1 removing 1-dimensional structures... MRIremove1dStructures(): max_iter=10000, thresh=2, WM_MIN_VAL=5 3457 sparsely connected voxels removed in 1 iterations thickening thin strands.... thickness 4 nsegments 20 wm_hi 125 2241 diagonally connected voxels added... MRIthickenThinWMStrands(): thickness=4, nsegments=20 20 segments, 3464 filled MRIfindBrightNonWM(): 3270 bright non-wm voxels segmented. MRIfilterMorphology() WM_MIN_VAL=5, DIAGONAL_FILL=230 white matter segmentation took 1.3 minutes writing output to wm.seg.mgz... @#@FSTIME 2023:08:14:14:10:58 mri_segment N 5 e 75.83 S 0.37 U 75.45 P 99% M 132348 F 0 R 298853 W 0 c 298 w 1 I 0 O 864 L 3.33 3.24 3.18 @#@FSLOADPOST 2023:08:14:14:12:14 mri_segment N 5 3.35 3.27 3.20 mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) preserving editing changes in input volume... auto filling took 0.51 minutes reading wm segmentation from wm.seg.mgz... 0 voxels added to wm to prevent paths from MTL structures to cortex 6486 additional wm voxels added 0 additional wm voxels added SEG EDIT: 147449 voxels turned on, 39498 voxels turned off. propagating editing to output volume from wm.seg.mgz writing edited volume to wm.asegedit.mgz.... @#@FSTIME 2023:08:14:14:12:14 mri_edit_wm_with_aseg N 5 e 30.35 S 0.34 U 30.00 P 99% M 462272 F 0 R 317130 W 0 c 159 w 1 I 0 O 792 L 3.35 3.27 3.20 @#@FSLOADPOST 2023:08:14:14:12:44 mri_edit_wm_with_aseg N 5 3.33 3.28 3.20 mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Iteration Number : 1 pass 1 (xy+): 21 found - 21 modified | TOTAL: 21 pass 2 (xy+): 0 found - 21 modified | TOTAL: 21 pass 1 (xy-): 34 found - 34 modified | TOTAL: 55 pass 2 (xy-): 0 found - 34 modified | TOTAL: 55 pass 1 (yz+): 16 found - 16 modified | TOTAL: 71 pass 2 (yz+): 0 found - 16 modified | TOTAL: 71 pass 1 (yz-): 23 found - 23 modified | TOTAL: 94 pass 2 (yz-): 0 found - 23 modified | TOTAL: 94 pass 1 (xz+): 21 found - 21 modified | TOTAL: 115 pass 2 (xz+): 0 found - 21 modified | TOTAL: 115 pass 1 (xz-): 16 found - 16 modified | TOTAL: 131 pass 2 (xz-): 0 found - 16 modified | TOTAL: 131 Iteration Number : 1 pass 1 (+++): 8 found - 8 modified | TOTAL: 8 pass 2 (+++): 0 found - 8 modified | TOTAL: 8 pass 1 (+++): 11 found - 11 modified | TOTAL: 19 pass 2 (+++): 0 found - 11 modified | TOTAL: 19 pass 1 (+++): 2 found - 2 modified | TOTAL: 21 pass 2 (+++): 0 found - 2 modified | TOTAL: 21 pass 1 (+++): 9 found - 9 modified | TOTAL: 30 pass 2 (+++): 0 found - 9 modified | TOTAL: 30 Iteration Number : 1 pass 1 (++): 72 found - 72 modified | TOTAL: 72 pass 2 (++): 0 found - 72 modified | TOTAL: 72 pass 1 (+-): 48 found - 48 modified | TOTAL: 120 pass 2 (+-): 0 found - 48 modified | TOTAL: 120 pass 1 (--): 63 found - 63 modified | TOTAL: 183 pass 2 (--): 0 found - 63 modified | TOTAL: 183 pass 1 (-+): 40 found - 40 modified | TOTAL: 223 pass 2 (-+): 0 found - 40 modified | TOTAL: 223 Iteration Number : 2 pass 1 (xy+): 1 found - 1 modified | TOTAL: 1 pass 2 (xy+): 0 found - 1 modified | TOTAL: 1 pass 1 (xy-): 1 found - 1 modified | TOTAL: 2 pass 2 (xy-): 0 found - 1 modified | TOTAL: 2 pass 1 (yz+): 1 found - 1 modified | TOTAL: 3 pass 2 (yz+): 0 found - 1 modified | TOTAL: 3 pass 1 (yz-): 3 found - 3 modified | TOTAL: 6 pass 2 (yz-): 0 found - 3 modified | TOTAL: 6 pass 1 (xz+): 2 found - 2 modified | TOTAL: 8 pass 2 (xz+): 0 found - 2 modified | TOTAL: 8 pass 1 (xz-): 6 found - 6 modified | TOTAL: 14 pass 2 (xz-): 0 found - 6 modified | TOTAL: 14 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 3 found - 3 modified | TOTAL: 3 pass 2 (++): 0 found - 3 modified | TOTAL: 3 pass 1 (+-): 0 found - 0 modified | TOTAL: 3 pass 1 (--): 1 found - 1 modified | TOTAL: 4 pass 2 (--): 0 found - 1 modified | TOTAL: 4 pass 1 (-+): 1 found - 1 modified | TOTAL: 5 pass 2 (-+): 0 found - 1 modified | TOTAL: 5 Iteration Number : 3 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 403 (out of 547961: 0.073545) binarizing input wm segmentation... Ambiguous edge configurations... mri_pretess done @#@FSTIME 2023:08:14:14:12:44 mri_pretess N 4 e 3.92 S 0.01 U 3.90 P 99% M 57088 F 0 R 12955 W 0 c 18 w 1 I 0 O 792 L 3.33 3.28 3.20 @#@FSLOADPOST 2023:08:14:14:12:48 mri_pretess N 4 3.30 3.27 3.20 #-------------------------------------------- #@# Fill Mon 14 Aug 14:12:48 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.presurf.mgz -ctab /home/rosalia/software/freesurfer/SubCorticalMassLUT.txt wm.mgz filled.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) logging cutting plane coordinates to ../scripts/ponscc.cut.log... INFO: Using transforms/talairach.lta and its offset for Talairach volume ... using segmentation aseg.presurf.mgz... reading input volume...done. searching for cutting planes...voxel to talairach voxel transform 0.97508 -0.07322 -0.06778 20.29330; 0.09844 1.09331 0.34603 -76.09035; 0.04554 -0.31414 0.98964 29.39216; 0.00000 0.00000 0.00000 1.00000; voxel to talairach voxel transform 0.97508 -0.07322 -0.06778 20.29330; 0.09844 1.09331 0.34603 -76.09035; 0.04554 -0.31414 0.98964 29.39216; 0.00000 0.00000 0.00000 1.00000; reading segmented volume aseg.presurf.mgz removing CC from segmentation Looking for area (min, max) = (350, 1400) area[0] = 1640 (min = 350, max = 1400), aspect = 0.51 (min = 0.10, max = 0.75) need search nearby using seed (126, 112, 90), TAL = (2.0, -38.0, 16.0) talairach voxel to voxel transform 1.01555 0.07997 0.04160 -15.74661; -0.06965 0.82567 -0.29347 72.86444; -0.06884 0.25841 0.91540 -5.84554; 0.00000 0.00000 0.00000 1.00000; segmentation indicates cc at (126, 112, 90) --> (2.0, -38.0, 16.0) done. filling took 1.2 minutes talairach cc position changed to (2.00, -38.00, 16.00) Erasing brainstem...done. seed_search_size = 9, min_neighbors = 5 search rh wm seed point around talairach space:(20.00, -38.00, 16.00) SRC: (106.63, 131.41, 98.05) search lh wm seed point around talairach space (-16.00, -38.00, 16.00), SRC: (143.19, 128.90, 95.57) compute mri_fill using aseg Erasing Brain Stem and Cerebellum ... Define left and right masks using aseg: Building Voronoi diagram ... Using the Voronoi diagram for separating WM into two hemispheres ... Find the largest connected component for each hemisphere ... Embedding colortable mri_fill done, writing output to filled.mgz... @#@FSTIME 2023:08:14:14:12:48 mri_fill N 10 e 71.98 S 1.25 U 70.72 P 99% M 979328 F 0 R 515875 W 0 c 334 w 1 I 0 O 248 L 3.30 3.27 3.20 @#@FSLOADPOST 2023:08:14:14:14:00 mri_fill N 10 3.23 3.27 3.20 cp filled.mgz filled.auto.mgz #-------------------------------------------- #@# Tessellate lh Mon 14 Aug 14:14:00 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Iteration Number : 1 pass 1 (xy+): 1 found - 1 modified | TOTAL: 1 pass 2 (xy+): 0 found - 1 modified | TOTAL: 1 pass 1 (xy-): 3 found - 3 modified | TOTAL: 4 pass 2 (xy-): 0 found - 3 modified | TOTAL: 4 pass 1 (yz+): 3 found - 3 modified | TOTAL: 7 pass 2 (yz+): 0 found - 3 modified | TOTAL: 7 pass 1 (yz-): 7 found - 7 modified | TOTAL: 14 pass 2 (yz-): 0 found - 7 modified | TOTAL: 14 pass 1 (xz+): 2 found - 2 modified | TOTAL: 16 pass 2 (xz+): 0 found - 2 modified | TOTAL: 16 pass 1 (xz-): 0 found - 0 modified | TOTAL: 16 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 1 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 1 found - 1 modified | TOTAL: 1 pass 2 (+-): 0 found - 1 modified | TOTAL: 1 pass 1 (--): 3 found - 3 modified | TOTAL: 4 pass 2 (--): 0 found - 3 modified | TOTAL: 4 pass 1 (-+): 0 found - 0 modified | TOTAL: 4 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 1 found - 1 modified | TOTAL: 1 pass 2 (yz-): 0 found - 1 modified | TOTAL: 1 pass 1 (xz+): 0 found - 0 modified | TOTAL: 1 pass 1 (xz-): 0 found - 0 modified | TOTAL: 1 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 21 (out of 269432: 0.007794) Ambiguous edge configurations... mri_pretess done @#@FSTIME 2023:08:14:14:14:00 mri_pretess N 4 e 3.57 S 0.00 U 3.56 P 99% M 40324 F 0 R 8812 W 0 c 26 w 1 I 0 O 240 L 3.23 3.27 3.20 @#@FSLOADPOST 2023:08:14:14:14:04 mri_pretess N 4 3.21 3.26 3.20 mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 slice 50: 3642 vertices, 3871 faces slice 60: 13102 vertices, 13490 faces slice 70: 23748 vertices, 24129 faces slice 80: 34776 vertices, 35141 faces slice 90: 44591 vertices, 44936 faces slice 100: 54882 vertices, 55252 faces slice 110: 65188 vertices, 65548 faces slice 120: 75265 vertices, 75652 faces slice 130: 84809 vertices, 85167 faces slice 140: 94021 vertices, 94367 faces slice 150: 101748 vertices, 102011 faces slice 160: 108351 vertices, 108611 faces slice 170: 114220 vertices, 114446 faces slice 180: 118820 vertices, 118986 faces slice 190: 121899 vertices, 121985 faces slice 200: 122192 vertices, 122222 faces slice 210: 122192 vertices, 122222 faces slice 220: 122192 vertices, 122222 faces slice 230: 122192 vertices, 122222 faces slice 240: 122192 vertices, 122222 faces slice 250: 122192 vertices, 122222 faces using the conformed surface RAS to save vertex points... writing ../surf/lh.orig.nofix using vox2ras matrix: -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; @#@FSTIME 2023:08:14:14:14:04 mri_tessellate N 3 e 1.74 S 0.02 U 1.59 P 92% M 36452 F 0 R 8088 W 0 c 8 w 3 I 8 O 5736 L 3.21 3.26 3.20 @#@FSLOADPOST 2023:08:14:14:14:06 mri_tessellate N 3 3.21 3.26 3.20 rm -f ../mri/filled-pretess255.mgz mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) counting number of connected components... 122192 voxel in cpt #1: X=-30 [v=122192,e=366666,f=244444] located at (-27.764673, -20.656689, 3.465260) For the whole surface: X=-30 [v=122192,e=366666,f=244444] One single component has been found nothing to do done @#@FSTIME 2023:08:14:14:14:06 mris_extract_main_component N 2 e 1.52 S 0.18 U 0.73 P 60% M 243476 F 0 R 64164 W 0 c 5 w 34 I 8 O 8600 L 3.21 3.26 3.20 @#@FSLOADPOST 2023:08:14:14:14:07 mris_extract_main_component N 2 3.28 3.28 3.20 #-------------------------------------------- #@# Tessellate rh Mon 14 Aug 14:14:07 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Iteration Number : 1 pass 1 (xy+): 1 found - 1 modified | TOTAL: 1 pass 2 (xy+): 0 found - 1 modified | TOTAL: 1 pass 1 (xy-): 1 found - 1 modified | TOTAL: 2 pass 2 (xy-): 0 found - 1 modified | TOTAL: 2 pass 1 (yz+): 9 found - 9 modified | TOTAL: 11 pass 2 (yz+): 0 found - 9 modified | TOTAL: 11 pass 1 (yz-): 6 found - 6 modified | TOTAL: 17 pass 2 (yz-): 0 found - 6 modified | TOTAL: 17 pass 1 (xz+): 0 found - 0 modified | TOTAL: 17 pass 1 (xz-): 3 found - 3 modified | TOTAL: 20 pass 2 (xz-): 0 found - 3 modified | TOTAL: 20 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 2 found - 2 modified | TOTAL: 2 pass 2 (+++): 0 found - 2 modified | TOTAL: 2 pass 1 (+++): 1 found - 1 modified | TOTAL: 3 pass 2 (+++): 0 found - 1 modified | TOTAL: 3 Iteration Number : 1 pass 1 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 0 found - 0 modified | TOTAL: 1 pass 1 (--): 0 found - 0 modified | TOTAL: 1 pass 1 (-+): 1 found - 1 modified | TOTAL: 2 pass 2 (-+): 0 found - 1 modified | TOTAL: 2 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 25 (out of 262159: 0.009536) Ambiguous edge configurations... mri_pretess done @#@FSTIME 2023:08:14:14:14:07 mri_pretess N 4 e 2.56 S 0.02 U 2.54 P 99% M 40360 F 0 R 8812 W 0 c 20 w 1 I 0 O 240 L 3.28 3.28 3.20 @#@FSLOADPOST 2023:08:14:14:14:10 mri_pretess N 4 3.28 3.28 3.20 mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 slice 50: 1264 vertices, 1381 faces slice 60: 8014 vertices, 8306 faces slice 70: 16778 vertices, 17123 faces slice 80: 26615 vertices, 26918 faces slice 90: 36255 vertices, 36594 faces slice 100: 45841 vertices, 46186 faces slice 110: 55747 vertices, 56103 faces slice 120: 66255 vertices, 66634 faces slice 130: 76259 vertices, 76645 faces slice 140: 86047 vertices, 86365 faces slice 150: 94617 vertices, 94937 faces slice 160: 101844 vertices, 102104 faces slice 170: 108737 vertices, 108964 faces slice 180: 114379 vertices, 114571 faces slice 190: 118259 vertices, 118365 faces slice 200: 118888 vertices, 118924 faces slice 210: 118888 vertices, 118924 faces slice 220: 118888 vertices, 118924 faces slice 230: 118888 vertices, 118924 faces slice 240: 118888 vertices, 118924 faces slice 250: 118888 vertices, 118924 faces using the conformed surface RAS to save vertex points... writing ../surf/rh.orig.nofix using vox2ras matrix: -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; @#@FSTIME 2023:08:14:14:14:10 mri_tessellate N 3 e 2.32 S 0.04 U 2.27 P 100% M 36164 F 0 R 8010 W 0 c 8 w 1 I 0 O 5576 L 3.28 3.28 3.20 @#@FSLOADPOST 2023:08:14:14:14:12 mri_tessellate N 3 3.25 3.27 3.20 rm -f ../mri/filled-pretess127.mgz mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) counting number of connected components... 118888 voxel in cpt #1: X=-36 [v=118888,e=356772,f=237848] located at (31.345787, -14.497023, 1.494760) For the whole surface: X=-36 [v=118888,e=356772,f=237848] One single component has been found nothing to do done @#@FSTIME 2023:08:14:14:14:12 mris_extract_main_component N 2 e 0.81 S 0.10 U 0.71 P 99% M 237192 F 0 R 62466 W 0 c 4 w 3 I 0 O 8368 L 3.25 3.27 3.20 @#@FSLOADPOST 2023:08:14:14:14:13 mris_extract_main_component N 2 3.25 3.27 3.20 #-------------------------------------------- #@# Smooth1 lh Mon 14 Aug 14:14:13 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:08:14:14:14:13 mris_smooth N 5 e 2.44 S 0.09 U 2.35 P 100% M 194248 F 0 R 58032 W 0 c 14 w 1 I 0 O 8600 L 3.25 3.27 3.20 @#@FSLOADPOST 2023:08:14:14:14:16 mris_smooth N 5 3.25 3.27 3.20 #-------------------------------------------- #@# Smooth1 rh Mon 14 Aug 14:14:16 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:08:14:14:14:16 mris_smooth N 5 e 2.92 S 0.15 U 2.76 P 99% M 189100 F 0 R 56541 W 0 c 10 w 1 I 0 O 8368 L 3.25 3.27 3.20 @#@FSLOADPOST 2023:08:14:14:14:19 mris_smooth N 5 3.31 3.28 3.21 #-------------------------------------------- #@# Inflation1 lh Mon 14 Aug 14:14:19 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Not saving sulc Reading ../surf/lh.smoothwm.nofix avg radius = 47.6 mm, total surface area = 66713 mm^2 step 000: RMS=0.148 (target=0.015) step 005: RMS=0.114 (target=0.015) step 010: RMS=0.084 (target=0.015) step 015: RMS=0.070 (target=0.015) step 020: RMS=0.059 (target=0.015) step 025: RMS=0.052 (target=0.015) step 030: RMS=0.046 (target=0.015) step 035: RMS=0.042 (target=0.015) step 040: RMS=0.038 (target=0.015) step 045: RMS=0.036 (target=0.015) step 050: RMS=0.035 (target=0.015) step 055: RMS=0.034 (target=0.015) step 060: RMS=0.034 (target=0.015) writing inflated surface to ../surf/lh.inflated.nofix inflation took 0.3 minutes inflation complete. Not saving sulc mris_inflate utimesec 14.756474 mris_inflate stimesec 0.911782 mris_inflate ru_maxrss 194364 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 521119 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 8600 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 97 @#@FSTIME 2023:08:14:14:14:19 mris_inflate N 3 e 15.68 S 0.92 U 14.75 P 99% M 194364 F 0 R 521122 W 0 c 97 w 1 I 0 O 8600 L 3.31 3.28 3.21 @#@FSLOADPOST 2023:08:14:14:14:35 mris_inflate N 3 3.24 3.27 3.20 #-------------------------------------------- #@# Inflation1 rh Mon 14 Aug 14:14:35 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Not saving sulc Reading ../surf/rh.smoothwm.nofix avg radius = 46.5 mm, total surface area = 64301 mm^2 step 000: RMS=0.151 (target=0.015) step 005: RMS=0.114 (target=0.015) step 010: RMS=0.084 (target=0.015) step 015: RMS=0.071 (target=0.015) step 020: RMS=0.061 (target=0.015) step 025: RMS=0.053 (target=0.015) step 030: RMS=0.047 (target=0.015) step 035: RMS=0.044 (target=0.015) step 040: RMS=0.042 (target=0.015) step 045: RMS=0.040 (target=0.015) step 050: RMS=0.039 (target=0.015) step 055: RMS=0.037 (target=0.015) step 060: RMS=0.036 (target=0.015) writing inflated surface to ../surf/rh.inflated.nofix inflation took 0.3 minutes inflation complete. Not saving sulc mris_inflate utimesec 15.565671 mris_inflate stimesec 0.875868 mris_inflate ru_maxrss 189356 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 504073 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 8368 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 82 @#@FSTIME 2023:08:14:14:14:35 mris_inflate N 3 e 16.45 S 0.88 U 15.56 P 99% M 189356 F 0 R 504076 W 0 c 82 w 1 I 0 O 8368 L 3.24 3.27 3.20 @#@FSLOADPOST 2023:08:14:14:14:51 mris_inflate N 3 3.34 3.29 3.21 #-------------------------------------------- #@# QSphere lh Mon 14 Aug 14:14:51 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_sphere -q -p 6 -a 128 -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) doing quick spherical unfolding. limitting unfolding to 6 passes using n_averages = 128 setting seed for random number genererator to 1234 version: 7.3.1 available threads: 1 scaling brain by 0.348... inflating... projecting onto sphere... surface projected - minimizing metric distortion... vertex spacing 1.04 +- 0.58 (0.00-->6.89) (max @ vno 93763 --> 93764) face area 0.03 +- 0.04 (-0.09-->0.86) Entering MRISinflateToSphere() inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=174.671, avgs=0 005/300: dt: 0.9000, rms radial error=174.417, avgs=0 010/300: dt: 0.9000, rms radial error=173.872, avgs=0 015/300: dt: 0.9000, rms radial error=173.155, avgs=0 020/300: dt: 0.9000, rms radial error=172.337, avgs=0 025/300: dt: 0.9000, rms radial error=171.461, avgs=0 030/300: dt: 0.9000, rms radial error=170.553, avgs=0 035/300: dt: 0.9000, rms radial error=169.627, avgs=0 040/300: dt: 0.9000, rms radial error=168.692, avgs=0 045/300: dt: 0.9000, rms radial error=167.754, avgs=0 050/300: dt: 0.9000, rms radial error=166.816, avgs=0 055/300: dt: 0.9000, rms radial error=165.879, avgs=0 060/300: dt: 0.9000, rms radial error=164.945, avgs=0 065/300: dt: 0.9000, rms radial error=164.014, avgs=0 070/300: dt: 0.9000, rms radial error=163.087, avgs=0 075/300: dt: 0.9000, rms radial error=162.165, avgs=0 080/300: dt: 0.9000, rms radial error=161.248, avgs=0 085/300: dt: 0.9000, rms radial error=160.337, avgs=0 090/300: dt: 0.9000, rms radial error=159.432, avgs=0 095/300: dt: 0.9000, rms radial error=158.531, avgs=0 100/300: dt: 0.9000, rms radial error=157.634, avgs=0 105/300: dt: 0.9000, rms radial error=156.743, avgs=0 110/300: dt: 0.9000, rms radial error=155.856, avgs=0 115/300: dt: 0.9000, rms radial error=154.974, avgs=0 120/300: dt: 0.9000, rms radial error=154.098, avgs=0 125/300: dt: 0.9000, rms radial error=153.226, avgs=0 130/300: dt: 0.9000, rms radial error=152.359, avgs=0 135/300: dt: 0.9000, rms radial error=151.497, avgs=0 140/300: dt: 0.9000, rms radial error=150.640, avgs=0 145/300: dt: 0.9000, rms radial error=149.788, avgs=0 150/300: dt: 0.9000, rms radial error=148.940, avgs=0 155/300: dt: 0.9000, rms radial error=148.098, avgs=0 160/300: dt: 0.9000, rms radial error=147.260, avgs=0 165/300: dt: 0.9000, rms radial error=146.427, avgs=0 170/300: dt: 0.9000, rms radial error=145.601, avgs=0 175/300: dt: 0.9000, rms radial error=144.779, avgs=0 180/300: dt: 0.9000, rms radial error=143.962, avgs=0 185/300: dt: 0.9000, rms radial error=143.150, avgs=0 190/300: dt: 0.9000, rms radial error=142.343, avgs=0 195/300: dt: 0.9000, rms radial error=141.541, avgs=0 200/300: dt: 0.9000, rms radial error=140.743, avgs=0 205/300: dt: 0.9000, rms radial error=139.950, avgs=0 210/300: dt: 0.9000, rms radial error=139.161, avgs=0 215/300: dt: 0.9000, rms radial error=138.376, avgs=0 220/300: dt: 0.9000, rms radial error=137.595, avgs=0 225/300: dt: 0.9000, rms radial error=136.819, avgs=0 230/300: dt: 0.9000, rms radial error=136.047, avgs=0 235/300: dt: 0.9000, rms radial error=135.280, avgs=0 240/300: dt: 0.9000, rms radial error=134.517, avgs=0 245/300: dt: 0.9000, rms radial error=133.758, avgs=0 250/300: dt: 0.9000, rms radial error=133.004, avgs=0 255/300: dt: 0.9000, rms radial error=132.253, avgs=0 260/300: dt: 0.9000, rms radial error=131.507, avgs=0 265/300: dt: 0.9000, rms radial error=130.765, avgs=0 270/300: dt: 0.9000, rms radial error=130.027, avgs=0 275/300: dt: 0.9000, rms radial error=129.293, avgs=0 280/300: dt: 0.9000, rms radial error=128.563, avgs=0 285/300: dt: 0.9000, rms radial error=127.838, avgs=0 290/300: dt: 0.9000, rms radial error=127.116, avgs=0 295/300: dt: 0.9000, rms radial error=126.398, avgs=0 300/300: dt: 0.9000, rms radial error=125.685, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 13638.30 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00049 epoch 2 (K=40.0), pass 1, starting sse = 2036.69 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.02/13 = 0.00123 epoch 3 (K=160.0), pass 1, starting sse = 162.45 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.17/17 = 0.00990 epoch 4 (K=640.0), pass 1, starting sse = 6.32 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.09/18 = 0.00475 final distance error %100000.00 writing spherical brain to ../surf/lh.qsphere.nofix spherical transformation took 0.0349 hours FSRUNTIME@ mris_sphere 0.0349 hours 1 threads #VMPC# mris_sphere VmPeak 457564 mris_sphere done @#@FSTIME 2023:08:14:14:14:51 mris_sphere N 9 e 125.48 S 5.59 U 119.88 P 99% M 198772 F 0 R 3061636 W 0 c 522 w 1 I 0 O 8600 L 3.34 3.29 3.21 @#@FSLOADPOST 2023:08:14:14:16:57 mris_sphere N 9 3.15 3.25 3.20 #-------------------------------------------- #@# QSphere rh Mon 14 Aug 14:16:57 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_sphere -q -p 6 -a 128 -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) doing quick spherical unfolding. limitting unfolding to 6 passes using n_averages = 128 setting seed for random number genererator to 1234 version: 7.3.1 available threads: 1 scaling brain by 0.354... inflating... projecting onto sphere... surface projected - minimizing metric distortion... vertex spacing 1.06 +- 0.58 (0.00-->6.51) (max @ vno 51889 --> 52812) face area 0.03 +- 0.04 (-0.04-->0.78) Entering MRISinflateToSphere() inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=174.833, avgs=0 005/300: dt: 0.9000, rms radial error=174.578, avgs=0 010/300: dt: 0.9000, rms radial error=174.029, avgs=0 015/300: dt: 0.9000, rms radial error=173.308, avgs=0 020/300: dt: 0.9000, rms radial error=172.487, avgs=0 025/300: dt: 0.9000, rms radial error=171.607, avgs=0 030/300: dt: 0.9000, rms radial error=170.696, avgs=0 035/300: dt: 0.9000, rms radial error=169.766, avgs=0 040/300: dt: 0.9000, rms radial error=168.828, avgs=0 045/300: dt: 0.9000, rms radial error=167.888, avgs=0 050/300: dt: 0.9000, rms radial error=166.953, avgs=0 055/300: dt: 0.9000, rms radial error=166.020, avgs=0 060/300: dt: 0.9000, rms radial error=165.092, avgs=0 065/300: dt: 0.9000, rms radial error=164.169, avgs=0 070/300: dt: 0.9000, rms radial error=163.250, avgs=0 075/300: dt: 0.9000, rms radial error=162.336, avgs=0 080/300: dt: 0.9000, rms radial error=161.427, avgs=0 085/300: dt: 0.9000, rms radial error=160.522, avgs=0 090/300: dt: 0.9000, rms radial error=159.622, avgs=0 095/300: dt: 0.9000, rms radial error=158.727, avgs=0 100/300: dt: 0.9000, rms radial error=157.837, avgs=0 105/300: dt: 0.9000, rms radial error=156.951, avgs=0 110/300: dt: 0.9000, rms radial error=156.070, avgs=0 115/300: dt: 0.9000, rms radial error=155.194, avgs=0 120/300: dt: 0.9000, rms radial error=154.322, avgs=0 125/300: dt: 0.9000, rms radial error=153.455, avgs=0 130/300: dt: 0.9000, rms radial error=152.593, avgs=0 135/300: dt: 0.9000, rms radial error=151.735, avgs=0 140/300: dt: 0.9000, rms radial error=150.882, avgs=0 145/300: dt: 0.9000, rms radial error=150.033, avgs=0 150/300: dt: 0.9000, rms radial error=149.189, avgs=0 155/300: dt: 0.9000, rms radial error=148.349, avgs=0 160/300: dt: 0.9000, rms radial error=147.514, avgs=0 165/300: dt: 0.9000, rms radial error=146.684, avgs=0 170/300: dt: 0.9000, rms radial error=145.858, avgs=0 175/300: dt: 0.9000, rms radial error=145.036, avgs=0 180/300: dt: 0.9000, rms radial error=144.220, avgs=0 185/300: dt: 0.9000, rms radial error=143.407, avgs=0 190/300: dt: 0.9000, rms radial error=142.599, avgs=0 195/300: dt: 0.9000, rms radial error=141.796, avgs=0 200/300: dt: 0.9000, rms radial error=140.997, avgs=0 205/300: dt: 0.9000, rms radial error=140.202, avgs=0 210/300: dt: 0.9000, rms radial error=139.412, avgs=0 215/300: dt: 0.9000, rms radial error=138.626, avgs=0 220/300: dt: 0.9000, rms radial error=137.845, avgs=0 225/300: dt: 0.9000, rms radial error=137.068, avgs=0 230/300: dt: 0.9000, rms radial error=136.295, avgs=0 235/300: dt: 0.9000, rms radial error=135.527, avgs=0 240/300: dt: 0.9000, rms radial error=134.763, avgs=0 245/300: dt: 0.9000, rms radial error=134.003, avgs=0 250/300: dt: 0.9000, rms radial error=133.247, avgs=0 255/300: dt: 0.9000, rms radial error=132.496, avgs=0 260/300: dt: 0.9000, rms radial error=131.749, avgs=0 265/300: dt: 0.9000, rms radial error=131.006, avgs=0 270/300: dt: 0.9000, rms radial error=130.267, avgs=0 275/300: dt: 0.9000, rms radial error=129.532, avgs=0 280/300: dt: 0.9000, rms radial error=128.802, avgs=0 285/300: dt: 0.9000, rms radial error=128.075, avgs=0 290/300: dt: 0.9000, rms radial error=127.353, avgs=0 295/300: dt: 0.9000, rms radial error=126.634, avgs=0 300/300: dt: 0.9000, rms radial error=125.920, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 13175.69 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00064 epoch 2 (K=40.0), pass 1, starting sse = 1891.57 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00064 epoch 3 (K=160.0), pass 1, starting sse = 143.39 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.24/19 = 0.01257 epoch 4 (K=640.0), pass 1, starting sse = 5.47 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.12/20 = 0.00620 final distance error %100000.00 writing spherical brain to ../surf/rh.qsphere.nofix spherical transformation took 0.0350 hours FSRUNTIME@ mris_sphere 0.0350 hours 1 threads #VMPC# mris_sphere VmPeak 452524 mris_sphere done @#@FSTIME 2023:08:14:14:16:57 mris_sphere N 9 e 126.13 S 5.83 U 120.28 P 99% M 193796 F 0 R 3138745 W 0 c 413 w 1 I 0 O 8368 L 3.15 3.25 3.20 @#@FSLOADPOST 2023:08:14:14:19:03 mris_sphere N 9 3.09 3.18 3.18 #@# Fix Topology lh Mon 14 Aug 14:19:03 CEST 2023 mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 sub-073_ses-BSL lh /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading spherical homeomorphism from 'qsphere.nofix' reading inflated coordinates from 'inflated.nofix' reading original coordinates from 'orig.nofix' using genetic algorithm with optimized parameters setting seed for random number genererator to 1234 ************************************************************* Topology Correction Parameters retessellation mode: genetic search number of patches/generation : 10 number of generations : 10 surface mri loglikelihood coefficient : 1.0 volume mri loglikelihood coefficient : 10.0 normal dot loglikelihood coefficient : 1.0 quadratic curvature loglikelihood coefficient : 1.0 volume resolution : 2 eliminate vertices during search : 1 initial patch selection : 1 select all defect vertices : 0 ordering dependant retessellation: 0 use precomputed edge table : 0 smooth retessellated patch : 2 match retessellated patch : 1 verbose mode : 0 ************************************************************* INFO: assuming .mgz format writing corrected surface to 'orig.premesh' 7.3.1 7.3.1 before topology correction, eno=-30 (nv=122192, nf=244444, ne=366666, g=16) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 9 iterations marking ambiguous vertices... 1888 ambiguous faces found in tessellation segmenting defects... 22 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 5 into 3 21 defects to be corrected 0 vertices coincident reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Reading original properties of orig.nofix Reading vertex positions of inflated.nofix Computing Initial Surface Statistics -face loglikelihood: -9.4969 (-4.7484) -vertex loglikelihood: -6.9893 (-3.4947) -normal dot loglikelihood: -3.6464 (-3.6464) -quad curv loglikelihood: -6.1836 (-3.0918) Total Loglikelihood : -26.3163 CORRECTING DEFECT 0 (vertices=77, convex hull=113, v0=1905) After retessellation of defect 0 (v0=1905), euler #=-19 (121003,362404,241382) : difference with theory (-18) = 1 CORRECTING DEFECT 1 (vertices=68, convex hull=83, v0=11894) After retessellation of defect 1 (v0=11894), euler #=-18 (121031,362523,241474) : difference with theory (-17) = 1 CORRECTING DEFECT 2 (vertices=40, convex hull=95, v0=13321) After retessellation of defect 2 (v0=13321), euler #=-17 (121055,362638,241566) : difference with theory (-16) = 1 CORRECTING DEFECT 3 (vertices=120, convex hull=164, v0=23315) After retessellation of defect 3 (v0=23315), euler #=-15 (121105,362870,241750) : difference with theory (-15) = 0 CORRECTING DEFECT 4 (vertices=24, convex hull=28, v0=24581) After retessellation of defect 4 (v0=24581), euler #=-14 (121109,362891,241768) : difference with theory (-14) = 0 CORRECTING DEFECT 5 (vertices=39, convex hull=37, v0=44609) After retessellation of defect 5 (v0=44609), euler #=-13 (121113,362916,241790) : difference with theory (-13) = 0 CORRECTING DEFECT 6 (vertices=124, convex hull=65, v0=56888) After retessellation of defect 6 (v0=56888), euler #=-12 (121131,362994,241851) : difference with theory (-12) = 0 CORRECTING DEFECT 7 (vertices=131, convex hull=148, v0=67119) After retessellation of defect 7 (v0=67119), euler #=-11 (121184,363227,242032) : difference with theory (-11) = 0 CORRECTING DEFECT 8 (vertices=8, convex hull=18, v0=74248) After retessellation of defect 8 (v0=74248), euler #=-10 (121185,363236,242041) : difference with theory (-10) = 0 CORRECTING DEFECT 9 (vertices=73, convex hull=90, v0=77296) After retessellation of defect 9 (v0=77296), euler #=-9 (121228,363405,242168) : difference with theory (-9) = 0 CORRECTING DEFECT 10 (vertices=32, convex hull=26, v0=78653) After retessellation of defect 10 (v0=78653), euler #=-8 (121232,363422,242182) : difference with theory (-8) = 0 CORRECTING DEFECT 11 (vertices=68, convex hull=31, v0=83962) After retessellation of defect 11 (v0=83962), euler #=-7 (121238,363452,242207) : difference with theory (-7) = 0 CORRECTING DEFECT 12 (vertices=28, convex hull=75, v0=94457) After retessellation of defect 12 (v0=94457), euler #=-6 (121247,363507,242254) : difference with theory (-6) = 0 CORRECTING DEFECT 13 (vertices=31, convex hull=40, v0=96061) After retessellation of defect 13 (v0=96061), euler #=-5 (121258,363554,242291) : difference with theory (-5) = 0 CORRECTING DEFECT 14 (vertices=62, convex hull=92, v0=96481) After retessellation of defect 14 (v0=96481), euler #=-4 (121291,363691,242396) : difference with theory (-4) = 0 CORRECTING DEFECT 15 (vertices=28, convex hull=27, v0=100188) After retessellation of defect 15 (v0=100188), euler #=-3 (121300,363724,242421) : difference with theory (-3) = 0 CORRECTING DEFECT 16 (vertices=22, convex hull=52, v0=101414) After retessellation of defect 16 (v0=101414), euler #=-2 (121311,363774,242461) : difference with theory (-2) = 0 CORRECTING DEFECT 17 (vertices=172, convex hull=237, v0=109662) After retessellation of defect 17 (v0=109662), euler #=-1 (121415,364198,242782) : difference with theory (-1) = 0 CORRECTING DEFECT 18 (vertices=38, convex hull=33, v0=115795) After retessellation of defect 18 (v0=115795), euler #=0 (121418,364216,242798) : difference with theory (0) = 0 CORRECTING DEFECT 19 (vertices=23, convex hull=60, v0=118427) After retessellation of defect 19 (v0=118427), euler #=1 (121427,364265,242839) : difference with theory (1) = 0 CORRECTING DEFECT 20 (vertices=21, convex hull=31, v0=120459) After retessellation of defect 20 (v0=120459), euler #=2 (121430,364284,242856) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.89 +- 0.22 (0.03-->7.15) (max @ vno 28329 --> 34117) face area -nan +- -nan (1000.00-->-1.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.89 +- 0.22 (0.03-->7.15) (max @ vno 28329 --> 34117) face area -nan +- -nan (1000.00-->-1.00) tessellation finished, orienting corrected surface... 85 mutations (33.5%), 169 crossovers (66.5%), 45 vertices were eliminated building final representation... 762 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=121430, nf=242856, ne=364284, g=0) writing corrected surface to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig.premesh... 0.000 % of the vertices (0 vertices) exhibit an orientation change removing intersecting faces 000: 183 intersecting 001: 13 intersecting terminating search with 0 intersecting topology fixing took 2.1 minutes FSRUNTIME@ mris_fix_topology lh 0.0352 hours 1 threads #VMPC# mris_fix_topology VmPeak 743632 @#@FSTIME 2023:08:14:14:19:03 mris_fix_topology N 14 e 126.67 S 0.37 U 126.28 P 99% M 723780 F 0 R 214432 W 0 c 563 w 1 I 0 O 11424 L 3.09 3.18 3.18 @#@FSLOADPOST 2023:08:14:14:21:09 mris_fix_topology N 14 3.08 3.13 3.16 #@# Fix Topology rh Mon 14 Aug 14:21:09 CEST 2023 mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 sub-073_ses-BSL rh /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading spherical homeomorphism from 'qsphere.nofix' reading inflated coordinates from 'inflated.nofix' reading original coordinates from 'orig.nofix' using genetic algorithm with optimized parameters setting seed for random number genererator to 1234 ************************************************************* Topology Correction Parameters retessellation mode: genetic search number of patches/generation : 10 number of generations : 10 surface mri loglikelihood coefficient : 1.0 volume mri loglikelihood coefficient : 10.0 normal dot loglikelihood coefficient : 1.0 quadratic curvature loglikelihood coefficient : 1.0 volume resolution : 2 eliminate vertices during search : 1 initial patch selection : 1 select all defect vertices : 0 ordering dependant retessellation: 0 use precomputed edge table : 0 smooth retessellated patch : 2 match retessellated patch : 1 verbose mode : 0 ************************************************************* INFO: assuming .mgz format writing corrected surface to 'orig.premesh' 7.3.1 7.3.1 before topology correction, eno=-36 (nv=118888, nf=237848, ne=356772, g=19) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 10 iterations marking ambiguous vertices... 2402 ambiguous faces found in tessellation segmenting defects... 28 defects found, arbitrating ambiguous regions... analyzing neighboring defects... 28 defects to be corrected 0 vertices coincident reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Reading original properties of orig.nofix Reading vertex positions of inflated.nofix Computing Initial Surface Statistics -face loglikelihood: -9.5126 (-4.7563) -vertex loglikelihood: -6.9864 (-3.4932) -normal dot loglikelihood: -3.5134 (-3.5134) -quad curv loglikelihood: -6.2089 (-3.1044) Total Loglikelihood : -26.2212 CORRECTING DEFECT 0 (vertices=32, convex hull=62, v0=15086) After retessellation of defect 0 (v0=15086), euler #=-24 (117389,351443,234030) : difference with theory (-25) = -1 CORRECTING DEFECT 1 (vertices=192, convex hull=112, v0=16507) After retessellation of defect 1 (v0=16507), euler #=-23 (117437,351641,234181) : difference with theory (-24) = -1 CORRECTING DEFECT 2 (vertices=64, convex hull=70, v0=33266) After retessellation of defect 2 (v0=33266), euler #=-22 (117469,351767,234276) : difference with theory (-23) = -1 CORRECTING DEFECT 3 (vertices=34, convex hull=63, v0=39111) After retessellation of defect 3 (v0=39111), euler #=-21 (117491,351858,234346) : difference with theory (-22) = -1 CORRECTING DEFECT 4 (vertices=94, convex hull=65, v0=50897) After retessellation of defect 4 (v0=50897), euler #=-20 (117505,351929,234404) : difference with theory (-21) = -1 CORRECTING DEFECT 5 (vertices=171, convex hull=176, v0=64134) normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces normal vector of length zero at vertex 72624 with 5 faces After retessellation of defect 5 (v0=64134), euler #=-19 (117584,352258,234655) : difference with theory (-20) = -1 CORRECTING DEFECT 6 (vertices=137, convex hull=146, v0=69308) After retessellation of defect 6 (v0=69308), euler #=-18 (117645,352513,234850) : difference with theory (-19) = -1 CORRECTING DEFECT 7 (vertices=92, convex hull=59, v0=73513) After retessellation of defect 7 (v0=73513), euler #=-17 (117661,352589,234911) : difference with theory (-18) = -1 CORRECTING DEFECT 8 (vertices=6, convex hull=29, v0=82880) After retessellation of defect 8 (v0=82880), euler #=-16 (117662,352601,234923) : difference with theory (-17) = -1 CORRECTING DEFECT 9 (vertices=50, convex hull=68, v0=84360) After retessellation of defect 9 (v0=84360), euler #=-16 (117678,352678,234984) : difference with theory (-16) = 0 CORRECTING DEFECT 10 (vertices=17, convex hull=17, v0=84959) After retessellation of defect 10 (v0=84959), euler #=-15 (117679,352690,234996) : difference with theory (-15) = 0 CORRECTING DEFECT 11 (vertices=27, convex hull=65, v0=90683) After retessellation of defect 11 (v0=90683), euler #=-14 (117691,352750,235045) : difference with theory (-14) = 0 CORRECTING DEFECT 12 (vertices=11, convex hull=23, v0=91630) After retessellation of defect 12 (v0=91630), euler #=-13 (117692,352759,235054) : difference with theory (-13) = 0 CORRECTING DEFECT 13 (vertices=24, convex hull=25, v0=92301) After retessellation of defect 13 (v0=92301), euler #=-12 (117698,352787,235077) : difference with theory (-12) = 0 CORRECTING DEFECT 14 (vertices=20, convex hull=25, v0=93419) After retessellation of defect 14 (v0=93419), euler #=-11 (117702,352805,235092) : difference with theory (-11) = 0 CORRECTING DEFECT 15 (vertices=30, convex hull=21, v0=96268) After retessellation of defect 15 (v0=96268), euler #=-10 (117705,352821,235106) : difference with theory (-10) = 0 CORRECTING DEFECT 16 (vertices=19, convex hull=30, v0=96564) After retessellation of defect 16 (v0=96564), euler #=-9 (117710,352848,235129) : difference with theory (-9) = 0 CORRECTING DEFECT 17 (vertices=84, convex hull=81, v0=100219) After retessellation of defect 17 (v0=100219), euler #=-8 (117728,352938,235202) : difference with theory (-8) = 0 CORRECTING DEFECT 18 (vertices=85, convex hull=94, v0=101440) After retessellation of defect 18 (v0=101440), euler #=-7 (117778,353130,235345) : difference with theory (-7) = 0 CORRECTING DEFECT 19 (vertices=22, convex hull=22, v0=104634) After retessellation of defect 19 (v0=104634), euler #=-6 (117780,353143,235357) : difference with theory (-6) = 0 CORRECTING DEFECT 20 (vertices=17, convex hull=28, v0=107134) After retessellation of defect 20 (v0=107134), euler #=-5 (117784,353163,235374) : difference with theory (-5) = 0 CORRECTING DEFECT 21 (vertices=40, convex hull=77, v0=108588) After retessellation of defect 21 (v0=108588), euler #=-4 (117801,353247,235442) : difference with theory (-4) = 0 CORRECTING DEFECT 22 (vertices=13, convex hull=35, v0=108871) After retessellation of defect 22 (v0=108871), euler #=-3 (117803,353264,235458) : difference with theory (-3) = 0 CORRECTING DEFECT 23 (vertices=68, convex hull=88, v0=112895) After retessellation of defect 23 (v0=112895), euler #=-2 (117825,353368,235541) : difference with theory (-2) = 0 CORRECTING DEFECT 24 (vertices=9, convex hull=31, v0=114100) After retessellation of defect 24 (v0=114100), euler #=-1 (117826,353382,235555) : difference with theory (-1) = 0 CORRECTING DEFECT 25 (vertices=63, convex hull=81, v0=115344) After retessellation of defect 25 (v0=115344), euler #=0 (117848,353484,235636) : difference with theory (0) = 0 CORRECTING DEFECT 26 (vertices=46, convex hull=65, v0=118046) After retessellation of defect 26 (v0=118046), euler #=1 (117866,353565,235700) : difference with theory (1) = 0 CORRECTING DEFECT 27 (vertices=50, convex hull=59, v0=118543) After retessellation of defect 27 (v0=118543), euler #=2 (117884,353646,235764) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.89 +- 0.22 (0.05-->6.53) (max @ vno 117227 --> 117369) face area -nan +- -nan (1000.00-->-1.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.89 +- 0.22 (0.05-->6.53) (max @ vno 117227 --> 117369) face area -nan +- -nan (1000.00-->-1.00) tessellation finished, orienting corrected surface... 88 mutations (37.1%), 149 crossovers (62.9%), 59 vertices were eliminated building final representation... 1004 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=117884, nf=235764, ne=353646, g=0) writing corrected surface to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig.premesh... 0.000 % of the vertices (0 vertices) exhibit an orientation change removing intersecting faces 000: 217 intersecting 001: 4 intersecting terminating search with 0 intersecting topology fixing took 2.0 minutes FSRUNTIME@ mris_fix_topology rh 0.0331 hours 1 threads #VMPC# mris_fix_topology VmPeak 740256 @#@FSTIME 2023:08:14:14:21:09 mris_fix_topology N 14 e 119.27 S 0.38 U 118.87 P 99% M 720432 F 0 R 213107 W 0 c 462 w 1 I 0 O 11104 L 3.08 3.13 3.16 @#@FSLOADPOST 2023:08:14:14:23:09 mris_fix_topology N 14 3.44 3.24 3.19 mris_euler_number ../surf/lh.orig.premesh euler # = v-e+f = 2g-2: 121430 - 364284 + 242856 = 2 --> 0 holes F =2V-4: 242856 = 242860-4 (0) 2E=3F: 728568 = 728568 (0) total defect index = 0 mris_euler_number ../surf/rh.orig.premesh euler # = v-e+f = 2g-2: 117884 - 353646 + 235764 = 2 --> 0 holes F =2V-4: 235764 = 235768-4 (0) 2E=3F: 707292 = 707292 (0) total defect index = 0 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Mon 14 Aug 14:23:10 CEST 2023 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts /home/rosalia/software/freesurfer/bin/defect2seg --s sub-073_ses-BSL --cortex freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 defect2seg 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux pid 496876 mri_label2label --label-cortex /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig.nofix /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/aseg.presurf.mgz 0 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.nofix.cortex.label Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 12 non-cortical segments detected only using segment with 8871 vertices erasing segment 0 (vno[0] = 24581) erasing segment 1 (vno[0] = 27753) erasing segment 3 (vno[0] = 85388) erasing segment 4 (vno[0] = 85398) erasing segment 5 (vno[0] = 87310) erasing segment 6 (vno[0] = 88218) erasing segment 7 (vno[0] = 89051) erasing segment 8 (vno[0] = 89960) erasing segment 9 (vno[0] = 90034) erasing segment 10 (vno[0] = 90092) erasing segment 11 (vno[0] = 106017) mri_label2vol --defects /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig.nofix /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.defect_labels /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz 1000 0 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/surface.defects.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.nofix.cortex.label mri_label2vol supposed to be reproducible but seed not set Contraining to label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.nofix.cortex.label Changing input type 0 to MRI_INT Converting defects to volume: offset=1000, merge=0 Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/surface.defects.mgz mris_defects_pointset -s /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig.nofix -d /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.defect_labels -o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.defects.pointset --label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.nofix.cortex.label Reading in surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig.nofix Reading in defect segmentation /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.defect_labels Reading in label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.nofix.cortex.label #VMPC# mris_defects_pointset 162220 mris_defects_pointset done mri_label2label --label-cortex /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig.nofix /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/aseg.presurf.mgz 0 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.nofix.cortex.label Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 16 non-cortical segments detected only using segment with 8407 vertices erasing segment 0 (vno[0] = 19375) erasing segment 2 (vno[0] = 58591) erasing segment 3 (vno[0] = 78088) erasing segment 4 (vno[0] = 80066) erasing segment 5 (vno[0] = 81160) erasing segment 6 (vno[0] = 81185) erasing segment 7 (vno[0] = 82082) erasing segment 8 (vno[0] = 83847) erasing segment 9 (vno[0] = 85731) erasing segment 10 (vno[0] = 88268) erasing segment 11 (vno[0] = 89153) erasing segment 12 (vno[0] = 94269) erasing segment 13 (vno[0] = 99526) erasing segment 14 (vno[0] = 100881) erasing segment 15 (vno[0] = 100884) mri_label2vol --defects /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig.nofix /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.defect_labels /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/surface.defects.mgz 2000 1 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/surface.defects.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.nofix.cortex.label mri_label2vol supposed to be reproducible but seed not set Contraining to label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.nofix.cortex.label Converting defects to volume: offset=2000, merge=1 Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/surface.defects.mgz mris_defects_pointset -s /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig.nofix -d /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.defect_labels -o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.defects.pointset --label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.nofix.cortex.label Reading in surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig.nofix Reading in defect segmentation /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.defect_labels Reading in label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.nofix.cortex.label #VMPC# mris_defects_pointset 158456 mris_defects_pointset done Started at Mon 14 Aug 14:23:10 CEST 2023 Ended at Mon 14 Aug 14:23:46 CEST 2023 Defect2seg-Run-Time-Sec 36 Defect2seg-Run-Time-Min 0.72 Defect2seg-Run-Time-Hours 0.01 tkmeditfv sub-073_ses-BSL brain.finalsurfs.mgz -defect defect2seg Done @#@FSTIME 2023:08:14:14:23:10 defect2seg N 3 e 36.10 S 0.73 U 34.56 P 97% M 346900 F 0 R 408745 W 0 c 202 w 209 I 16 O 19648 L 3.44 3.24 3.19 @#@FSLOADPOST 2023:08:14:14:23:46 defect2seg N 3 3.45 3.26 3.20 mris_remesh --remesh --iters 3 --input /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig.premesh --output /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) iters = 3 standard remeshing without target adjusted l: 0.711318 remeshing to edge length 0.711318 with 3 iterations avg qual before : 0.892762 after: 0.971036 Removing intersections Remeshed surface quality stats nv0 = 121430 nv = 127061 1.04637 Area 254118 0.30302 0.03379 0.086241 0.5008 Corner 762354 60.00000 8.82347 19.431096 140.9325 Edge 381177 0.84456 0.08267 0.469966 1.2284 Hinge 381177 9.45102 10.14318 0.000002 127.6347 mris_remesh done @#@FSTIME 2023:08:14:14:23:46 mris_remesh N 7 e 27.66 S 0.59 U 27.07 P 99% M 686268 F 0 R 263765 W 0 c 76 w 1 I 0 O 8936 L 3.45 3.26 3.20 @#@FSLOADPOST 2023:08:14:14:24:14 mris_remesh N 7 3.37 3.27 3.20 mris_remesh --remesh --iters 3 --input /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig.premesh --output /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) iters = 3 standard remeshing without target adjusted l: 0.710397 remeshing to edge length 0.710397 with 3 iterations avg qual before : 0.891874 after: 0.971243 Removing intersections Remeshed surface quality stats nv0 = 117884 nv = 122963 1.04308 Area 245922 0.30244 0.03375 0.079550 0.4847 Corner 737766 60.00000 8.79795 18.213559 142.7469 Edge 368883 0.84367 0.08233 0.341388 1.2389 Hinge 368883 9.59803 10.45311 0.000000 150.1038 mris_remesh done @#@FSTIME 2023:08:14:14:24:14 mris_remesh N 7 e 25.00 S 0.36 U 24.64 P 99% M 663048 F 0 R 249676 W 0 c 150 w 1 I 0 O 8648 L 3.37 3.27 3.20 @#@FSLOADPOST 2023:08:14:14:24:39 mris_remesh N 7 3.44 3.29 3.21 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_remove_intersection ../surf/lh.orig ../surf/lh.orig /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) intersection removal took 0.00 hours writing corrected surface to ../surf/lh.orig @#@FSTIME 2023:08:14:14:24:39 mris_remove_intersection N 2 e 2.63 S 0.16 U 2.47 P 99% M 322548 F 0 R 85197 W 0 c 8 w 1 I 0 O 8936 L 3.44 3.29 3.21 @#@FSLOADPOST 2023:08:14:14:24:41 mris_remove_intersection N 2 3.44 3.29 3.21 rm -f ../surf/lh.inflated /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_remove_intersection ../surf/rh.orig ../surf/rh.orig /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) intersection removal took 0.00 hours writing corrected surface to ../surf/rh.orig @#@FSTIME 2023:08:14:14:24:41 mris_remove_intersection N 2 e 2.53 S 0.13 U 2.39 P 99% M 310912 F 0 R 82093 W 0 c 14 w 1 I 0 O 8648 L 3.44 3.29 3.21 @#@FSLOADPOST 2023:08:14:14:24:44 mris_remove_intersection N 2 3.40 3.29 3.21 rm -f ../surf/rh.inflated #-------------------------------------------- #@# AutoDetGWStats lh Mon 14 Aug 14:24:44 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh border white: 227745 voxels (1.36%) border gray 248599 voxels (1.48%) Reading in intensity volume brain.finalsurfs.mgz Reading in wm volume wm.mgz Reading in surf ../surf/lh.orig.premesh Auto detecting stats MRIclipBrightWM(): nthresh=21752, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (95.0): 95.7 +- 8.8 [70.0 --> 110.0] CCS GM (70.0) : 68.4 +- 12.7 [30.0 --> 110.0] white_mean = 95.6636 +/- 8.83416, gray_mean = 68.4182 +/- 12.6558 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=255 nbins=256 intensity peaks found at WM=97+-7.8, GM=64+-13.0 white_mode = 97, gray_mode = 64 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 51.3 (was 70.000000) setting MAX_BORDER_WHITE to 105.8 (was 105.000000) setting MIN_BORDER_WHITE to 64.0 (was 85.000000) setting MAX_CSF to 38.7 (was 40.000000) setting MAX_GRAY to 88.2 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 51.3 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 26.0 (was 40.000000) When placing the white surface white_border_hi = 105.834; white_border_low = 64; white_outside_low = 51.3442; white_inside_hi = 120; white_outside_hi = 105.834; When placing the pial surface pial_border_hi = 51.3442; pial_border_low = 26.0327; pial_outside_low = 10; pial_inside_hi = 88.1658; pial_outside_hi = 45.0164; #VMPC# mris_autodet_gwstats VmPeak 242432 mris_autodet_gwstats done @#@FSTIME 2023:08:14:14:24:44 mris_autodet_gwstats N 8 e 5.19 S 0.09 U 5.09 P 99% M 222456 F 0 R 62818 W 0 c 30 w 1 I 0 O 8 L 3.40 3.29 3.21 @#@FSLOADPOST 2023:08:14:14:24:49 mris_autodet_gwstats N 8 3.45 3.30 3.22 #-------------------------------------------- #@# AutoDetGWStats rh Mon 14 Aug 14:24:49 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh border white: 227745 voxels (1.36%) border gray 248599 voxels (1.48%) Reading in intensity volume brain.finalsurfs.mgz Reading in wm volume wm.mgz Reading in surf ../surf/rh.orig.premesh Auto detecting stats MRIclipBrightWM(): nthresh=21752, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (95.0): 95.7 +- 8.8 [70.0 --> 110.0] CCS GM (70.0) : 68.4 +- 12.7 [30.0 --> 110.0] white_mean = 95.6636 +/- 8.83416, gray_mean = 68.4182 +/- 12.6558 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=255 nbins=256 intensity peaks found at WM=99+-7.8, GM=63+-13.0 white_mode = 99, gray_mode = 63 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 50.3 (was 70.000000) setting MAX_BORDER_WHITE to 107.8 (was 105.000000) setting MIN_BORDER_WHITE to 63.0 (was 85.000000) setting MAX_CSF to 37.7 (was 40.000000) setting MAX_GRAY to 90.2 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 50.3 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 25.0 (was 40.000000) When placing the white surface white_border_hi = 107.834; white_border_low = 63; white_outside_low = 50.3442; white_inside_hi = 120; white_outside_hi = 107.834; When placing the pial surface pial_border_hi = 50.3442; pial_border_low = 25.0327; pial_outside_low = 10; pial_inside_hi = 90.1658; pial_outside_hi = 44.0164; #VMPC# mris_autodet_gwstats VmPeak 237716 mris_autodet_gwstats done @#@FSTIME 2023:08:14:14:24:49 mris_autodet_gwstats N 8 e 5.86 S 0.12 U 5.73 P 99% M 217720 F 0 R 61506 W 0 c 30 w 1 I 0 O 8 L 3.45 3.30 3.22 @#@FSLOADPOST 2023:08:14:14:24:55 mris_autodet_gwstats N 8 3.41 3.29 3.21 #-------------------------------------------- #@# WhitePreAparc lh Mon 14 Aug 14:24:55 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --lh --i ../surf/lh.orig --o ../surf/lh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --lh --i ../surf/lh.orig --o ../surf/lh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 Reading in input surface ../surf/lh.orig Smoothing surface before ripping with 5 iterations Area 254118 0.26893 0.06412 0.001135 0.5897 Corner 762354 60.00000 9.50303 7.779876 147.4471 Edge 381177 0.79165 0.11583 0.035754 1.3332 Hinge 381177 6.25624 6.48998 0.000003 142.3642 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21752, wmmin=5, clip=110 MRIfindBrightNonWM(): 7465 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7593, nmarked2=2, nripped=7593 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 63531: xyz = (-61.3787,-9.41697,11.7441) oxyz = (-61.3787,-9.41697,11.7441) wxzy = (-61.3787,-9.41697,11.7441) pxyz = (0,0,0) CBVO Creating mask 127061 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7593 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7593, nmarked2=2, nripped=7593 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8341600; border_low = 64.0000000; outside_low = 51.3442420; outside_hi = 105.8341600; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=2 had to be increased for 104 vertices, nripped=7593 mean border=77.3, 370 (370) missing vertices, mean dist 0.2 [1.0 (%38.2)->1.0 (%61.8))] %22 local maxima, %72 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1475 min Finding expansion regions mean absolute distance = 0.97 +- 1.19 4862 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=4140037.0, rms=12.961 001: dt: 0.5000, sse=2159631.0, rms=9.219 (28.869%) 002: dt: 0.5000, sse=1279636.0, rms=6.934 (24.790%) 003: dt: 0.5000, sse=879112.9, rms=5.590 (19.376%) 004: dt: 0.5000, sse=675317.4, rms=4.751 (15.016%) 005: dt: 0.5000, sse=563244.4, rms=4.216 (11.255%) 006: dt: 0.5000, sse=505900.7, rms=3.885 (7.847%) 007: dt: 0.5000, sse=471746.1, rms=3.692 (4.966%) 008: dt: 0.5000, sse=449742.7, rms=3.576 (3.162%) 009: dt: 0.5000, sse=441392.7, rms=3.514 (1.733%) rms = 3.4735/3.5137, sse=433352.6/441392.7, time step reduction 1 of 3 to 0.250 0 0 1 010: dt: 0.5000, sse=433352.6, rms=3.474 (1.145%) 011: dt: 0.2500, sse=252618.5, rms=2.095 (39.679%) 012: dt: 0.2500, sse=224355.5, rms=1.773 (15.382%) 013: dt: 0.2500, sse=219784.4, rms=1.681 (5.190%) rms = 1.6379/1.6809, sse=217967.5/219784.4, time step reduction 2 of 3 to 0.125 0 0 1 014: dt: 0.2500, sse=217967.5, rms=1.638 (2.558%) 015: dt: 0.1250, sse=208740.2, rms=1.501 (8.368%) rms = 1.4803/1.5009, sse=208338.3/208740.2, time step reduction 3 of 3 to 0.062 0 0 1 016: dt: 0.1250, sse=208338.3, rms=1.480 (1.371%) maximum number of reductions reached, breaking from loop positioning took 1.6 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7593 removing 2 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7793, nmarked2=2, nripped=7793 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8341600; border_low = 64.0000000; outside_low = 51.3442420; outside_hi = 105.8341600; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=1 had to be increased for 241 vertices, nripped=7793 mean border=79.8, 392 (259) missing vertices, mean dist -0.3 [0.5 (%64.7)->0.3 (%35.3))] %35 local maxima, %58 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1125 min Finding expansion regions mean absolute distance = 0.45 +- 0.85 4718 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=676212.6, rms=4.432 017: dt: 0.5000, sse=444957.5, rms=3.139 (29.175%) rms = 3.1767/3.1390, sse=442473.0/444957.5, time step reduction 1 of 3 to 0.250 0 0 1 RMS increased, rejecting step 018: dt: 0.2500, sse=347831.2, rms=2.466 (21.451%) 019: dt: 0.2500, sse=291943.1, rms=1.923 (22.003%) 020: dt: 0.2500, sse=269806.6, rms=1.655 (13.958%) 021: dt: 0.2500, sse=264256.4, rms=1.517 (8.309%) 022: dt: 0.2500, sse=263057.7, rms=1.443 (4.913%) 023: dt: 0.2500, sse=254921.9, rms=1.388 (3.768%) rms = 1.3721/1.3883, sse=252301.7/254921.9, time step reduction 2 of 3 to 0.125 0 0 1 024: dt: 0.2500, sse=252301.8, rms=1.372 (1.166%) 025: dt: 0.1250, sse=244567.5, rms=1.265 (7.793%) rms = 1.2492/1.2652, sse=241212.2/244567.5, time step reduction 3 of 3 to 0.062 0 0 1 026: dt: 0.1250, sse=241212.2, rms=1.249 (1.266%) maximum number of reductions reached, breaking from loop positioning took 1.0 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7793 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7867, nmarked2=2, nripped=7867 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8341600; border_low = 64.0000000; outside_low = 51.3442420; outside_hi = 105.8341600; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 280 vertices, nripped=7867 mean border=82.7, 368 (221) missing vertices, mean dist -0.2 [0.4 (%69.2)->0.2 (%30.8))] %58 local maxima, %35 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0784 min Finding expansion regions mean absolute distance = 0.35 +- 0.51 3478 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=606171.4, rms=4.143 027: dt: 0.5000, sse=383636.5, rms=2.731 (34.081%) rms = 2.9675/2.7307, sse=411611.8/383636.5, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=287108.4, rms=1.911 (30.006%) 029: dt: 0.2500, sse=254620.6, rms=1.416 (25.905%) 030: dt: 0.2500, sse=249867.2, rms=1.278 (9.751%) rms = 1.2440/1.2781, sse=246902.9/249867.2, time step reduction 2 of 3 to 0.125 0 0 1 031: dt: 0.2500, sse=246902.9, rms=1.244 (2.667%) 032: dt: 0.1250, sse=234053.0, rms=1.123 (9.734%) rms = 1.1065/1.1229, sse=234813.5/234053.0, time step reduction 3 of 3 to 0.062 0 1 1 033: dt: 0.1250, sse=234813.5, rms=1.107 (1.461%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7867 removing 3 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7886, nmarked2=2, nripped=7886 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8341600; border_low = 64.0000000; outside_low = 51.3442420; outside_hi = 105.8341600; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 283 vertices, nripped=7886 mean border=84.1, 403 (208) missing vertices, mean dist -0.1 [0.3 (%60.4)->0.2 (%39.6))] %70 local maxima, %24 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0422 min Finding expansion regions mean absolute distance = 0.27 +- 0.40 2769 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=309790.8, rms=2.144 rms = 2.1647/2.1438, sse=313389.4/309790.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 034: dt: 0.2500, sse=246369.0, rms=1.426 (33.479%) 035: dt: 0.2500, sse=213702.9, rms=0.894 (37.306%) rms = 0.8972/0.8941, sse=215424.0/213702.9, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 0.8749/0.8941, sse=212534.0/213702.9, time step reduction 3 of 3 to 0.062 0 0 1 036: dt: 0.1250, sse=212534.0, rms=0.875 (2.143%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/lh.white.preaparc #ET# mris_place_surface 4.24 minutes #VMPC# mris_place_surfaces VmPeak 2110056 mris_place_surface done @#@FSTIME 2023:08:14:14:24:55 mris_place_surface N 18 e 262.47 S 0.87 U 261.57 P 99% M 1851316 F 0 R 486064 W 0 c 1228 w 0 I 0 O 8936 L 3.41 3.29 3.21 @#@FSLOADPOST 2023:08:14:14:29:17 mris_place_surface N 18 3.33 3.36 3.27 #-------------------------------------------- #@# WhitePreAparc rh Mon 14 Aug 14:29:17 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --rh --i ../surf/rh.orig --o ../surf/rh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --rh --i ../surf/rh.orig --o ../surf/rh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 Reading in input surface ../surf/rh.orig Smoothing surface before ripping with 5 iterations Area 245922 0.26738 0.06490 0.000055 0.6120 Corner 737766 60.00000 9.63976 0.750136 173.3441 Edge 368883 0.78928 0.11737 0.020031 1.3010 Hinge 368883 6.35115 6.73935 0.000001 154.8015 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21752, wmmin=5, clip=110 MRIfindBrightNonWM(): 7465 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=0 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7628, nmarked2=3, nripped=7628 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 61482: xyz = (19.8147,-3.80007,-19.3223) oxyz = (19.8147,-3.80007,-19.3223) wxzy = (19.8147,-3.80007,-19.3223) pxyz = (0,0,0) CBVO Creating mask 122963 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7628 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7628, nmarked2=3, nripped=7628 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8341600; border_low = 63.0000000; outside_low = 50.3442420; outside_hi = 107.8341600; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=2 had to be increased for 92 vertices, nripped=7628 mean border=76.4, 181 (181) missing vertices, mean dist 0.2 [1.0 (%37.3)->1.0 (%62.7))] %24 local maxima, %69 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1978 min Finding expansion regions mean absolute distance = 1.00 +- 1.23 4618 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=4344980.0, rms=13.522 001: dt: 0.5000, sse=2343308.2, rms=9.804 (27.497%) 002: dt: 0.5000, sse=1407604.0, rms=7.451 (24.003%) 003: dt: 0.5000, sse=956109.9, rms=5.989 (19.615%) 004: dt: 0.5000, sse=715939.4, rms=5.037 (15.906%) 005: dt: 0.5000, sse=588907.0, rms=4.446 (11.731%) 006: dt: 0.5000, sse=526486.6, rms=4.075 (8.341%) 007: dt: 0.5000, sse=482211.3, rms=3.862 (5.219%) 008: dt: 0.5000, sse=462212.3, rms=3.731 (3.410%) 009: dt: 0.5000, sse=450250.2, rms=3.653 (2.086%) 010: dt: 0.5000, sse=442953.1, rms=3.602 (1.399%) rms = 3.5705/3.6017, sse=440999.0/442953.1, time step reduction 1 of 3 to 0.250 0 0 1 011: dt: 0.5000, sse=440999.0, rms=3.571 (0.866%) 012: dt: 0.2500, sse=256720.4, rms=2.193 (38.574%) 013: dt: 0.2500, sse=227206.2, rms=1.859 (15.248%) 014: dt: 0.2500, sse=218993.9, rms=1.770 (4.774%) 015: dt: 0.2500, sse=215787.2, rms=1.719 (2.856%) rms = 1.6930/1.7195, sse=215170.7/215787.2, time step reduction 2 of 3 to 0.125 0 0 1 016: dt: 0.2500, sse=215170.7, rms=1.693 (1.542%) 017: dt: 0.1250, sse=208135.5, rms=1.595 (5.780%) rms = 1.5786/1.5951, sse=207383.0/208135.5, time step reduction 3 of 3 to 0.062 0 0 1 018: dt: 0.1250, sse=207383.0, rms=1.579 (1.033%) maximum number of reductions reached, breaking from loop positioning took 1.7 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7628 removing 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7879, nmarked2=10, nripped=7879 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8341600; border_low = 63.0000000; outside_low = 50.3442420; outside_hi = 107.8341600; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=1 had to be increased for 275 vertices, nripped=7879 mean border=78.9, 209 (55) missing vertices, mean dist -0.3 [0.6 (%64.2)->0.3 (%35.8))] %37 local maxima, %57 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1204 min Finding expansion regions mean absolute distance = 0.46 +- 0.88 4501 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=688432.2, rms=4.587 019: dt: 0.5000, sse=445227.5, rms=3.229 (29.596%) rms = 3.3216/3.2294, sse=457329.8/445227.5, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 020: dt: 0.2500, sse=351906.0, rms=2.545 (21.188%) 021: dt: 0.2500, sse=311743.1, rms=2.006 (21.184%) 022: dt: 0.2500, sse=281956.0, rms=1.719 (14.320%) 023: dt: 0.2500, sse=261657.1, rms=1.577 (8.260%) rms = 1.4983/1.5768, sse=263361.3/261657.1, time step reduction 2 of 3 to 0.125 0 1 0 024: dt: 0.2500, sse=263361.3, rms=1.498 (4.979%) 025: dt: 0.1250, sse=256070.2, rms=1.405 (6.195%) rms = 1.3809/1.4055, sse=246484.6/256070.2, time step reduction 3 of 3 to 0.062 0 0 1 026: dt: 0.1250, sse=246484.6, rms=1.381 (1.750%) maximum number of reductions reached, breaking from loop positioning took 0.9 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7879 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7953, nmarked2=10, nripped=7953 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8341600; border_low = 63.0000000; outside_low = 50.3442420; outside_hi = 107.8341600; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 262 vertices, nripped=7953 mean border=81.7, 202 (37) missing vertices, mean dist -0.2 [0.4 (%67.9)->0.2 (%32.1))] %59 local maxima, %34 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0755 min Finding expansion regions mean absolute distance = 0.34 +- 0.53 3397 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=578407.6, rms=4.071 027: dt: 0.5000, sse=377351.0, rms=2.757 (32.279%) rms = 3.0597/2.7572, sse=420933.9/377351.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=283184.6, rms=1.905 (30.922%) 029: dt: 0.2500, sse=246264.4, rms=1.440 (24.412%) 030: dt: 0.2500, sse=238322.9, rms=1.312 (8.862%) rms = 1.2818/1.3121, sse=235576.2/238322.9, time step reduction 2 of 3 to 0.125 0 0 1 031: dt: 0.2500, sse=235576.2, rms=1.282 (2.307%) 032: dt: 0.1250, sse=229711.1, rms=1.182 (7.792%) rms = 1.1683/1.1819, sse=227992.3/229711.1, time step reduction 3 of 3 to 0.062 0 0 1 033: dt: 0.1250, sse=227992.3, rms=1.168 (1.153%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7953 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8002, nmarked2=12, nripped=8002 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8341600; border_low = 63.0000000; outside_low = 50.3442420; outside_hi = 107.8341600; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 240 vertices, nripped=8002 mean border=83.1, 280 (31) missing vertices, mean dist -0.1 [0.3 (%59.2)->0.2 (%40.8))] %70 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0560 min Finding expansion regions mean absolute distance = 0.27 +- 0.41 2892 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=298328.8, rms=2.150 rms = 2.2178/2.1504, sse=311268.9/298328.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 034: dt: 0.2500, sse=239120.6, rms=1.427 (33.631%) 035: dt: 0.2500, sse=211895.6, rms=0.925 (35.164%) rms = 0.9272/0.9253, sse=219072.1/211895.6, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 0.9090/0.9253, sse=211332.1/211895.6, time step reduction 3 of 3 to 0.062 0 0 1 036: dt: 0.1250, sse=211332.1, rms=0.909 (1.771%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/rh.white.preaparc #ET# mris_place_surface 4.25 minutes #VMPC# mris_place_surfaces VmPeak 2024292 mris_place_surface done @#@FSTIME 2023:08:14:14:29:18 mris_place_surface N 18 e 262.64 S 1.07 U 261.54 P 99% M 1765808 F 0 R 464023 W 0 c 1027 w 1 I 0 O 8648 L 3.33 3.36 3.27 @#@FSLOADPOST 2023:08:14:14:33:40 mris_place_surface N 18 3.70 3.50 3.34 #-------------------------------------------- #@# CortexLabel lh Mon 14 Aug 14:33:40 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 0 ../label/lh.cortex.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 2 non-cortical segments detected only using segment with 9769 vertices erasing segment 1 (vno[0] = 73492) @#@FSTIME 2023:08:14:14:33:40 mri_label2label N 5 e 15.74 S 0.17 U 15.56 P 99% M 294608 F 0 R 88799 W 0 c 79 w 1 I 0 O 10224 L 3.70 3.50 3.34 @#@FSLOADPOST 2023:08:14:14:33:56 mri_label2label N 5 3.68 3.50 3.34 #-------------------------------------------- #@# CortexLabel+HipAmyg lh Mon 14 Aug 14:33:56 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 1 ../label/lh.cortex+hipamyg.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=1 NucAccIsMedialWall=0 mris->useRealRAS=0 4 non-cortical segments detected only using segment with 8215 vertices erasing segment 1 (vno[0] = 73492) erasing segment 2 (vno[0] = 74992) erasing segment 3 (vno[0] = 76529) @#@FSTIME 2023:08:14:14:33:56 mri_label2label N 5 e 16.61 S 0.20 U 16.40 P 99% M 303524 F 0 R 90432 W 0 c 68 w 1 I 0 O 10360 L 3.68 3.50 3.34 @#@FSLOADPOST 2023:08:14:14:34:13 mri_label2label N 5 3.69 3.51 3.35 #-------------------------------------------- #@# CortexLabel rh Mon 14 Aug 14:34:13 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 0 ../label/rh.cortex.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 7 non-cortical segments detected only using segment with 9189 vertices erasing segment 1 (vno[0] = 42749) erasing segment 2 (vno[0] = 46099) erasing segment 3 (vno[0] = 72312) erasing segment 4 (vno[0] = 73097) erasing segment 5 (vno[0] = 75240) erasing segment 6 (vno[0] = 101310) @#@FSTIME 2023:08:14:14:34:13 mri_label2label N 5 e 16.61 S 0.14 U 16.47 P 99% M 311160 F 0 R 91706 W 0 c 82 w 1 I 0 O 9704 L 3.69 3.51 3.35 @#@FSLOADPOST 2023:08:14:14:34:29 mri_label2label N 5 3.76 3.54 3.36 #-------------------------------------------- #@# CortexLabel+HipAmyg rh Mon 14 Aug 14:34:29 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 1 ../label/rh.cortex+hipamyg.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=1 NucAccIsMedialWall=0 mris->useRealRAS=0 7 non-cortical segments detected only using segment with 7807 vertices erasing segment 1 (vno[0] = 42749) erasing segment 2 (vno[0] = 46099) erasing segment 3 (vno[0] = 72312) erasing segment 4 (vno[0] = 73097) erasing segment 5 (vno[0] = 75240) erasing segment 6 (vno[0] = 101310) @#@FSTIME 2023:08:14:14:34:29 mri_label2label N 5 e 17.13 S 0.18 U 16.95 P 99% M 311276 F 0 R 91727 W 0 c 76 w 1 I 0 O 9824 L 3.76 3.54 3.36 @#@FSLOADPOST 2023:08:14:14:34:46 mri_label2label N 5 3.67 3.53 3.36 #-------------------------------------------- #@# Smooth2 lh Mon 14 Aug 14:34:46 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:08:14:14:34:46 mris_smooth N 7 e 3.66 S 0.09 U 3.57 P 99% M 195548 F 0 R 58879 W 0 c 19 w 1 I 0 O 8944 L 3.67 3.53 3.36 @#@FSLOADPOST 2023:08:14:14:34:50 mris_smooth N 7 3.69 3.54 3.37 #-------------------------------------------- #@# Smooth2 rh Mon 14 Aug 14:34:50 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:08:14:14:34:50 mris_smooth N 7 e 2.77 S 0.10 U 2.67 P 99% M 189420 F 0 R 56965 W 0 c 10 w 1 I 0 O 8656 L 3.69 3.54 3.37 @#@FSLOADPOST 2023:08:14:14:34:53 mris_smooth N 7 3.69 3.54 3.37 #-------------------------------------------- #@# Inflation2 lh Mon 14 Aug 14:34:53 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_inflate ../surf/lh.smoothwm ../surf/lh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ../surf/lh.smoothwm avg radius = 47.6 mm, total surface area = 79400 mm^2 step 000: RMS=0.168 (target=0.015) step 005: RMS=0.114 (target=0.015) step 010: RMS=0.086 (target=0.015) step 015: RMS=0.071 (target=0.015) step 020: RMS=0.058 (target=0.015) step 025: RMS=0.048 (target=0.015) step 030: RMS=0.040 (target=0.015) step 035: RMS=0.033 (target=0.015) step 040: RMS=0.028 (target=0.015) step 045: RMS=0.025 (target=0.015) step 050: RMS=0.022 (target=0.015) step 055: RMS=0.020 (target=0.015) step 060: RMS=0.019 (target=0.015) writing inflated surface to ../surf/lh.inflated writing sulcal depths to ../surf/lh.sulc inflation complete. inflation took 0.3 minutes mris_inflate utimesec 19.099783 mris_inflate stimesec 0.083999 mris_inflate ru_maxrss 196736 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 52569 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 9944 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 84 @#@FSTIME 2023:08:14:14:34:53 mris_inflate N 2 e 19.19 S 0.09 U 19.09 P 99% M 197040 F 0 R 52572 W 0 c 84 w 1 I 0 O 9944 L 3.69 3.54 3.37 @#@FSLOADPOST 2023:08:14:14:35:12 mris_inflate N 2 3.62 3.54 3.37 #-------------------------------------------- #@# Inflation2 rh Mon 14 Aug 14:35:12 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_inflate ../surf/rh.smoothwm ../surf/rh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ../surf/rh.smoothwm avg radius = 46.4 mm, total surface area = 78070 mm^2 step 000: RMS=0.173 (target=0.015) step 005: RMS=0.117 (target=0.015) step 010: RMS=0.088 (target=0.015) step 015: RMS=0.073 (target=0.015) step 020: RMS=0.060 (target=0.015) step 025: RMS=0.050 (target=0.015) step 030: RMS=0.041 (target=0.015) step 035: RMS=0.035 (target=0.015) step 040: RMS=0.031 (target=0.015) step 045: RMS=0.027 (target=0.015) step 050: RMS=0.024 (target=0.015) step 055: RMS=0.022 (target=0.015) step 060: RMS=0.021 (target=0.015) writing inflated surface to ../surf/rh.inflated writing sulcal depths to ../surf/rh.sulc inflation complete. inflation took 0.3 minutes mris_inflate utimesec 18.458684 mris_inflate stimesec 0.079976 mris_inflate ru_maxrss 190840 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 50889 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 9624 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 89 @#@FSTIME 2023:08:14:14:35:12 mris_inflate N 2 e 18.55 S 0.09 U 18.46 P 99% M 190988 F 0 R 50892 W 0 c 89 w 1 I 0 O 9624 L 3.62 3.54 3.37 @#@FSLOADPOST 2023:08:14:14:35:31 mris_inflate N 2 3.51 3.52 3.36 #-------------------------------------------- #@# Curv .H and .K lh Mon 14 Aug 14:35:31 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature -w -seed 1234 lh.white.preaparc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 total integrated curvature = 15.634*4pi (196.464) --> -15 handles ICI = 147.4, FI = 1368.6, variation=21949.003 writing Gaussian curvature to ./lh.white.preaparc.K...done. writing mean curvature to ./lh.white.preaparc.H...done. @#@FSTIME 2023:08:14:14:35:31 mris_curvature N 4 e 1.56 S 0.06 U 1.49 P 99% M 145996 F 0 R 39787 W 0 c 7 w 1 I 0 O 2000 L 3.51 3.52 3.36 @#@FSLOADPOST 2023:08:14:14:35:32 mris_curvature N 4 3.51 3.52 3.36 rm -f lh.white.H ln -s lh.white.preaparc.H lh.white.H rm -f lh.white.K ln -s lh.white.preaparc.K lh.white.K mris_curvature -seed 1234 -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 158 vertices thresholded to be in k1 ~ [-0.43 0.58], k2 ~ [-0.11 0.09] total integrated curvature = 0.540*4pi (6.792) --> 0 handles ICI = 1.4, FI = 8.3, variation=145.672 104 vertices thresholded to be in [-0.03 0.02] writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 115 vertices thresholded to be in [-0.18 0.25] done. writing mean curvature to ./lh.inflated.H...curvature mean = -0.017, std = 0.022 done. @#@FSTIME 2023:08:14:14:35:33 mris_curvature N 12 e 51.39 S 0.21 U 51.18 P 99% M 344328 F 0 R 89539 W 0 c 226 w 1 I 0 O 2000 L 3.51 3.52 3.36 @#@FSLOADPOST 2023:08:14:14:36:24 mris_curvature N 12 3.40 3.48 3.36 #-------------------------------------------- #@# Curv .H and .K rh Mon 14 Aug 14:36:24 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature -w -seed 1234 rh.white.preaparc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 total integrated curvature = 16.177*4pi (203.292) --> -15 handles ICI = 147.6, FI = 1393.6, variation=22251.172 writing Gaussian curvature to ./rh.white.preaparc.K...done. writing mean curvature to ./rh.white.preaparc.H...done. @#@FSTIME 2023:08:14:14:36:24 mris_curvature N 4 e 1.46 S 0.07 U 1.38 P 99% M 141440 F 0 R 38504 W 0 c 8 w 1 I 0 O 1936 L 3.40 3.48 3.36 @#@FSLOADPOST 2023:08:14:14:36:26 mris_curvature N 4 3.40 3.48 3.36 rm -f rh.white.H ln -s rh.white.preaparc.H rh.white.H rm -f rh.white.K ln -s rh.white.preaparc.K rh.white.K mris_curvature -seed 1234 -thresh .999 -n -a 5 -w -distances 10 10 rh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 139 vertices thresholded to be in k1 ~ [-0.55 1.00], k2 ~ [-0.12 0.44] total integrated curvature = 0.582*4pi (7.320) --> 0 handles ICI = 1.5, FI = 8.0, variation=142.050 145 vertices thresholded to be in [-0.12 0.01] writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.003 92 vertices thresholded to be in [-0.15 0.37] done. writing mean curvature to ./rh.inflated.H...curvature mean = -0.017, std = 0.022 done. @#@FSTIME 2023:08:14:14:36:26 mris_curvature N 12 e 42.26 S 0.21 U 42.05 P 99% M 333832 F 0 R 86668 W 0 c 185 w 1 I 0 O 1936 L 3.40 3.48 3.36 @#@FSLOADPOST 2023:08:14:14:37:08 mris_curvature N 12 3.25 3.43 3.35 #-------------------------------------------- #@# Sphere lh Mon 14 Aug 14:37:08 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_sphere -seed 1234 ../surf/lh.inflated ../surf/lh.sphere /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 version: 7.3.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.317... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 1234 singular matrix in quadratic form singular matrix in quadratic form singular matrix in quadratic form singular matrix in quadratic form singular matrix in quadratic form singular matrix in quadratic form singular matrix in quadratic form singular matrix in quadratic form singular matrix in quadratic form -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %19.82 pass 1: epoch 2 of 3 starting distance error %19.80 unfolding complete - removing small folds... starting distance error %19.73 removing remaining folds... final distance error %19.73 MRISunfold() return, current seed 1234 -01: dt=0.0000, 205 negative triangles VmPeak 520672 111: dt=0.9900, 205 negative triangles 112: dt=0.9900, 110 negative triangles 113: dt=0.9900, 79 negative triangles 114: dt=0.9900, 70 negative triangles 115: dt=0.9900, 72 negative triangles 116: dt=0.9900, 77 negative triangles 117: dt=0.9900, 65 negative triangles 118: dt=0.9900, 71 negative triangles 119: dt=0.9900, 58 negative triangles 120: dt=0.9900, 60 negative triangles 121: dt=0.9900, 54 negative triangles 122: dt=0.9900, 53 negative triangles 123: dt=0.9900, 46 negative triangles 124: dt=0.9900, 44 negative triangles 125: dt=0.9900, 45 negative triangles 126: dt=0.9900, 36 negative triangles 127: dt=0.9900, 35 negative triangles 128: dt=0.9900, 31 negative triangles 129: dt=0.9900, 36 negative triangles 130: dt=0.9900, 26 negative triangles 131: dt=0.9900, 26 negative triangles 132: dt=0.9900, 29 negative triangles 133: dt=0.9900, 24 negative triangles 134: dt=0.9900, 18 negative triangles 135: dt=0.9900, 21 negative triangles 136: dt=0.9900, 15 negative triangles 137: dt=0.9900, 11 negative triangles 138: dt=0.9900, 13 negative triangles 139: dt=0.9900, 9 negative triangles 140: dt=0.9900, 6 negative triangles 141: dt=0.9900, 6 negative triangles 142: dt=0.9900, 5 negative triangles 143: dt=0.9900, 5 negative triangles 144: dt=0.9900, 5 negative triangles 145: dt=0.9900, 5 negative triangles 146: dt=0.9900, 4 negative triangles 147: dt=0.9900, 4 negative triangles 148: dt=0.9900, 3 negative triangles 149: dt=0.9900, 1 negative triangles 150: dt=0.9900, 3 negative triangles 151: dt=0.9900, 1 negative triangles 152: dt=0.9900, 1 negative triangles 153: dt=0.9900, 1 negative triangles 154: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/lh.sphere spherical transformation took 0.1468 hours FSRUNTIME@ mris_sphere 0.1468 hours 1 threads #VMPC# mris_sphere VmPeak 520672 mris_sphere done @#@FSTIME 2023:08:14:14:37:08 mris_sphere N 4 e 528.65 S 15.09 U 513.51 P 99% M 261832 F 0 R 8171910 W 0 c 2315 w 1 I 0 O 8944 L 3.25 3.43 3.35 @#@FSLOADPOST 2023:08:14:14:45:57 mris_sphere N 4 3.16 3.22 3.28 #-------------------------------------------- #@# Sphere rh Mon 14 Aug 14:45:57 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_sphere -seed 1234 ../surf/rh.inflated ../surf/rh.sphere /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 version: 7.3.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.320... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 1234 singular matrix in quadratic form singular matrix in quadratic form -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %20.36 pass 1: epoch 2 of 3 starting distance error %20.34 unfolding complete - removing small folds... starting distance error %20.27 removing remaining folds... final distance error %20.30 MRISunfold() return, current seed 1234 -01: dt=0.0000, 30 negative triangles VmPeak 512468 180: dt=0.9900, 30 negative triangles 181: dt=0.9900, 16 negative triangles 182: dt=0.9900, 16 negative triangles 183: dt=0.9900, 12 negative triangles 184: dt=0.9900, 10 negative triangles 185: dt=0.9900, 8 negative triangles 186: dt=0.9900, 8 negative triangles 187: dt=0.9900, 8 negative triangles 188: dt=0.9900, 6 negative triangles 189: dt=0.9900, 6 negative triangles 190: dt=0.9900, 6 negative triangles 191: dt=0.9900, 6 negative triangles 192: dt=0.9900, 6 negative triangles 193: dt=0.9900, 5 negative triangles 194: dt=0.9900, 4 negative triangles 195: dt=0.9900, 5 negative triangles 196: dt=0.9900, 4 negative triangles 197: dt=0.9900, 4 negative triangles 198: dt=0.9900, 3 negative triangles 199: dt=0.9900, 3 negative triangles 200: dt=0.9900, 3 negative triangles 201: dt=0.9900, 7 negative triangles 202: dt=0.9900, 3 negative triangles 203: dt=0.9900, 3 negative triangles 204: dt=0.9900, 3 negative triangles 205: dt=0.9900, 3 negative triangles 206: dt=0.9900, 6 negative triangles 207: dt=0.9900, 3 negative triangles 208: dt=0.9405, 3 negative triangles 209: dt=0.9405, 3 negative triangles 210: dt=0.9405, 3 negative triangles 211: dt=0.9405, 3 negative triangles 212: dt=0.9405, 2 negative triangles 213: dt=0.9405, 3 negative triangles 214: dt=0.9405, 1 negative triangles 215: dt=0.9405, 1 negative triangles 216: dt=0.9405, 1 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 0.1835 hours FSRUNTIME@ mris_sphere 0.1835 hours 1 threads #VMPC# mris_sphere VmPeak 512468 mris_sphere done @#@FSTIME 2023:08:14:14:45:57 mris_sphere N 4 e 660.59 S 22.13 U 638.38 P 99% M 253584 F 0 R 12626922 W 0 c 3135 w 1 I 0 O 8656 L 3.16 3.22 3.28 @#@FSLOADPOST 2023:08:14:14:56:57 mris_sphere N 4 3.08 3.13 3.19 #-------------------------------------------- #@# Surf Reg lh Mon 14 Aug 14:56:57 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_register -curv ../surf/lh.sphere /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) using smoothwm curvature for final alignment cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts cmdline mris_register -curv ../surf/lh.sphere /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.3.1 7.3.1 reading surface from ../surf/lh.sphere... reading template parameterization from /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height -1.000000 momentum 0.950000 nbhd_size -10 max_nbrs 10 niterations 25 nsurfaces 0 SURFACES 3 flags 16 (10) use curv 16 no sulc 0 no rigid align 0 mris->nsize 1 mris->hemisphere 0 randomSeed 0 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization -------------------- 1 Reading lh.sulc tol=1.0e+00, sigma=0.5, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000 using quadratic fit line minimization curvature mean = 0.000, std = 5.501 curvature mean = 0.036, std = 0.821 curvature mean = 0.015, std = 0.871 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (7.00, 0.50, -8.00) sse = 163745.9, elapsed since starting=0.3831 min MRISrigidBodyAlignGlobal() done 0.38 min curvature mean = 0.010, std = 0.846 curvature mean = 0.007, std = 0.953 curvature mean = 0.007, std = 0.857 curvature mean = 0.003, std = 0.982 curvature mean = 0.006, std = 0.860 curvature mean = 0.000, std = 0.993 2 Reading smoothwm curvature mean = -0.021, std = 0.264 curvature mean = 0.040, std = 0.251 curvature mean = 0.068, std = 0.363 curvature mean = 0.037, std = 0.309 curvature mean = 0.032, std = 0.567 curvature mean = 0.035, std = 0.337 curvature mean = 0.017, std = 0.708 curvature mean = 0.035, std = 0.350 curvature mean = 0.004, std = 0.816 MRISregister() return, current seed 0 -01: dt=0.0000, 2 negative triangles VmPeak 506772 100: dt=0.9900, 2 negative triangles expanding nbhd size to 1 101: dt=0.9900, 3 negative triangles 102: dt=0.9900, 1 negative triangles 103: dt=0.9900, 2 negative triangles 104: dt=0.9900, 2 negative triangles 105: dt=0.9900, 2 negative triangles 106: dt=0.9900, 1 negative triangles writing registered surface to ../surf/lh.sphere.reg... registration took 0.12 hours #VMPC# mris_register VmPeak 506772 FSRUNTIME@ mris_register 0.1190 hours 1 threads @#@FSTIME 2023:08:14:14:56:57 mris_register N 4 e 428.42 S 11.85 U 416.52 P 99% M 248164 F 0 R 6664760 W 0 c 1833 w 2 I 216 O 8944 L 3.08 3.13 3.19 @#@FSLOADPOST 2023:08:14:15:04:06 mris_register N 4 3.07 3.11 3.16 ln -sf lh.sphere.reg lh.fsaverage.sphere.reg #-------------------------------------------- #@# Surf Reg rh Mon 14 Aug 15:04:06 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_register -curv ../surf/rh.sphere /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) using smoothwm curvature for final alignment cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts cmdline mris_register -curv ../surf/rh.sphere /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.3.1 7.3.1 reading surface from ../surf/rh.sphere... reading template parameterization from /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height -1.000000 momentum 0.950000 nbhd_size -10 max_nbrs 10 niterations 25 nsurfaces 0 SURFACES 3 flags 16 (10) use curv 16 no sulc 0 no rigid align 0 mris->nsize 1 mris->hemisphere 1 randomSeed 0 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization -------------------- 1 Reading rh.sulc tol=1.0e+00, sigma=0.5, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000 using quadratic fit line minimization curvature mean = 0.000, std = 5.443 curvature mean = 0.029, std = 0.810 curvature mean = 0.008, std = 0.873 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (11.00, -1.50, -4.00) sse = 175719.8, elapsed since starting=0.3575 min MRISrigidBodyAlignGlobal() done 0.36 min curvature mean = 0.012, std = 0.827 curvature mean = 0.004, std = 0.953 curvature mean = 0.008, std = 0.837 curvature mean = 0.002, std = 0.982 curvature mean = 0.006, std = 0.839 curvature mean = 0.000, std = 0.993 2 Reading smoothwm curvature mean = -0.019, std = 0.268 curvature mean = 0.035, std = 0.242 curvature mean = 0.050, std = 0.374 curvature mean = 0.033, std = 0.301 curvature mean = 0.028, std = 0.565 curvature mean = 0.032, std = 0.328 curvature mean = 0.014, std = 0.704 curvature mean = 0.032, std = 0.340 curvature mean = 0.003, std = 0.811 MRISregister() return, current seed 0 -01: dt=0.0000, 36 negative triangles VmPeak 501908 104: dt=0.9900, 36 negative triangles expanding nbhd size to 1 105: dt=0.9900, 45 negative triangles 106: dt=0.9900, 42 negative triangles 107: dt=0.9900, 40 negative triangles 108: dt=0.9900, 44 negative triangles 109: dt=0.9900, 43 negative triangles 110: dt=0.9405, 46 negative triangles 111: dt=0.9405, 49 negative triangles 112: dt=0.9405, 49 negative triangles 113: dt=0.9405, 49 negative triangles 114: dt=0.9405, 49 negative triangles 115: dt=0.9405, 48 negative triangles 116: dt=0.9405, 49 negative triangles 117: dt=0.9405, 48 negative triangles 118: dt=0.9405, 46 negative triangles 119: dt=0.9405, 46 negative triangles 120: dt=0.8935, 47 negative triangles 121: dt=0.8935, 43 negative triangles 122: dt=0.8935, 44 negative triangles 123: dt=0.8935, 44 negative triangles 124: dt=0.8935, 48 negative triangles 125: dt=0.8935, 47 negative triangles 126: dt=0.8935, 47 negative triangles 127: dt=0.8935, 44 negative triangles 128: dt=0.8935, 41 negative triangles 129: dt=0.8935, 40 negative triangles 130: dt=0.8488, 41 negative triangles 131: dt=0.8488, 41 negative triangles 132: dt=0.8488, 41 negative triangles 133: dt=0.8488, 40 negative triangles 134: dt=0.8488, 38 negative triangles 135: dt=0.8488, 36 negative triangles 136: dt=0.8488, 34 negative triangles 137: dt=0.8488, 31 negative triangles 138: dt=0.8488, 31 negative triangles 139: dt=0.8488, 31 negative triangles 140: dt=0.8488, 32 negative triangles 141: dt=0.8488, 32 negative triangles 142: dt=0.8488, 30 negative triangles 143: dt=0.8488, 29 negative triangles 144: dt=0.8488, 30 negative triangles 145: dt=0.8488, 29 negative triangles 146: dt=0.8488, 29 negative triangles 147: dt=0.8488, 30 negative triangles 148: dt=0.8488, 29 negative triangles 149: dt=0.8488, 29 negative triangles 150: dt=0.8488, 28 negative triangles 151: dt=0.8488, 28 negative triangles 152: dt=0.8488, 28 negative triangles 153: dt=0.8488, 27 negative triangles 154: dt=0.8488, 26 negative triangles 155: dt=0.8488, 26 negative triangles 156: dt=0.8488, 27 negative triangles 157: dt=0.8488, 27 negative triangles 158: dt=0.8488, 27 negative triangles 159: dt=0.8488, 26 negative triangles 160: dt=0.8488, 26 negative triangles 161: dt=0.8488, 27 negative triangles 162: dt=0.8488, 26 negative triangles 163: dt=0.8488, 25 negative triangles 164: dt=0.8488, 22 negative triangles 165: dt=0.8488, 22 negative triangles 166: dt=0.8488, 23 negative triangles 167: dt=0.8488, 25 negative triangles 168: dt=0.8488, 23 negative triangles 169: dt=0.8488, 22 negative triangles 170: dt=0.8488, 22 negative triangles 171: dt=0.8488, 22 negative triangles 172: dt=0.8488, 22 negative triangles 173: dt=0.8488, 23 negative triangles 174: dt=0.8064, 24 negative triangles 175: dt=0.8064, 22 negative triangles 176: dt=0.8064, 22 negative triangles 177: dt=0.8064, 21 negative triangles 178: dt=0.8064, 20 negative triangles 179: dt=0.8064, 21 negative triangles 180: dt=0.8064, 20 negative triangles 181: dt=0.8064, 20 negative triangles 182: dt=0.8064, 18 negative triangles 183: dt=0.8064, 17 negative triangles 184: dt=0.8064, 17 negative triangles 185: dt=0.8064, 18 negative triangles 186: dt=0.8064, 17 negative triangles 187: dt=0.8064, 17 negative triangles 188: dt=0.8064, 17 negative triangles 189: dt=0.8064, 15 negative triangles 190: dt=0.8064, 15 negative triangles 191: dt=0.8064, 14 negative triangles 192: dt=0.8064, 15 negative triangles 193: dt=0.8064, 14 negative triangles 194: dt=0.8064, 15 negative triangles 195: dt=0.8064, 13 negative triangles 196: dt=0.8064, 11 negative triangles 197: dt=0.8064, 11 negative triangles 198: dt=0.8064, 13 negative triangles 199: dt=0.8064, 13 negative triangles 200: dt=0.8064, 12 negative triangles 201: dt=0.8064, 12 negative triangles 202: dt=0.8064, 10 negative triangles 203: dt=0.8064, 11 negative triangles 204: dt=0.8064, 8 negative triangles 205: dt=0.8064, 8 negative triangles 206: dt=0.8064, 9 negative triangles 207: dt=0.8064, 9 negative triangles 208: dt=0.8064, 9 negative triangles 209: dt=0.8064, 8 negative triangles 210: dt=0.8064, 10 negative triangles 211: dt=0.8064, 10 negative triangles 212: dt=0.8064, 8 negative triangles 213: dt=0.8064, 7 negative triangles 214: dt=0.8064, 7 negative triangles 215: dt=0.8064, 6 negative triangles 216: dt=0.8064, 6 negative triangles 217: dt=0.8064, 9 negative triangles 218: dt=0.8064, 8 negative triangles 219: dt=0.8064, 7 negative triangles 220: dt=0.8064, 6 negative triangles 221: dt=0.8064, 6 negative triangles 222: dt=0.8064, 6 negative triangles 223: dt=0.8064, 9 negative triangles 224: dt=0.8064, 6 negative triangles 225: dt=0.7660, 6 negative triangles 226: dt=0.7660, 4 negative triangles 227: dt=0.7660, 6 negative triangles 228: dt=0.7660, 3 negative triangles 229: dt=0.7660, 2 negative triangles 230: dt=0.7660, 1 negative triangles 231: dt=0.7660, 2 negative triangles 232: dt=0.7660, 3 negative triangles writing registered surface to ../surf/rh.sphere.reg... registration took 0.13 hours #VMPC# mris_register VmPeak 501908 FSRUNTIME@ mris_register 0.1324 hours 1 threads @#@FSTIME 2023:08:14:15:04:06 mris_register N 4 e 476.77 S 15.15 U 461.57 P 99% M 243728 F 0 R 8421919 W 0 c 1837 w 2 I 256 O 8656 L 3.07 3.11 3.16 @#@FSLOADPOST 2023:08:14:15:12:03 mris_register N 4 3.33 3.19 3.17 ln -sf rh.sphere.reg rh.fsaverage.sphere.reg #-------------------------------------------- #@# Jacobian white lh Mon 14 Aug 15:12:03 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading surface from ../surf/lh.white.preaparc... writing curvature file ../surf/lh.jacobian_white @#@FSTIME 2023:08:14:15:12:03 mris_jacobian N 3 e 1.22 S 0.10 U 1.12 P 100% M 195368 F 0 R 58830 W 0 c 6 w 1 I 0 O 1000 L 3.33 3.19 3.17 @#@FSLOADPOST 2023:08:14:15:12:04 mris_jacobian N 3 3.33 3.19 3.17 #-------------------------------------------- #@# Jacobian white rh Mon 14 Aug 15:12:04 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading surface from ../surf/rh.white.preaparc... writing curvature file ../surf/rh.jacobian_white @#@FSTIME 2023:08:14:15:12:04 mris_jacobian N 3 e 1.17 S 0.11 U 1.06 P 99% M 189012 F 0 R 56942 W 0 c 8 w 1 I 0 O 968 L 3.33 3.19 3.17 @#@FSLOADPOST 2023:08:14:15:12:05 mris_jacobian N 3 3.38 3.20 3.17 #-------------------------------------------- #@# AvgCurv lh Mon 14 Aug 15:12:05 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mrisp_paint -a 5 /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) averaging curvature patterns 5 times... reading surface from ../surf/lh.sphere.reg... reading template parameterization from /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/lh.avg_curv... @#@FSTIME 2023:08:14:15:12:05 mrisp_paint N 5 e 0.95 S 0.09 U 0.85 P 99% M 150812 F 0 R 41042 W 0 c 6 w 0 I 0 O 1000 L 3.38 3.20 3.17 @#@FSLOADPOST 2023:08:14:15:12:06 mrisp_paint N 5 3.38 3.20 3.17 #-------------------------------------------- #@# AvgCurv rh Mon 14 Aug 15:12:06 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mrisp_paint -a 5 /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) averaging curvature patterns 5 times... reading surface from ../surf/rh.sphere.reg... reading template parameterization from /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/rh.avg_curv... @#@FSTIME 2023:08:14:15:12:06 mrisp_paint N 5 e 0.81 S 0.06 U 0.74 P 99% M 146216 F 0 R 39766 W 0 c 5 w 1 I 0 O 968 L 3.38 3.20 3.17 @#@FSLOADPOST 2023:08:14:15:12:07 mrisp_paint N 5 3.38 3.20 3.17 #----------------------------------------- #@# Cortical Parc lh Mon 14 Aug 15:12:07 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL lh ../surf/lh.sphere.reg /home/rosalia/software/freesurfer/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.8 using min determinant for regularization = 0.006 0 singular and 342 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1404 labels changed using aseg relabeling using gibbs priors... 000: 2926 changed, 127061 examined... 001: 679 changed, 12319 examined... 002: 153 changed, 3886 examined... 003: 49 changed, 913 examined... 004: 21 changed, 293 examined... 005: 10 changed, 133 examined... 006: 6 changed, 59 examined... 007: 3 changed, 26 examined... 008: 3 changed, 17 examined... 009: 0 changed, 15 examined... 267 labels changed using aseg 000: 117 total segments, 77 labels (193 vertices) changed 001: 40 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 6 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1825 vertices marked for relabeling... 1825 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 10 seconds. @#@FSTIME 2023:08:14:15:12:07 mris_ca_label N 11 e 10.23 S 0.64 U 9.58 P 99% M 1180748 F 0 R 364171 W 0 c 57 w 1 I 0 O 1992 L 3.38 3.20 3.17 @#@FSLOADPOST 2023:08:14:15:12:17 mris_ca_label N 11 3.32 3.20 3.17 #----------------------------------------- #@# Cortical Parc rh Mon 14 Aug 15:12:17 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL rh ../surf/rh.sphere.reg /home/rosalia/software/freesurfer/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.7 using min determinant for regularization = 0.004 0 singular and 309 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1228 labels changed using aseg relabeling using gibbs priors... 000: 2597 changed, 122963 examined... 001: 588 changed, 11359 examined... 002: 111 changed, 3363 examined... 003: 33 changed, 713 examined... 004: 10 changed, 190 examined... 005: 4 changed, 67 examined... 006: 2 changed, 28 examined... 007: 0 changed, 13 examined... 259 labels changed using aseg 000: 99 total segments, 55 labels (202 vertices) changed 001: 45 total segments, 1 labels (1 vertices) changed 002: 44 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 3 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1693 vertices marked for relabeling... 1693 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 11 seconds. @#@FSTIME 2023:08:14:15:12:17 mris_ca_label N 11 e 10.75 S 0.67 U 10.07 P 99% M 1079836 F 0 R 391069 W 0 c 48 w 0 I 0 O 1928 L 3.32 3.20 3.17 @#@FSLOADPOST 2023:08:14:15:12:28 mris_ca_label N 11 3.35 3.21 3.17 #-------------------------------------------- #@# WhiteSurfs lh Mon 14 Aug 15:12:28 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white.preaparc --o ../surf/lh.white --white --nsmooth 0 --rip-label ../label/lh.cortex.label --rip-bg --rip-surf ../surf/lh.white.preaparc --aparc ../label/lh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white.preaparc --o ../surf/lh.white --white --nsmooth 0 --rip-label ../label/lh.cortex.label --rip-bg --rip-surf ../surf/lh.white.preaparc --aparc ../label/lh.aparc.annot Reading in input surface ../surf/lh.white.preaparc Not smoothing input surface Area 254118 0.34443 0.13600 0.000111 2.2620 Corner 762354 60.00000 15.74347 0.119128 179.7499 Edge 381177 0.90576 0.22310 0.009831 3.5393 Hinge 381177 11.09324 12.74761 0.000016 179.9851 Reading in aparc ../label/lh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21752, wmmin=5, clip=110 MRIfindBrightNonWM(): 7465 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex.label MRISripNotLabel() ripped 9968/127061 vertices (117093 unripped) Reading in ripping surface ../surf/lh.white.preaparc Reading in aparc ../label/lh.aparc.annot for ripsurf Ripping BG MRISripBasalGanglia(): 1 -2 2 0.5 ripped 457 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 63531: xyz = (-62.6355,-8.98133,11.9283) oxyz = (-62.6355,-8.98133,11.9283) wxzy = (-62.6355,-8.98133,11.9283) pxyz = (0,0,0) CBVO Creating mask 127061 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8341600; border_low = 64.0000000; outside_low = 51.3442420; outside_hi = 105.8341600; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=2 had to be increased for 162 vertices, nripped=10425 mean border=77.4, 263 (263) missing vertices, mean dist 0.3 [1.8 (%15.5)->0.7 (%84.5))] %20 local maxima, %71 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1432 min Finding expansion regions mean absolute distance = 0.83 +- 1.14 4362 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=1751168.0, rms=8.196 001: dt: 0.5000, sse=766618.6, rms=5.001 (38.980%) 002: dt: 0.5000, sse=507373.0, rms=3.736 (25.299%) 003: dt: 0.5000, sse=452500.2, rms=3.406 (8.839%) 004: dt: 0.5000, sse=426231.2, rms=3.219 (5.483%) rms = 3.2678/3.2189, sse=432519.4/426231.2, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 005: dt: 0.2500, sse=298570.3, rms=2.208 (31.395%) 006: dt: 0.2500, sse=253162.9, rms=1.697 (23.155%) 007: dt: 0.2500, sse=240452.4, rms=1.527 (10.015%) 008: dt: 0.2500, sse=237763.2, rms=1.477 (3.276%) rms = 1.4460/1.4770, sse=236372.7/237763.2, time step reduction 2 of 3 to 0.125 0 0 1 009: dt: 0.2500, sse=236372.7, rms=1.446 (2.102%) 010: dt: 0.1250, sse=232628.0, rms=1.367 (5.446%) rms = 1.3559/1.3672, sse=232012.0/232628.0, time step reduction 3 of 3 to 0.062 0 0 1 011: dt: 0.1250, sse=232012.0, rms=1.356 (0.824%) maximum number of reductions reached, breaking from loop positioning took 1.2 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8341600; border_low = 64.0000000; outside_low = 51.3442420; outside_hi = 105.8341600; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=1 had to be increased for 156 vertices, nripped=10425 mean border=79.5, 182 (105) missing vertices, mean dist -0.2 [0.6 (%59.5)->0.3 (%40.5))] %34 local maxima, %58 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1248 min Finding expansion regions mean absolute distance = 0.44 +- 0.84 4204 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=554612.4, rms=3.889 012: dt: 0.5000, sse=381981.4, rms=2.767 (28.864%) rms = 2.8586/2.7667, sse=390401.9/381981.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 013: dt: 0.2500, sse=308983.1, rms=2.140 (22.638%) 014: dt: 0.2500, sse=265801.8, rms=1.634 (23.655%) 015: dt: 0.2500, sse=247020.3, rms=1.399 (14.395%) 016: dt: 0.2500, sse=240084.1, rms=1.290 (7.752%) rms = 1.2465/1.2904, sse=238701.8/240084.1, time step reduction 2 of 3 to 0.125 0 0 1 017: dt: 0.2500, sse=238701.8, rms=1.246 (3.402%) 018: dt: 0.1250, sse=232789.2, rms=1.157 (7.163%) rms = 1.1431/1.1572, sse=233351.6/232789.2, time step reduction 3 of 3 to 0.062 0 1 1 019: dt: 0.1250, sse=233351.6, rms=1.143 (1.215%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8341600; border_low = 64.0000000; outside_low = 51.3442420; outside_hi = 105.8341600; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 156 vertices, nripped=10425 mean border=82.5, 175 (85) missing vertices, mean dist -0.2 [0.4 (%69.3)->0.2 (%30.7))] %58 local maxima, %34 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0755 min Finding expansion regions mean absolute distance = 0.36 +- 0.52 3547 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=598096.3, rms=4.144 020: dt: 0.5000, sse=369467.2, rms=2.670 (35.580%) rms = 2.8774/2.6696, sse=395957.9/369467.2, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 021: dt: 0.2500, sse=281452.1, rms=1.860 (30.310%) 022: dt: 0.2500, sse=245414.6, rms=1.339 (28.010%) 023: dt: 0.2500, sse=235485.3, rms=1.173 (12.419%) rms = 1.1330/1.1730, sse=232947.5/235485.3, time step reduction 2 of 3 to 0.125 0 0 1 024: dt: 0.2500, sse=232947.5, rms=1.133 (3.412%) 025: dt: 0.1250, sse=227737.9, rms=1.028 (9.308%) rms = 1.0163/1.0275, sse=226718.2/227737.9, time step reduction 3 of 3 to 0.062 0 0 1 026: dt: 0.1250, sse=226718.2, rms=1.016 (1.090%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8341600; border_low = 64.0000000; outside_low = 51.3442420; outside_hi = 105.8341600; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 216 vertices, nripped=10425 mean border=84.0, 218 (74) missing vertices, mean dist -0.1 [0.3 (%60.4)->0.2 (%39.6))] %69 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0542 min Finding expansion regions mean absolute distance = 0.27 +- 0.40 2796 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=300241.7, rms=2.101 rms = 2.0800/2.1014, sse=315930.7/300241.7, time step reduction 1 of 3 to 0.250 0 1 1 027: dt: 0.5000, sse=315930.7, rms=2.080 (1.018%) 028: dt: 0.2500, sse=241301.8, rms=1.226 (41.064%) 029: dt: 0.2500, sse=230384.2, rms=1.035 (15.584%) rms = 1.0936/1.0348, sse=229799.6/230384.2, time step reduction 2 of 3 to 0.125 0 0 1 RMS increased, rejecting step 030: dt: 0.1250, sse=223762.1, rms=0.930 (10.107%) 031: dt: 0.1250, sse=216922.1, rms=0.788 (15.238%) rms = 0.7778/0.7885, sse=217234.8/216922.1, time step reduction 3 of 3 to 0.062 0 1 1 032: dt: 0.1250, sse=217234.8, rms=0.778 (1.359%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes Writing output to ../surf/lh.white #ET# mris_place_surface 3.92 minutes #VMPC# mris_place_surfaces VmPeak 2027036 mris_place_surface done @#@FSTIME 2023:08:14:15:12:28 mris_place_surface N 25 e 244.08 S 0.92 U 243.12 P 99% M 1768756 F 0 R 465371 W 0 c 1066 w 1 I 0 O 8936 L 3.35 3.21 3.17 @#@FSLOADPOST 2023:08:14:15:16:32 mris_place_surface N 25 3.38 3.27 3.20 #-------------------------------------------- #@# WhiteSurfs rh Mon 14 Aug 15:16:32 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white.preaparc --o ../surf/rh.white --white --nsmooth 0 --rip-label ../label/rh.cortex.label --rip-bg --rip-surf ../surf/rh.white.preaparc --aparc ../label/rh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white.preaparc --o ../surf/rh.white --white --nsmooth 0 --rip-label ../label/rh.cortex.label --rip-bg --rip-surf ../surf/rh.white.preaparc --aparc ../label/rh.aparc.annot Reading in input surface ../surf/rh.white.preaparc Not smoothing input surface Area 245922 0.35159 0.14408 0.000055 2.3467 Corner 737766 60.00000 15.98221 0.149968 179.3427 Edge 368883 0.91598 0.23548 0.011886 3.8948 Hinge 368883 11.19694 13.12399 0.000025 179.7241 Reading in aparc ../label/rh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21752, wmmin=5, clip=110 MRIfindBrightNonWM(): 7465 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex.label MRISripNotLabel() ripped 9406/122963 vertices (113557 unripped) Reading in ripping surface ../surf/rh.white.preaparc Reading in aparc ../label/rh.aparc.annot for ripsurf Ripping BG MRISripBasalGanglia(): 1 -2 2 0.5 ripped 485 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 61482: xyz = (19.8147,-3.80007,-19.3223) oxyz = (19.8147,-3.80007,-19.3223) wxzy = (19.8147,-3.80007,-19.3223) pxyz = (0,0,0) CBVO Creating mask 122963 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8341600; border_low = 63.0000000; outside_low = 50.3442420; outside_hi = 107.8341600; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=2 had to be increased for 223 vertices, nripped=9891 mean border=76.4, 250 (250) missing vertices, mean dist 0.2 [1.9 (%15.9)->0.6 (%84.1))] %22 local maxima, %70 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1777 min Finding expansion regions mean absolute distance = 0.83 +- 1.19 4274 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=1711710.8, rms=8.222 001: dt: 0.5000, sse=746911.4, rms=4.995 (39.245%) 002: dt: 0.5000, sse=511114.9, rms=3.797 (23.991%) 003: dt: 0.5000, sse=466279.9, rms=3.516 (7.405%) 004: dt: 0.5000, sse=434570.1, rms=3.316 (5.691%) rms = 3.3841/3.3155, sse=444539.5/434570.1, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 005: dt: 0.2500, sse=307465.5, rms=2.307 (30.419%) 006: dt: 0.2500, sse=261908.6, rms=1.798 (22.067%) 007: dt: 0.2500, sse=249171.5, rms=1.628 (9.465%) rms = 1.5847/1.6277, sse=244171.2/249171.5, time step reduction 2 of 3 to 0.125 0 0 1 008: dt: 0.2500, sse=244171.2, rms=1.585 (2.643%) 009: dt: 0.1250, sse=238989.2, rms=1.512 (4.582%) rms = 1.4980/1.5121, sse=238459.4/238989.2, time step reduction 3 of 3 to 0.062 0 0 1 010: dt: 0.1250, sse=238459.4, rms=1.498 (0.930%) maximum number of reductions reached, breaking from loop positioning took 1.1 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8341600; border_low = 63.0000000; outside_low = 50.3442420; outside_hi = 107.8341600; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=1 had to be increased for 246 vertices, nripped=9891 mean border=78.7, 191 (90) missing vertices, mean dist -0.2 [0.6 (%59.4)->0.3 (%40.6))] %36 local maxima, %56 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1366 min Finding expansion regions mean absolute distance = 0.45 +- 0.87 4277 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=575820.4, rms=4.077 011: dt: 0.5000, sse=390982.4, rms=2.886 (29.218%) rms = 3.0017/2.8856, sse=404399.8/390982.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 012: dt: 0.2500, sse=315528.6, rms=2.234 (22.573%) 013: dt: 0.2500, sse=268127.2, rms=1.713 (23.321%) 014: dt: 0.2500, sse=250451.2, rms=1.462 (14.656%) 015: dt: 0.2500, sse=243450.5, rms=1.357 (7.201%) rms = 1.3173/1.3568, sse=241198.5/243450.5, time step reduction 2 of 3 to 0.125 0 0 1 016: dt: 0.2500, sse=241198.5, rms=1.317 (2.916%) 017: dt: 0.1250, sse=237204.9, rms=1.247 (5.313%) rms = 1.2372/1.2473, sse=236538.4/237204.9, time step reduction 3 of 3 to 0.062 0 0 1 018: dt: 0.1250, sse=236538.4, rms=1.237 (0.808%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8341600; border_low = 63.0000000; outside_low = 50.3442420; outside_hi = 107.8341600; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 203 vertices, nripped=9891 mean border=81.5, 212 (69) missing vertices, mean dist -0.2 [0.4 (%68.2)->0.2 (%31.8))] %58 local maxima, %33 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0772 min Finding expansion regions mean absolute distance = 0.35 +- 0.54 3381 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=566360.6, rms=4.043 019: dt: 0.5000, sse=363210.7, rms=2.679 (33.738%) rms = 2.9785/2.6790, sse=398633.3/363210.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 020: dt: 0.2500, sse=275267.1, rms=1.834 (31.542%) 021: dt: 0.2500, sse=239030.2, rms=1.348 (26.488%) 022: dt: 0.2500, sse=231373.5, rms=1.209 (10.311%) rms = 1.1806/1.2092, sse=229067.1/231373.5, time step reduction 2 of 3 to 0.125 0 0 1 023: dt: 0.2500, sse=229067.1, rms=1.181 (2.361%) 024: dt: 0.1250, sse=224945.0, rms=1.098 (7.040%) rms = 1.0904/1.0975, sse=224394.4/224945.0, time step reduction 3 of 3 to 0.062 0 0 1 025: dt: 0.1250, sse=224394.4, rms=1.090 (0.644%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8341600; border_low = 63.0000000; outside_low = 50.3442420; outside_hi = 107.8341600; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 213 vertices, nripped=9891 mean border=82.9, 267 (49) missing vertices, mean dist -0.1 [0.3 (%59.0)->0.2 (%41.0))] %69 local maxima, %22 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0553 min Finding expansion regions mean absolute distance = 0.27 +- 0.41 2833 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=294418.6, rms=2.120 rms = 2.1358/2.1199, sse=306730.3/294418.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 026: dt: 0.2500, sse=238289.7, rms=1.401 (33.899%) 027: dt: 0.2500, sse=214489.8, rms=0.876 (37.519%) rms = 0.8592/0.8755, sse=213331.2/214489.8, time step reduction 2 of 3 to 0.125 0 0 1 028: dt: 0.2500, sse=213331.2, rms=0.859 (1.865%) rms = 0.8359/0.8592, sse=212045.2/213331.2, time step reduction 3 of 3 to 0.062 0 0 1 029: dt: 0.1250, sse=212045.2, rms=0.836 (2.717%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/rh.white #ET# mris_place_surface 3.60 minutes #VMPC# mris_place_surfaces VmPeak 1938684 mris_place_surface done @#@FSTIME 2023:08:14:15:16:32 mris_place_surface N 25 e 225.46 S 0.82 U 224.61 P 99% M 1680288 F 0 R 456189 W 0 c 1025 w 1 I 0 O 8648 L 3.38 3.27 3.20 @#@FSLOADPOST 2023:08:14:15:20:18 mris_place_surface N 25 3.10 3.28 3.22 #-------------------------------------------- #@# T1PialSurf lh Mon 14 Aug 15:20:18 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white --o ../surf/lh.pial.T1 --pial --nsmooth 0 --rip-label ../label/lh.cortex+hipamyg.label --pin-medial-wall ../label/lh.cortex.label --aparc ../label/lh.aparc.annot --repulse-surf ../surf/lh.white --white-surf ../surf/lh.white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white --o ../surf/lh.pial.T1 --pial --nsmooth 0 --rip-label ../label/lh.cortex+hipamyg.label --pin-medial-wall ../label/lh.cortex.label --aparc ../label/lh.aparc.annot --repulse-surf ../surf/lh.white --white-surf ../surf/lh.white Reading in input surface ../surf/lh.white Not smoothing input surface Area 254118 0.34503 0.14442 0.000447 2.2620 Corner 762354 60.00000 16.58781 0.186123 179.6041 Edge 381177 0.90715 0.23284 0.012708 3.8079 Hinge 381177 11.20076 13.06697 0.000008 179.9931 Reading white surface coordinates from ../surf/lh.white Reading repulsion surface coordinates from ../surf/lh.white Reading in aparc ../label/lh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21752, wmmin=5, clip=110 MRIfindBrightNonWM(): 7465 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 57.0993 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex+hipamyg.label MRISripNotLabel() ripped 8432/127061 vertices (118629 unripped) INFO: rip surface needed but not specified, so using input surface Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 63531: xyz = (-62.5244,-9.11192,11.8372) oxyz = (-62.5244,-9.11192,11.8372) wxzy = (-62.5244,-9.11192,11.8372) pxyz = (-62.5244,-9.11192,11.8372) CBVO Creating mask 127061 n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 88.1658400; border_hi = 51.3442420; border_low = 26.0327220; outside_low = 10.0000000; outside_hi = 45.0163650; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=2 had to be increased for 257 vertices, nripped=8432 mean border=47.9, 311 (311) missing vertices, mean dist 1.9 [0.0 (%0.0)->2.1 (%100.0))] %23 local maxima, %60 large gradients and %10 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1603 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=31969264.0, rms=36.649 001: dt: 0.5000, sse=23388964.0, rms=31.314 (14.558%) 002: dt: 0.5000, sse=16737534.0, rms=26.447 (15.543%) 003: dt: 0.5000, sse=11918789.0, rms=22.265 (15.814%) 004: dt: 0.5000, sse=8746891.0, rms=19.015 (14.595%) 005: dt: 0.5000, sse=6733535.0, rms=16.626 (12.562%) 006: dt: 0.5000, sse=5067008.5, rms=14.350 (13.689%) 007: dt: 0.5000, sse=3834577.5, rms=12.400 (13.587%) 008: dt: 0.5000, sse=2825953.8, rms=10.538 (15.019%) 009: dt: 0.5000, sse=2192400.8, rms=9.176 (12.924%) 010: dt: 0.5000, sse=1704713.8, rms=7.969 (13.154%) 011: dt: 0.5000, sse=1493970.2, rms=7.386 (7.323%) 012: dt: 0.5000, sse=1297740.0, rms=6.796 (7.981%) 013: dt: 0.5000, sse=1264645.6, rms=6.689 (1.571%) 014: dt: 0.5000, sse=1161414.2, rms=6.351 (5.060%) rms = 6.3942/6.3508, sse=1175132.0/1161414.2, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 015: dt: 0.2500, sse=796868.4, rms=4.979 (21.609%) 016: dt: 0.2500, sse=685547.8, rms=4.475 (10.114%) 017: dt: 0.2500, sse=658956.4, rms=4.345 (2.903%) 018: dt: 0.2500, sse=644952.7, rms=4.275 (1.603%) 019: dt: 0.2500, sse=632949.2, rms=4.215 (1.422%) 020: dt: 0.2500, sse=619477.6, rms=4.145 (1.644%) 021: dt: 0.2500, sse=607690.6, rms=4.084 (1.492%) rms = 4.0344/4.0835, sse=598469.2/607690.7, time step reduction 2 of 3 to 0.125 0 0 1 022: dt: 0.2500, sse=598469.2, rms=4.034 (1.203%) 023: dt: 0.1250, sse=504777.4, rms=3.504 (13.148%) 024: dt: 0.1250, sse=491019.9, rms=3.419 (2.420%) rms = 3.3952/3.4191, sse=487301.1/491019.9, time step reduction 3 of 3 to 0.062 0 0 1 025: dt: 0.1250, sse=487301.1, rms=3.395 (0.700%) maximum number of reductions reached, breaking from loop positioning took 2.3 minutes Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 88.1658400; border_hi = 51.3442420; border_low = 26.0327220; outside_low = 10.0000000; outside_hi = 45.0163650; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=1 had to be increased for 1929 vertices, nripped=8432 mean border=45.8, 316 (10) missing vertices, mean dist 0.1 [0.1 (%48.8)->0.4 (%51.2))] %41 local maxima, %43 large gradients and % 9 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0462 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=828561.1, rms=4.891 rms = 5.5397/4.8914, sse=989907.7/828561.1, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 026: dt: 0.2500, sse=684404.5, rms=4.222 (13.689%) 027: dt: 0.2500, sse=615781.3, rms=3.861 (8.550%) 028: dt: 0.2500, sse=593917.3, rms=3.741 (3.107%) rms = 3.7283/3.7409, sse=591632.4/593917.3, time step reduction 2 of 3 to 0.125 0 0 1 029: dt: 0.2500, sse=591632.4, rms=3.728 (0.336%) 030: dt: 0.1250, sse=544792.9, rms=3.450 (7.473%) 031: dt: 0.1250, sse=533809.1, rms=3.382 (1.977%) rms = 3.3573/3.3815, sse=529946.0/533809.2, time step reduction 3 of 3 to 0.062 0 0 1 032: dt: 0.1250, sse=529946.1, rms=3.357 (0.717%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 88.1658400; border_hi = 51.3442420; border_low = 26.0327220; outside_low = 10.0000000; outside_hi = 45.0163650; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 2042 vertices, nripped=8432 mean border=43.9, 524 (5) missing vertices, mean dist 0.1 [0.1 (%44.5)->0.3 (%55.5))] %54 local maxima, %30 large gradients and % 9 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0272 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=683405.1, rms=4.191 rms = 5.4950/4.1914, sse=984201.5/683405.1, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 033: dt: 0.2500, sse=577983.8, rms=3.619 (13.661%) 034: dt: 0.2500, sse=552951.5, rms=3.469 (4.150%) rms = 3.4402/3.4687, sse=547660.6/552951.5, time step reduction 2 of 3 to 0.125 0 0 1 035: dt: 0.2500, sse=547660.6, rms=3.440 (0.820%) 036: dt: 0.1250, sse=521784.5, rms=3.276 (4.775%) rms = 3.2416/3.2760, sse=516449.3/521784.5, time step reduction 3 of 3 to 0.062 0 0 1 037: dt: 0.1250, sse=516449.3, rms=3.242 (1.049%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 3 ========================================= n_averages=2, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 88.1658400; border_hi = 51.3442420; border_low = 26.0327220; outside_low = 10.0000000; outside_hi = 45.0163650; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 1424 vertices, nripped=8432 mean border=42.7, 1263 (3) missing vertices, mean dist 0.1 [0.1 (%49.8)->0.2 (%50.2))] %58 local maxima, %26 large gradients and % 9 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0284 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=564057.7, rms=3.538 rms = 4.9002/3.5383, sse=837095.8/564057.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 038: dt: 0.2500, sse=512218.7, rms=3.212 (9.231%) 039: dt: 0.2500, sse=501210.2, rms=3.141 (2.189%) rms = 3.1225/3.1414, sse=497749.4/501210.2, time step reduction 2 of 3 to 0.125 0 0 1 040: dt: 0.2500, sse=497749.4, rms=3.122 (0.604%) 041: dt: 0.1250, sse=474206.1, rms=2.959 (5.250%) rms = 2.9205/2.9585, sse=468722.5/474206.1, time step reduction 3 of 3 to 0.062 0 0 1 042: dt: 0.1250, sse=468722.5, rms=2.920 (1.286%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Pinning medial wall to white surface removing intersecting faces 000: 7 intersecting step 1 with no progress (num=11, old_num=7) 001: 11 intersecting 002: 5 intersecting terminating search with 0 intersecting Writing output to ../surf/lh.pial.T1 #ET# mris_place_surface 4.43 minutes #VMPC# mris_place_surfaces VmPeak 1338884 mris_place_surface done @#@FSTIME 2023:08:14:15:20:18 mris_place_surface N 28 e 274.15 S 0.53 U 273.60 P 99% M 1080464 F 0 R 290951 W 0 c 1009 w 1 I 0 O 8936 L 3.10 3.28 3.22 @#@FSLOADPOST 2023:08:14:15:24:52 mris_place_surface N 28 3.24 3.34 3.27 #-------------------------------------------- #@# T1PialSurf rh Mon 14 Aug 15:24:52 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white --o ../surf/rh.pial.T1 --pial --nsmooth 0 --rip-label ../label/rh.cortex+hipamyg.label --pin-medial-wall ../label/rh.cortex.label --aparc ../label/rh.aparc.annot --repulse-surf ../surf/rh.white --white-surf ../surf/rh.white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white --o ../surf/rh.pial.T1 --pial --nsmooth 0 --rip-label ../label/rh.cortex+hipamyg.label --pin-medial-wall ../label/rh.cortex.label --aparc ../label/rh.aparc.annot --repulse-surf ../surf/rh.white --white-surf ../surf/rh.white Reading in input surface ../surf/rh.white Not smoothing input surface Area 245922 0.35460 0.15762 0.000055 2.6648 Corner 737766 60.00000 17.05606 0.311959 178.9548 Edge 368883 0.92086 0.25128 0.007268 3.8568 Hinge 368883 11.34069 13.43378 0.000020 179.9650 Reading white surface coordinates from ../surf/rh.white Reading repulsion surface coordinates from ../surf/rh.white Reading in aparc ../label/rh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21752, wmmin=5, clip=110 MRIfindBrightNonWM(): 7465 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 57.5993 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex+hipamyg.label MRISripNotLabel() ripped 8001/122963 vertices (114962 unripped) INFO: rip surface needed but not specified, so using input surface Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 61482: xyz = (19.8147,-3.80007,-19.3223) oxyz = (19.8147,-3.80007,-19.3223) wxzy = (19.8147,-3.80007,-19.3223) pxyz = (19.8147,-3.80007,-19.3223) CBVO Creating mask 122963 n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.1658400; border_hi = 50.3442420; border_low = 25.0327220; outside_low = 10.0000000; outside_hi = 44.0163650; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=2 had to be increased for 304 vertices, nripped=8001 mean border=47.1, 328 (328) missing vertices, mean dist 1.9 [0.0 (%0.0)->2.1 (%100.0))] %21 local maxima, %62 large gradients and %10 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1403 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=30441046.0, rms=36.326 001: dt: 0.5000, sse=22021924.0, rms=30.861 (15.047%) 002: dt: 0.5000, sse=15512312.0, rms=25.853 (16.226%) 003: dt: 0.5000, sse=10846597.0, rms=21.559 (16.611%) 004: dt: 0.5000, sse=7837634.5, rms=18.260 (15.301%) 005: dt: 0.5000, sse=6017765.5, rms=15.937 (12.722%) 006: dt: 0.5000, sse=4587972.5, rms=13.840 (13.158%) 007: dt: 0.5000, sse=3536471.5, rms=12.067 (12.814%) 008: dt: 0.5000, sse=2643530.5, rms=10.322 (14.455%) 009: dt: 0.5000, sse=2087443.1, rms=9.067 (12.162%) 010: dt: 0.5000, sse=1660202.1, rms=7.968 (12.120%) 011: dt: 0.5000, sse=1471524.9, rms=7.430 (6.758%) 012: dt: 0.5000, sse=1305105.1, rms=6.919 (6.878%) 013: dt: 0.5000, sse=1261774.9, rms=6.777 (2.040%) 014: dt: 0.5000, sse=1173097.6, rms=6.481 (4.370%) rms = 6.4642/6.4813, sse=1168734.9/1173097.7, time step reduction 1 of 3 to 0.250 0 0 1 015: dt: 0.5000, sse=1168734.9, rms=6.464 (0.263%) 016: dt: 0.2500, sse=767609.2, rms=4.909 (24.062%) 017: dt: 0.2500, sse=679482.9, rms=4.497 (8.386%) 018: dt: 0.2500, sse=659458.2, rms=4.397 (2.238%) 019: dt: 0.2500, sse=642736.6, rms=4.312 (1.926%) rms = 4.2668/4.3118, sse=634155.7/642736.6, time step reduction 2 of 3 to 0.125 0 0 1 020: dt: 0.2500, sse=634155.7, rms=4.267 (1.044%) 021: dt: 0.1250, sse=549614.5, rms=3.805 (10.814%) 022: dt: 0.1250, sse=537237.2, rms=3.733 (1.904%) rms = 3.7031/3.7330, sse=532263.3/537237.2, time step reduction 3 of 3 to 0.062 0 0 1 023: dt: 0.1250, sse=532263.3, rms=3.703 (0.800%) maximum number of reductions reached, breaking from loop positioning took 1.9 minutes Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.1658400; border_hi = 50.3442420; border_low = 25.0327220; outside_low = 10.0000000; outside_hi = 44.0163650; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=1 had to be increased for 1850 vertices, nripped=8001 mean border=45.1, 415 (26) missing vertices, mean dist 0.1 [0.1 (%49.0)->0.4 (%51.0))] %39 local maxima, %45 large gradients and % 9 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0583 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=837928.8, rms=4.988 rms = 5.4468/4.9877, sse=948590.5/837928.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 024: dt: 0.2500, sse=706688.0, rms=4.376 (12.271%) 025: dt: 0.2500, sse=637214.2, rms=4.013 (8.284%) 026: dt: 0.2500, sse=609298.1, rms=3.861 (3.799%) 027: dt: 0.2500, sse=599147.5, rms=3.803 (1.491%) rms = 3.7972/3.8032, sse=597897.6/599147.5, time step reduction 2 of 3 to 0.125 0 0 1 028: dt: 0.2500, sse=597897.6, rms=3.797 (0.159%) 029: dt: 0.1250, sse=547243.2, rms=3.491 (8.063%) 030: dt: 0.1250, sse=537269.2, rms=3.428 (1.818%) rms = 3.4024/3.4275, sse=533339.9/537269.3, time step reduction 3 of 3 to 0.062 0 0 1 031: dt: 0.1250, sse=533339.9, rms=3.402 (0.734%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.1658400; border_hi = 50.3442420; border_low = 25.0327220; outside_low = 10.0000000; outside_hi = 44.0163650; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 1996 vertices, nripped=8001 mean border=43.4, 581 (17) missing vertices, mean dist 0.1 [0.1 (%44.6)->0.3 (%55.4))] %53 local maxima, %31 large gradients and % 9 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0394 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=660583.9, rms=4.109 rms = 5.3156/4.1092, sse=922629.9/660583.9, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 032: dt: 0.2500, sse=567582.8, rms=3.580 (12.881%) 033: dt: 0.2500, sse=545914.0, rms=3.445 (3.761%) rms = 3.3999/3.4453, sse=538178.2/545914.0, time step reduction 2 of 3 to 0.125 0 0 1 034: dt: 0.2500, sse=538178.2, rms=3.400 (1.318%) 035: dt: 0.1250, sse=513741.2, rms=3.238 (4.757%) rms = 3.1992/3.2382, sse=507883.2/513741.3, time step reduction 3 of 3 to 0.062 0 0 1 036: dt: 0.1250, sse=507883.2, rms=3.199 (1.204%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 3 ========================================= n_averages=2, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.1658400; border_hi = 50.3442420; border_low = 25.0327220; outside_low = 10.0000000; outside_hi = 44.0163650; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 1526 vertices, nripped=8001 mean border=42.2, 1188 (15) missing vertices, mean dist 0.1 [0.1 (%49.8)->0.2 (%50.2))] %58 local maxima, %26 large gradients and % 9 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0174 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=560820.9, rms=3.540 rms = 4.8165/3.5396, sse=806141.1/560820.9, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 037: dt: 0.2500, sse=513276.8, rms=3.232 (8.698%) 038: dt: 0.2500, sse=504178.3, rms=3.173 (1.813%) rms = 3.1579/3.1732, sse=501224.4/504178.3, time step reduction 2 of 3 to 0.125 0 0 1 039: dt: 0.2500, sse=501224.4, rms=3.158 (0.482%) 040: dt: 0.1250, sse=480417.8, rms=3.011 (4.661%) rms = 2.9788/3.0107, sse=475870.9/480417.8, time step reduction 3 of 3 to 0.062 0 0 1 041: dt: 0.1250, sse=475870.9, rms=2.979 (1.060%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Pinning medial wall to white surface removing intersecting faces 000: 20 intersecting 001: 6 intersecting terminating search with 0 intersecting Writing output to ../surf/rh.pial.T1 #ET# mris_place_surface 4.05 minutes #VMPC# mris_place_surfaces VmPeak 1306072 mris_place_surface done @#@FSTIME 2023:08:14:15:24:52 mris_place_surface N 28 e 251.57 S 0.52 U 251.04 P 99% M 1047600 F 0 R 282018 W 0 c 1187 w 1 I 0 O 8648 L 3.24 3.34 3.27 @#@FSLOADPOST 2023:08:14:15:29:03 mris_place_surface N 28 3.70 3.54 3.36 #-------------------------------------------- #@# Refine Pial Surfs w/ T2/FLAIR Mon 14 Aug 15:29:03 CEST 2023 bbregister --s sub-073_ses-BSL --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz --lta /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.lta --init-coreg --T2 --gm-proj-abs 2 --wm-proj-abs 1 --no-coreg-ref-mask /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) tmp /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009 Log file is /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.log Mon 14 Aug 15:29:03 CEST 2023 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts /home/rosalia/software/freesurfer/bin/bbregister --s sub-073_ses-BSL --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz --lta /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.lta --init-coreg --T2 --gm-proj-abs 2 --wm-proj-abs 1 --no-coreg-ref-mask bbregister 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /home/rosalia/software/freesurfer mri_convert /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii mri_convert /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii reading from /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz... TR=7000.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (0.991031, 0.0816006, -0.105821) j_ras = (-0.0530207, 0.967016, 0.249136) k_ras = (0.12266, -0.241291, 0.96267) writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii... mri_coreg --s sub-073_ses-BSL --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii --regdat /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/reg.init.dat --reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/mri_coreg.lta --nthreads 1 --dof 6 --sep 4 --ftol .0001 --linmintol .01 --no-ref-mask $Id: mri_coreg.c,v 1.27 2016/04/30 15:11:49 greve Exp $ cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts cmdline mri_coreg --s sub-073_ses-BSL --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii --regdat /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/reg.init.dat --reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/mri_coreg.lta --nthreads 1 --dof 6 --sep 4 --ftol .0001 --linmintol .01 --no-ref-mask sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia dof 6 nsep 1 cras0 1 ftol 0.000100 linmintol 0.010000 bf 1 bflim 30.000000 bfnsamp 30 SmoothRef 0 SatPct 99.990000 MovOOB 0 optschema 1 Seed 53 Reading in mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii Reading in ref /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/brainmask.mgz Setting cras translation parameters to align volume centers Creating random numbers for coordinate dithering Performing intensity dithering Performing intensity dithering on mov with computed dither Init matrix params -1.0304 0.0963 -1.0530 0.0000 0.0000 0.0000 1.0000 1.0000 1.0000 0.0000 0.0000 0.0000 Initial parameters to be opt -1.0304 0.0963 -1.0530 0.0000 0.0000 0.0000 Separation list (1): 4 min = 4 DoSmoothing 1 DoCoordDither 1 DoIntensityDither 1 nitersmax 4 ftol 1.000e-04 linmintol 1.000e-02 SatPct 99.990000 Hist FWHM 7.000000 7.000000 nthreads 1 movsat = 10637.0000 mov gstd 1.8914 1.8914 1.8914 Smoothing mov refsat = 159.0000 ref gstd 1.8914 1.8914 1.8914 Smoothing ref COREGpreproc() done Testing if mov and target overlap Init cost -1.0659896425 nhits = 136117 out of 16777216, Percent Overlap: 51.9 Initial RefRAS-to-MovRAS 1.00000 0.00000 0.00000 -1.03036; 0.00000 1.00000 0.00000 0.09633; 0.00000 0.00000 1.00000 -1.05302; 0.00000 0.00000 0.00000 1.00000; Initial RefVox-to-MovVox -0.99103 0.10582 0.08160 229.96028; 0.05302 -0.24914 0.96702 29.21019; -0.12266 -0.96267 -0.24129 238.64426; 0.00000 0.00000 0.00000 1.00000; sep = 4 ----------------------------------- COREGoptBruteForce() 30 1 30 Turning on MovOOB for BruteForce Search #BF# sep= 4 iter=0 lim=30.0 delta=2.00 0.96964 0.09633 0.94698 0.00000 0.00000 0.00000 -1.0500150 Turning MovOOB back off after brute force search --------------------------------- Init Powel Params dof = 6: 0.969643 0.096329 0.946983 0.000000 0.000000 0.000000 Starting OpenPowel2(), sep = 4 InitialCost -1.0653487444 #@# 4 188 0.96964 0.09633 0.94698 0.00000 0.00000 0.00000 -1.0653487 fs_powell::minimize nparams 6 maxfev 4 ftol 0.000100 linmin_xtol_ 0.010000 powell nthiter 0: fret = -1.065349 #@# 4 191 -0.64839 0.09633 0.94698 0.00000 0.00000 0.00000 -1.0656049 #@# 4 192 -0.00642 0.09633 0.94698 0.00000 0.00000 0.00000 -1.0659016 #@# 4 196 0.04591 0.09633 0.94698 0.00000 0.00000 0.00000 -1.0659041 #@# 4 204 0.04591 0.47829 0.94698 0.00000 0.00000 0.00000 -1.0659158 #@# 4 205 0.04591 0.32059 0.94698 0.00000 0.00000 0.00000 -1.0659218 #@# 4 206 0.04591 0.33747 0.94698 0.00000 0.00000 0.00000 -1.0659235 #@# 4 207 0.04591 0.37997 0.94698 0.00000 0.00000 0.00000 -1.0659266 #@# 4 213 0.04591 0.37997 -0.67105 0.00000 0.00000 0.00000 -1.0670609 #@# 4 217 0.04591 0.37997 -0.43498 0.00000 0.00000 0.00000 -1.0670880 #@# 4 228 0.04591 0.37997 -0.43498 0.14420 0.00000 0.00000 -1.0670971 #@# 4 230 0.04591 0.37997 -0.43498 0.18023 0.00000 0.00000 -1.0670998 #@# 4 240 0.04591 0.37997 -0.43498 0.18023 0.38197 0.00000 -1.0671047 #@# 4 241 0.04591 0.37997 -0.43498 0.18023 0.20206 0.00000 -1.0671275 #@# 4 251 0.04591 0.37997 -0.43498 0.18023 0.20206 0.38197 -1.0671443 #@# 4 252 0.04591 0.37997 -0.43498 0.18023 0.20206 0.25298 -1.0671490 #@# 4 253 0.04591 0.37997 -0.43498 0.18023 0.20206 0.26298 -1.0671499 powell nthiter 1: fret = -1.067150 #@# 4 263 -0.09161 0.37997 -0.43498 0.18023 0.20206 0.26298 -1.0671675 #@# 4 264 -0.10161 0.37997 -0.43498 0.18023 0.20206 0.26298 -1.0671678 #@# 4 272 -0.10161 0.26926 -0.43498 0.18023 0.20206 0.26298 -1.0671799 #@# 4 273 -0.10161 0.22204 -0.43498 0.18023 0.20206 0.26298 -1.0671816 #@# 4 283 -0.10161 0.22204 -0.38891 0.18023 0.20206 0.26298 -1.0671818 #@# 4 285 -0.10161 0.22204 -0.41034 0.18023 0.20206 0.26298 -1.0671833 #@# 4 294 -0.10161 0.22204 -0.40034 0.27941 0.20206 0.26298 -1.0671879 #@# 4 297 -0.10161 0.22204 -0.40034 0.31652 0.20206 0.26298 -1.0671893 #@# 4 309 -0.10161 0.22204 -0.40034 0.31652 0.22908 0.26298 -1.0671901 #@# 4 311 -0.10161 0.22204 -0.40034 0.31652 0.24821 0.26298 -1.0671920 Powell done niters total = 1 OptTimeSec 15.0 sec OptTimeMin 0.25 min nEvals 321 Final optimized parameters -0.10161428 0.22204077 -0.40033746 0.31651947 0.24821398 0.26298314 Final matrix parameters -0.1016 0.2220 -0.4003 0.3165 0.2482 0.2530 1.0000 1.0000 1.0000 0.0000 0.0000 0.0000 Final cost -1.067191966753146 --------------------------------- Final RefRAS-to-MovRAS 0.99998 0.00459 0.00433 -0.10161; -0.00461 0.99997 0.00552 0.22204; -0.00431 -0.00554 0.99998 -0.40034; 0.00000 0.00000 0.00000 1.00000; Final RefVox-to-MovVox -0.99109 0.10107 0.08673 230.96611; 0.05855 -0.25424 0.96537 29.69224; -0.11963 -0.96184 -0.24606 239.38077; 0.00000 0.00000 0.00000 1.00000; Final matrix parameters -0.1016 0.2220 -0.4003 0.3165 0.2482 0.2630 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 Final opt parameters -0.1016 0.2220 -0.4003 0.3165 0.2482 0.2630 nhits = 135955 out of 16777216, Percent Overlap: 51.9 mri_coreg RunTimeSec 87.3 sec To check run: tkregisterfv --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii --targ /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/brainmask.mgz --reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/mri_coreg.lta --s sub-073_ses-BSL --surfs mri_coreg done mri_segreg --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii --init-reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/reg.init.dat --out-reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/bbr.pass1.dat --subsamp-brute 100 --subsamp 100 --tol 1e-4 --tol1d 1e-3 --brute -4 4 4 --surf white --gm-proj-abs 2 --gm-gt-wm 0.5 7.3.1 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mri_segreg --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii --init-reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/reg.init.dat --out-reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/bbr.pass1.dat --subsamp-brute 100 --subsamp 100 --tol 1e-4 --tol1d 1e-3 --brute -4 4 4 --surf white --gm-proj-abs 2 --gm-gt-wm 0.5 sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia movvol /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii regfile /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/reg.init.dat subject sub-073_ses-BSL dof 6 outregfile /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/bbr.pass1.dat UseMask 0 UseLH 1 UseRH 1 nsubsamp 100 PenaltySign -1 PenaltySlope 0.500000 PenaltyCenter 0.000000 surfname white GMProjAbs 2.000000 WMProjAbs 2.000000 lhcostfile (null) rhcostfile (null) interp trilinear (1) frame 0 TolPowell 0.000100 nMaxItersPowell 36 n1dmin 3 Profile 0 Gdiag_no -1 AddNoise 0 (0) SynthSeed 1692679266 TransRandMax 0.000000 RotRandMax 0.000000 Translations 0.000000 0.000000 0.000000 Rotations 0.000000 0.000000 0.000000 Input reg -0.99109 -0.08673 0.10107 -0.14592; 0.11963 -0.24606 0.96184 -0.54297; 0.05855 -0.96537 -0.25424 -0.21106; 0.00000 0.00000 0.00000 1.00000; Loading mov ExcludeZeroVoxels 1 Reading in targ vol /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz Projecting LH Surfs Loading lh.white surf GM Proj: 0 0.500000 2.000000 WM Proj: 0 0.500000 2.000000 Projecting RH Surfs Loading rh.white surf Projecting RH Surfs Using lh.cortex.label Using rh.cortex.label Computing relative cost 0 -25.0 -25.0 -25.0 1.016633 1 -25.0 -25.0 25.0 1.019916 2 -25.0 25.0 -25.0 1.050344 3 -25.0 25.0 25.0 1.022008 4 25.0 -25.0 -25.0 0.999356 5 25.0 -25.0 25.0 1.011597 6 25.0 25.0 -25.0 1.013558 7 25.0 25.0 25.0 1.032982 REL: 8 0.812571 8.166394 1.020799 rel = 0.796014 Initial costs ---------------- Number of surface hits 2302 WM Intensity 5005.6194 +/- 880.6865 Ctx Intensity 5208.5493 +/- 1525.3505 Pct Contrast 0.4580 +/- 29.8522 Cost 0.8126 RelCost 0.7960 ------------------------------------ Brute force preopt -4 4 4, n = 729 0 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 1.0255 1.0255 0.0 1 -4.0000 -4.0000 -4.0000 -4.0000 -4.0000 0.0000 1.0196 1.0196 0.0 3 -4.0000 -4.0000 -4.0000 -4.0000 0.0000 -4.0000 1.0144 1.0144 0.0 4 -4.0000 -4.0000 -4.0000 -4.0000 0.0000 0.0000 1.0054 1.0054 0.0 9 -4.0000 -4.0000 -4.0000 0.0000 -4.0000 -4.0000 1.0007 1.0007 0.0 11 -4.0000 -4.0000 -4.0000 0.0000 -4.0000 4.0000 0.9699 0.9699 0.0 119 -4.0000 0.0000 0.0000 0.0000 -4.0000 4.0000 0.9463 0.9463 0.0 274 0.0000 -4.0000 0.0000 -4.0000 0.0000 0.0000 0.9316 0.9316 0.0 334 0.0000 0.0000 -4.0000 0.0000 -4.0000 0.0000 0.9208 0.9208 0.0 364 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 0.8126 0.8126 0.0 Brute Force -------------------------- Min cost was 0.812571 Number of iterations 729 Search time 1.486412 sec Parameters at best (transmm, rotdeg) 0.000 0.000 0.000 0.000 0.000 0.000 -------------------------------------------- Starting Powell Minimization Init Powel Params dof = 6 0 0 1 0 2 0 3 0 4 0 5 0 fs_powell::minimize nparams 6 maxfev 36 ftol 0.000100 linmin_xtol_ 0.001000 powell nthiter 0: fret = 0.812571 7 -0.288 0.000 0.000 0.000 0.000 0.000 0.8118624926 8 -0.232 0.000 0.000 0.000 0.000 0.000 0.8094073298 9 -0.150 0.000 0.000 0.000 0.000 0.000 0.8072680448 11 -0.163 0.000 0.000 0.000 0.000 0.000 0.8071204259 13 -0.162 0.000 0.000 0.000 0.000 0.000 0.8071183423 19 -0.162 -0.618 0.000 0.000 0.000 0.000 0.7910063218 22 -0.162 -0.382 0.000 0.000 0.000 0.000 0.7905368023 23 -0.162 -0.482 0.000 0.000 0.000 0.000 0.7898722416 24 -0.162 -0.484 0.000 0.000 0.000 0.000 0.7897756611 26 -0.162 -0.508 0.000 0.000 0.000 0.000 0.7892721721 28 -0.162 -0.505 0.000 0.000 0.000 0.000 0.7892545235 29 -0.162 -0.504 0.000 0.000 0.000 0.000 0.7892539127 39 -0.162 -0.504 0.064 0.000 0.000 0.000 0.7883502015 40 -0.162 -0.504 0.072 0.000 0.000 0.000 0.7883193613 42 -0.162 -0.504 0.074 0.000 0.000 0.000 0.7883178333 46 -0.162 -0.504 0.074 1.000 0.000 0.000 0.7828339586 57 -0.162 -0.504 0.074 0.991 0.000 0.000 0.7827357012 58 -0.162 -0.504 0.074 0.990 0.000 0.000 0.7827346185 66 -0.162 -0.504 0.074 0.990 -0.181 0.000 0.7809442450 67 -0.162 -0.504 0.074 0.990 -0.151 0.000 0.7793288365 68 -0.162 -0.504 0.074 0.990 -0.103 0.000 0.7788526826 71 -0.162 -0.504 0.074 0.990 -0.104 0.000 0.7788495785 73 -0.162 -0.504 0.074 0.990 -0.106 0.000 0.7788464709 81 -0.162 -0.504 0.074 0.990 -0.106 0.382 0.7781990970 82 -0.162 -0.504 0.074 0.990 -0.106 0.203 0.7773522638 83 -0.162 -0.504 0.074 0.990 -0.106 0.218 0.7770293468 85 -0.162 -0.504 0.074 0.990 -0.106 0.241 0.7767350014 86 -0.162 -0.504 0.074 0.990 -0.106 0.245 0.7767295784 87 -0.162 -0.504 0.074 0.990 -0.106 0.244 0.7767290596 powell nthiter 1: fret = 0.776729 98 -0.171 -0.504 0.074 0.990 -0.106 0.244 0.7767182030 99 -0.169 -0.504 0.074 0.990 -0.106 0.244 0.7767174249 100 -0.168 -0.504 0.074 0.990 -0.106 0.244 0.7767170527 109 -0.168 -0.476 0.074 0.990 -0.106 0.244 0.7765717949 110 -0.168 -0.471 0.074 0.990 -0.106 0.244 0.7765423245 112 -0.168 -0.420 0.074 0.990 -0.106 0.244 0.7762240970 116 -0.168 -0.417 0.074 0.990 -0.106 0.244 0.7762140093 117 -0.168 -0.416 0.074 0.990 -0.106 0.244 0.7762112686 118 -0.168 -0.414 0.074 0.990 -0.106 0.244 0.7762105819 126 -0.168 -0.414 0.080 0.990 -0.106 0.244 0.7760420455 128 -0.168 -0.414 0.112 0.990 -0.106 0.244 0.7757864699 129 -0.168 -0.414 0.121 0.990 -0.106 0.244 0.7756509865 130 -0.168 -0.414 0.138 0.990 -0.106 0.244 0.7754618581 132 -0.168 -0.414 0.139 0.990 -0.106 0.244 0.7754597028 133 -0.168 -0.414 0.140 0.990 -0.106 0.244 0.7754595433 146 -0.168 -0.414 0.140 0.981 -0.106 0.244 0.7753994522 161 -0.168 -0.414 0.140 0.981 -0.101 0.244 0.7753989128 163 -0.168 -0.414 0.140 0.981 -0.103 0.244 0.7753951973 172 -0.168 -0.414 0.140 0.981 -0.103 0.308 0.7744225086 174 -0.168 -0.414 0.140 0.981 -0.103 0.313 0.7744137427 175 -0.168 -0.414 0.140 0.981 -0.103 0.315 0.7744135946 powell nthiter 2: fret = 0.774414 185 -0.231 -0.414 0.140 0.981 -0.103 0.315 0.7741421398 186 -0.228 -0.414 0.140 0.981 -0.103 0.315 0.7741374034 197 -0.228 -0.426 0.140 0.981 -0.103 0.315 0.7740687097 211 -0.228 -0.426 0.144 0.981 -0.103 0.315 0.7740635112 212 -0.228 -0.426 0.142 0.981 -0.103 0.315 0.7740601470 224 -0.228 -0.426 0.142 0.998 -0.103 0.315 0.7740102553 225 -0.228 -0.426 0.142 0.994 -0.103 0.315 0.7739798461 226 -0.228 -0.426 0.142 0.992 -0.103 0.315 0.7739765852 237 -0.228 -0.426 0.142 0.992 -0.110 0.315 0.7738912323 246 -0.228 -0.426 0.142 0.992 -0.110 0.329 0.7737454059 247 -0.228 -0.426 0.142 0.992 -0.110 0.376 0.7737375635 249 -0.228 -0.426 0.142 0.992 -0.110 0.353 0.7736644705 250 -0.228 -0.426 0.142 0.992 -0.110 0.354 0.7736637648 251 -0.228 -0.426 0.142 0.992 -0.110 0.356 0.7736630967 253 -0.228 -0.426 0.142 0.992 -0.110 0.357 0.7736626552 powell nthiter 3: fret = 0.773663 267 -0.235 -0.426 0.142 0.992 -0.110 0.357 0.7736484924 278 -0.234 -0.409 0.142 0.992 -0.110 0.357 0.7733894326 279 -0.234 -0.405 0.142 0.992 -0.110 0.357 0.7733709566 280 -0.234 -0.401 0.142 0.992 -0.110 0.357 0.7733674873 282 -0.234 -0.402 0.142 0.992 -0.110 0.357 0.7733651700 292 -0.234 -0.402 0.149 0.992 -0.110 0.357 0.7733052736 293 -0.234 -0.402 0.153 0.992 -0.110 0.357 0.7732987888 294 -0.234 -0.402 0.152 0.992 -0.110 0.357 0.7732979168 307 -0.234 -0.402 0.152 1.001 -0.110 0.357 0.7732828268 309 -0.234 -0.402 0.152 0.999 -0.110 0.357 0.7732809425 322 -0.234 -0.402 0.152 0.999 -0.111 0.357 0.7732653715 323 -0.234 -0.402 0.152 0.999 -0.116 0.357 0.7732219207 335 -0.234 -0.402 0.152 0.999 -0.116 0.379 0.7731165007 337 -0.234 -0.402 0.152 0.999 -0.116 0.380 0.7731164147 338 -0.234 -0.402 0.152 0.999 -0.116 0.381 0.7731161745 powell nthiter 4: fret = 0.773116 353 -0.236 -0.402 0.152 0.999 -0.116 0.381 0.7731154675 354 -0.237 -0.402 0.152 0.999 -0.116 0.381 0.7731153106 364 -0.237 -0.397 0.152 0.999 -0.116 0.381 0.7730768194 366 -0.237 -0.396 0.152 0.999 -0.116 0.381 0.7730753424 376 -0.237 -0.396 0.149 0.999 -0.116 0.381 0.7730752583 378 -0.237 -0.396 0.150 0.999 -0.116 0.381 0.7730742316 392 -0.237 -0.396 0.150 1.001 -0.116 0.381 0.7730731615 403 -0.237 -0.396 0.150 1.001 -0.119 0.381 0.7730245113 404 -0.237 -0.396 0.150 1.001 -0.123 0.381 0.7729938986 415 -0.237 -0.396 0.150 1.001 -0.123 0.385 0.7729716849 416 -0.237 -0.396 0.150 1.001 -0.123 0.390 0.7729582921 418 -0.237 -0.396 0.150 1.001 -0.123 0.392 0.7729571900 419 -0.237 -0.396 0.150 1.001 -0.123 0.393 0.7729566506 422 -0.239 -0.389 0.148 1.003 -0.131 0.405 0.7729403369 428 -0.238 -0.392 0.149 1.002 -0.128 0.400 0.7729287798 430 -0.238 -0.392 0.149 1.002 -0.128 0.400 0.7729278972 434 -0.238 -0.392 0.149 1.002 -0.128 0.400 0.7729274736 powell nthiter 5: fret = 0.772927 446 -0.226 -0.392 0.149 1.002 -0.128 0.400 0.7728969440 447 -0.230 -0.392 0.149 1.002 -0.128 0.400 0.7728909658 458 -0.230 -0.393 0.149 1.002 -0.128 0.400 0.7728841977 459 -0.230 -0.396 0.149 1.002 -0.128 0.400 0.7728781463 461 -0.230 -0.395 0.149 1.002 -0.128 0.400 0.7728779572 470 -0.230 -0.395 0.148 1.002 -0.128 0.400 0.7728687153 471 -0.230 -0.395 0.143 1.002 -0.128 0.400 0.7728484239 501 -0.230 -0.395 0.143 1.002 -0.128 0.394 0.7728383325 502 -0.230 -0.395 0.143 1.002 -0.128 0.395 0.7728378647 503 -0.230 -0.395 0.143 1.002 -0.128 0.396 0.7728378387 510 -0.231 -0.392 0.143 1.003 -0.131 0.401 0.7728225922 511 -0.231 -0.392 0.143 1.003 -0.131 0.401 0.7728224273 512 -0.231 -0.392 0.143 1.003 -0.131 0.401 0.7728219319 515 -0.231 -0.392 0.142 1.003 -0.131 0.402 0.7728218888 powell nthiter 6: fret = 0.772822 544 -0.231 -0.395 0.142 1.003 -0.131 0.402 0.7728067362 545 -0.231 -0.396 0.142 1.003 -0.131 0.402 0.7728046479 556 -0.231 -0.396 0.141 1.003 -0.131 0.402 0.7728017161 557 -0.231 -0.396 0.140 1.003 -0.131 0.402 0.7728016888 572 -0.231 -0.396 0.140 1.002 -0.131 0.402 0.7728012935 582 -0.231 -0.396 0.140 1.002 -0.131 0.397 0.7727873723 584 -0.231 -0.396 0.140 1.002 -0.131 0.398 0.7727869401 592 -0.231 -0.395 0.140 1.002 -0.132 0.399 0.7727845273 597 -0.231 -0.395 0.140 1.002 -0.132 0.399 0.7727840135 Powell done niters = 6 Computing relative cost 0 -25.0 -25.0 -25.0 1.050255 1 -25.0 -25.0 25.0 1.024574 2 -25.0 25.0 -25.0 1.010641 3 -25.0 25.0 25.0 1.023033 4 25.0 -25.0 -25.0 1.030485 5 25.0 -25.0 25.0 1.041706 6 25.0 25.0 -25.0 1.015089 7 25.0 25.0 25.0 1.029176 REL: 8 0.772784 8.224958 1.028120 rel = 0.751648 Number of iterations 6 Min cost was 0.772784 Number of FunctionCalls 599 TolPowell 0.000100 nMaxItersPowell 36 OptimizationTime 1.253090 sec Parameters at optimum (transmm) -0.23134 -0.39545 0.13970 Parameters at optimum (rotdeg) 1.00196 -0.13217 0.39898 Final costs ---------------- Number of surface hits 2302 WM Intensity 5020.3291 +/- 878.9139 Ctx Intensity 5220.9721 +/- 1471.1516 Pct Contrast 0.7222 +/- 29.7863 Cost 0.7728 RelCost 0.7960 Reg at min cost was -0.99203 -0.08290 0.09489 -0.37299; 0.11168 -0.22972 0.96683 -0.93564; 0.05835 -0.96972 -0.23715 -0.08116; 0.00000 0.00000 0.00000 1.00000; Writing optimal reg to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/bbr.pass1.dat, type = 14 Original Reg -0.99109 -0.08673 0.10107 -0.14592; 0.11963 -0.24606 0.96184 -0.54297; 0.05855 -0.96537 -0.25424 -0.21106; 0.00000 0.00000 0.00000 1.00000; Original Reg - Optimal Reg 0.00094 -0.00383 0.00618 0.22707; 0.00795 -0.01634 -0.00498 0.39268; 0.00020 0.00435 -0.01709 -0.12990; 0.00000 0.00000 0.00000 0.00000; Computing change in lh position LH rmsDiffMean 0.945666 Computing change in rh position Surface-RMS-Diff-mm 1.045533 0.490046 2.153559 mri_segreg done mri_segreg --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii --init-reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/bbr.pass1.dat --out-reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.dat --interp trilinear --wm-proj-abs 1 --tol 1e-8 --tol1d 1e-3 --c0 0 --mincost /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.dat.mincost --dof 6 --nmax 36 --param /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.dat.param --surf white --brute -0.1 0.1 0.1 --cur-reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/reg.curopt.dat --gm-proj-abs 2 --nsub 1 --gm-gt-wm 0.5 7.3.1 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mri_segreg --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii --init-reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/bbr.pass1.dat --out-reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.dat --interp trilinear --wm-proj-abs 1 --tol 1e-8 --tol1d 1e-3 --c0 0 --mincost /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.dat.mincost --dof 6 --nmax 36 --param /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.dat.param --surf white --brute -0.1 0.1 0.1 --cur-reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/reg.curopt.dat --gm-proj-abs 2 --nsub 1 --gm-gt-wm 0.5 sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia movvol /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/template.nii regfile /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/tmp.bbregister.504009/bbr.pass1.dat subject sub-073_ses-BSL dof 6 outregfile /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.dat UseMask 0 UseLH 1 UseRH 1 nsubsamp 1 PenaltySign -1 PenaltySlope 0.500000 PenaltyCenter 0.000000 surfname white GMProjAbs 2.000000 WMProjAbs 1.000000 lhcostfile (null) rhcostfile (null) interp trilinear (1) frame 0 TolPowell 0.000000 nMaxItersPowell 36 n1dmin 3 Profile 0 Gdiag_no -1 AddNoise 0 (0) SynthSeed 1692487969 TransRandMax 0.000000 RotRandMax 0.000000 Translations 0.000000 0.000000 0.000000 Rotations 0.000000 0.000000 0.000000 Input reg -0.99203 -0.08290 0.09489 -0.37299; 0.11168 -0.22972 0.96683 -0.93564; 0.05835 -0.96972 -0.23715 -0.08116; 0.00000 0.00000 0.00000 1.00000; Loading mov ExcludeZeroVoxels 1 Reading in targ vol /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz Projecting LH Surfs Loading lh.white surf GM Proj: 0 0.500000 2.000000 WM Proj: 0 0.500000 1.000000 Projecting RH Surfs Loading rh.white surf Projecting RH Surfs Using lh.cortex.label Using rh.cortex.label Computing relative cost 0 -25.0 -25.0 -25.0 1.011911 1 -25.0 -25.0 25.0 1.018521 2 -25.0 25.0 -25.0 1.017967 3 -25.0 25.0 25.0 0.995330 4 25.0 -25.0 -25.0 1.022837 5 25.0 -25.0 25.0 1.021873 6 25.0 25.0 -25.0 1.026433 7 25.0 25.0 25.0 1.029842 REL: 8 0.772469 8.144715 1.018089 rel = 0.758744 Initial costs ---------------- Number of surface hits 230558 WM Intensity 5065.4788 +/- 870.7254 Ctx Intensity 5241.5276 +/- 1455.9015 Pct Contrast 0.4213 +/- 29.8289 Cost 0.7725 RelCost 0.7587 ------------------------------------ Brute force preopt -0.1 0.1 0.1, n = 729 0 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.7802 0.7802 0.0 1 -0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.0000 0.7799 0.7799 0.0 7 -0.1000 -0.1000 -0.1000 -0.1000 0.1000 0.0000 0.7789 0.7789 0.0 31 -0.1000 -0.1000 0.0000 -0.1000 0.0000 0.0000 0.7762 0.7762 0.0 81 -0.1000 0.0000 -0.1000 -0.1000 -0.1000 -0.1000 0.7739 0.7739 0.0 162 -0.1000 0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.7693 0.7693 0.0 189 -0.1000 0.1000 0.0000 -0.1000 -0.1000 -0.1000 0.7673 0.7673 0.0 405 0.0000 0.1000 -0.1000 -0.1000 -0.1000 -0.1000 0.7666 0.7666 0.0 406 0.0000 0.1000 -0.1000 -0.1000 -0.1000 0.0000 0.7662 0.7662 0.0 432 0.0000 0.1000 0.0000 -0.1000 -0.1000 -0.1000 0.7643 0.7643 0.0 Brute Force -------------------------- Min cost was 0.764304 Number of iterations 729 Search time 1.532752 sec Parameters at best (transmm, rotdeg) 0.000 0.100 0.000 -0.100 -0.100 -0.100 -------------------------------------------- Starting Powell Minimization Init Powel Params dof = 6 0 0 1 0.1 2 0 3 -0.1 4 -0.1 5 -0.1 fs_powell::minimize nparams 6 maxfev 36 ftol 0.000000 linmin_xtol_ 0.001000 powell nthiter 0: fret = 0.763422 7 0.128 0.100 0.000 -0.100 -0.100 -0.100 0.7620428095 8 0.138 0.100 0.000 -0.100 -0.100 -0.100 0.7620241805 10 0.142 0.100 0.000 -0.100 -0.100 -0.100 0.7620223441 11 0.143 0.100 0.000 -0.100 -0.100 -0.100 0.7620223104 19 0.143 0.024 0.000 -0.100 -0.100 -0.100 0.7611357276 21 0.143 0.021 0.000 -0.100 -0.100 -0.100 0.7611300284 22 0.143 0.019 0.000 -0.100 -0.100 -0.100 0.7611290988 31 0.143 0.019 0.041 -0.100 -0.100 -0.100 0.7607007807 32 0.143 0.019 0.082 -0.100 -0.100 -0.100 0.7606878364 33 0.143 0.019 0.063 -0.100 -0.100 -0.100 0.7606279089 40 0.143 0.019 0.063 -0.718 -0.100 -0.100 0.7471582520 43 0.143 0.019 0.063 -0.709 -0.100 -0.100 0.7471418968 44 0.143 0.019 0.063 -0.702 -0.100 -0.100 0.7471383994 45 0.143 0.019 0.063 -0.703 -0.100 -0.100 0.7471383474 46 0.143 0.019 0.063 -0.704 -0.100 -0.100 0.7471380154 54 0.143 0.019 0.063 -0.704 -0.191 -0.100 0.7467768626 57 0.143 0.019 0.063 -0.704 -0.201 -0.100 0.7467680311 58 0.143 0.019 0.063 -0.704 -0.202 -0.100 0.7467672512 60 0.143 0.019 0.063 -0.704 -0.204 -0.100 0.7467660947 69 0.143 0.019 0.063 -0.704 -0.204 -0.379 0.7415217531 70 0.143 0.019 0.063 -0.704 -0.204 -0.378 0.7415198916 71 0.143 0.019 0.063 -0.704 -0.204 -0.366 0.7415011542 74 0.143 0.019 0.063 -0.704 -0.204 -0.358 0.7415003339 75 0.143 0.019 0.063 -0.704 -0.204 -0.361 0.7414976611 76 0.143 0.019 0.063 -0.704 -0.204 -0.362 0.7414969503 77 0.143 0.019 0.063 -0.704 -0.204 -0.363 0.7414965017 78 0.143 0.019 0.063 -0.704 -0.204 -0.364 0.7414963692 powell nthiter 1: fret = 0.741496 87 0.168 0.019 0.063 -0.704 -0.204 -0.364 0.7414254468 89 0.179 0.019 0.063 -0.704 -0.204 -0.364 0.7414195655 90 0.178 0.019 0.063 -0.704 -0.204 -0.364 0.7414188230 91 0.176 0.019 0.063 -0.704 -0.204 -0.364 0.7414183431 92 0.175 0.019 0.063 -0.704 -0.204 -0.364 0.7414181919 93 0.173 0.019 0.063 -0.704 -0.204 -0.364 0.7414181913 95 0.174 0.019 0.063 -0.704 -0.204 -0.364 0.7414180767 102 0.174 -0.087 0.063 -0.704 -0.204 -0.364 0.7401717545 105 0.174 -0.090 0.063 -0.704 -0.204 -0.364 0.7401690860 109 0.174 -0.101 0.063 -0.704 -0.204 -0.364 0.7401634953 111 0.174 -0.100 0.063 -0.704 -0.204 -0.364 0.7401632047 112 0.174 -0.099 0.063 -0.704 -0.204 -0.364 0.7401631099 120 0.174 -0.099 -0.050 -0.704 -0.204 -0.364 0.7386157046 122 0.174 -0.099 -0.083 -0.704 -0.204 -0.364 0.7385647701 124 0.174 -0.099 -0.096 -0.704 -0.204 -0.364 0.7385541996 135 0.174 -0.099 -0.096 -0.861 -0.204 -0.364 0.7364867945 136 0.174 -0.099 -0.096 -0.883 -0.204 -0.364 0.7364438921 138 0.174 -0.099 -0.096 -0.884 -0.204 -0.364 0.7364434660 148 0.174 -0.099 -0.096 -0.884 -0.193 -0.364 0.7364219981 149 0.174 -0.099 -0.096 -0.884 -0.191 -0.364 0.7364219454 158 0.174 -0.099 -0.096 -0.884 -0.191 -0.359 0.7364141655 160 0.174 -0.099 -0.096 -0.884 -0.191 -0.347 0.7364014908 powell nthiter 2: fret = 0.736401 174 0.195 -0.099 -0.096 -0.884 -0.191 -0.347 0.7363555780 176 0.192 -0.099 -0.096 -0.884 -0.191 -0.347 0.7363545539 178 0.193 -0.099 -0.096 -0.884 -0.191 -0.347 0.7363544452 186 0.193 -0.154 -0.096 -0.884 -0.191 -0.347 0.7356810694 187 0.193 -0.168 -0.096 -0.884 -0.191 -0.347 0.7356348248 188 0.193 -0.173 -0.096 -0.884 -0.191 -0.347 0.7356327362 189 0.193 -0.172 -0.096 -0.884 -0.191 -0.347 0.7356320449 197 0.193 -0.172 -0.077 -0.884 -0.191 -0.347 0.7353495871 198 0.193 -0.172 -0.020 -0.884 -0.191 -0.347 0.7352373305 200 0.193 -0.172 -0.043 -0.884 -0.191 -0.347 0.7351797026 209 0.193 -0.172 -0.041 -0.928 -0.191 -0.347 0.7351688875 210 0.193 -0.172 -0.041 -0.907 -0.191 -0.347 0.7351490388 211 0.193 -0.172 -0.041 -0.908 -0.191 -0.347 0.7351481444 212 0.193 -0.172 -0.041 -0.913 -0.191 -0.347 0.7351466709 225 0.193 -0.172 -0.041 -0.913 -0.192 -0.347 0.7351464376 226 0.193 -0.172 -0.041 -0.913 -0.193 -0.347 0.7351463578 powell nthiter 3: fret = 0.735146 247 0.208 -0.172 -0.041 -0.913 -0.193 -0.347 0.7351205851 250 0.209 -0.172 -0.041 -0.913 -0.193 -0.347 0.7351205201 257 0.209 -0.179 -0.041 -0.913 -0.193 -0.347 0.7351132229 258 0.209 -0.180 -0.041 -0.913 -0.193 -0.347 0.7351130646 259 0.209 -0.181 -0.041 -0.913 -0.193 -0.347 0.7351129449 265 0.209 -0.182 -0.041 -0.913 -0.193 -0.347 0.7351128416 274 0.209 -0.182 -0.022 -0.913 -0.193 -0.347 0.7351001388 276 0.209 -0.182 -0.024 -0.913 -0.193 -0.347 0.7350997672 286 0.209 -0.182 -0.023 -0.916 -0.193 -0.347 0.7350978386 288 0.209 -0.182 -0.023 -0.915 -0.193 -0.347 0.7350969222 297 0.209 -0.182 -0.023 -0.915 -0.185 -0.347 0.7350895799 298 0.209 -0.182 -0.023 -0.915 -0.183 -0.347 0.7350845815 313 0.209 -0.182 -0.023 -0.915 -0.183 -0.352 0.7350820267 316 0.209 -0.182 -0.023 -0.915 -0.183 -0.353 0.7350816875 powell nthiter 4: fret = 0.735082 327 0.216 -0.182 -0.023 -0.915 -0.183 -0.353 0.7350731858 329 0.217 -0.182 -0.023 -0.915 -0.183 -0.353 0.7350730471 338 0.217 -0.183 -0.023 -0.915 -0.183 -0.353 0.7350729153 358 0.217 -0.183 -0.023 -0.907 -0.183 -0.353 0.7350550742 362 0.217 -0.183 -0.023 -0.898 -0.183 -0.353 0.7350505323 364 0.217 -0.183 -0.023 -0.894 -0.183 -0.353 0.7350503614 365 0.217 -0.183 -0.023 -0.896 -0.183 -0.353 0.7350497022 375 0.217 -0.183 -0.023 -0.895 -0.172 -0.353 0.7350404286 376 0.217 -0.183 -0.023 -0.895 -0.173 -0.353 0.7350390198 387 0.217 -0.183 -0.023 -0.895 -0.173 -0.354 0.7350380248 powell nthiter 5: fret = 0.735038 397 0.226 -0.183 -0.023 -0.895 -0.173 -0.354 0.7350371307 398 0.222 -0.183 -0.023 -0.895 -0.173 -0.354 0.7350346756 powell nthiter 6: fret = 0.735035 Powell done niters = 6 Computing relative cost 0 -25.0 -25.0 -25.0 1.011710 1 -25.0 -25.0 25.0 1.024066 2 -25.0 25.0 -25.0 1.014215 3 -25.0 25.0 25.0 1.001911 4 25.0 -25.0 -25.0 1.021323 5 25.0 -25.0 25.0 1.020551 6 25.0 25.0 -25.0 1.026356 7 25.0 25.0 25.0 1.022593 REL: 8 0.735035 8.142725 1.017841 rel = 0.722151 Number of iterations 6 Min cost was 0.735035 Number of FunctionCalls 520 TolPowell 0.000000 nMaxItersPowell 36 OptimizationTime 33.306596 sec Parameters at optimum (transmm) 0.22170 -0.18343 -0.02347 Parameters at optimum (rotdeg) -0.89481 -0.17290 -0.35426 Final costs ---------------- Number of surface hits 230600 WM Intensity 4980.0315 +/- 850.1948 Ctx Intensity 5259.2431 +/- 1405.2449 Pct Contrast 2.9317 +/- 25.7116 Cost 0.7350 RelCost 0.7587 Reg at min cost was -0.99148 -0.08150 0.10160 -0.15687; 0.11871 -0.24434 0.96240 -1.11791; 0.05361 -0.96626 -0.25193 -0.09114; 0.00000 0.00000 0.00000 1.00000; Writing optimal reg to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.dat, type = 14 Original Reg -0.99203 -0.08290 0.09489 -0.37299; 0.11168 -0.22972 0.96683 -0.93564; 0.05835 -0.96972 -0.23715 -0.08116; 0.00000 0.00000 0.00000 1.00000; Original Reg - Optimal Reg -0.00055 -0.00140 -0.00671 -0.21612; -0.00703 0.01462 0.00443 0.18226; 0.00475 -0.00346 0.01478 0.00998; 0.00000 0.00000 0.00000 0.00000; Computing change in lh position LH rmsDiffMean 0.737595 Computing change in rh position Surface-RMS-Diff-mm 0.761651 0.283516 1.452782 mri_segreg done MinCost: 0.735035 4980.031546 5259.243109 2.931687 tkregister2_cmdl --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz --reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.dat --noedit --ltaout /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.lta INFO: no target volume specified, assuming FreeSurfer orig volume. target volume orig movable volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz reg file /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.dat LoadVol 0 ZeroCRAS 0 7.3.1 Diagnostic Level -1 ---- Input registration matrix -------- -0.99148 -0.08150 0.10160 -0.15687; 0.11871 -0.24434 0.96240 -1.11791; 0.05361 -0.96626 -0.25193 -0.09114; 0.00000 0.00000 0.00000 1.00000; float2int = 0 --------------------------------------- INFO: loading target /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz Ttarg: -------------------- -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; INFO: loading movable /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz Tmov: -------------------- -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -70.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; mkheaderreg = 0, float2int = 0 ---- Input registration matrix -------- -0.99148 -0.08150 0.10160 -0.15687; 0.11871 -0.24434 0.96240 -1.11791; 0.05361 -0.96626 -0.25193 -0.09114; 0.00000 0.00000 0.00000 1.00000; Determinant -1 subject = sub-073_ses-BSL RegMat --------------------------- -0.99148 -0.08150 0.10160 -0.15687; 0.11871 -0.24434 0.96240 -1.11791; 0.05361 -0.96626 -0.25193 -0.09114; 0.00000 0.00000 0.00000 1.00000; Cleaning up Started at Mon 14 Aug 15:29:03 CEST 2023 Ended at Mon 14 Aug 15:31:18 CEST 2023 BBR-Run-Time-Sec 135 bbregister Done To check results, run: tkregisterfv --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz --reg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.lta --surfs --sd /home/rosalia/Desktop/CAN_RUTI @#@FSTIME 2023:08:14:15:29:03 bbregister N 13 e 134.91 S 3.04 U 131.52 P 99% M 647728 F 0 R 2183000 W 0 c 640 w 448 I 0 O 36784 L 3.70 3.54 3.36 @#@FSLOADPOST 2023:08:14:15:31:18 bbregister N 13 4.08 3.65 3.42 cp /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.auto.lta /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.lta /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) @#@FSTIME 2023:08:14:15:31:18 cp N 2 e 0.00 S 0.00 U 0.00 P 100% M 2744 F 0 R 142 W 0 c 0 w 1 I 0 O 8 L 4.08 3.65 3.42 @#@FSLOADPOST 2023:08:14:15:31:18 cp N 2 4.08 3.65 3.42 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) mri_convert -odt float -at /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.lta -rl /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/FLAIR.prenorm.mgz reading from /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig/FLAIRraw.mgz... TR=7000.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (0.991031, 0.0816006, -0.105821) j_ras = (-0.0530207, 0.967016, 0.249136) k_ras = (0.12266, -0.241291, 0.96267) INFO: Reading transformation from file /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.lta... Reading transform with LTAreadEx() reading template info from volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz... INFO: Applying transformation from file /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/FLAIRraw.lta... --------------------------------- INFO: Transform Matrix (linear_ras_to_ras) 0.99999 0.00042 -0.00400 0.09909; -0.00044 1.00000 -0.00311 -0.27628; 0.00400 0.00311 0.99999 1.00771; 0.00000 0.00000 0.00000 1.00000; --------------------------------- Applying LTAtransformInterp (resample_type 1) changing data type from short to float (noscale = 0)... writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/FLAIR.prenorm.mgz... @#@FSTIME 2023:08:14:15:31:18 mri_convert N 8 e 6.27 S 0.08 U 6.18 P 99% M 106200 F 0 R 29644 W 0 c 37 w 1 I 0 O 20248 L 4.08 3.65 3.42 @#@FSLOADPOST 2023:08:14:15:31:25 mri_convert N 8 4.07 3.65 3.43 mri_normalize -seed 1234 -sigma 0.5 -nonmax_suppress 0 -min_dist 1 -aseg /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/aseg.presurf.mgz -surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white identity.nofile -surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white identity.nofile /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/FLAIR.prenorm.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/FLAIR.norm.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 using Gaussian smoothing of bias field, sigma=0.500 disabling nonmaximum suppression retaining points that are at least 1.000mm from the boundary using segmentation for initial intensity normalization reading mri_src from /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/FLAIR.prenorm.mgz... Copying mri_dst from mri_src computing distance transform computing distance transform min_dist = 1 Erasing Border planes 4 Removing non-wm voxels 116292 non wm control points removed Building bias image building Voronoi diagram... performing soap bubble smoothing, sigma = 0... smoothing bias field with sigma=0.500 MRIapplyBiasCorrectionSameGeometry() writing normalized volume to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/FLAIR.norm.mgz #VMPC# mri_normalize VmPeak 856272 mri_normalize done @#@FSTIME 2023:08:14:15:31:25 mri_normalize N 18 e 41.10 S 1.07 U 40.03 P 99% M 725900 F 0 R 482292 W 0 c 202 w 1 I 0 O 35256 L 4.07 3.65 3.43 @#@FSLOADPOST 2023:08:14:15:32:06 mri_normalize N 18 4.06 3.72 3.46 mri_mask -transfer 255 -keep_mask_deletion_edits /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/FLAIR.norm.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/brain.finalsurfs.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/FLAIR.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) transfer mask voxels=255 to dst vol Transferring mask edits ('1' voxels) to dst vol DoAbs = 0 Writing masked volume to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/FLAIR.mgz...done. @#@FSTIME 2023:08:14:15:32:06 mri_mask N 6 e 3.77 S 0.15 U 3.61 P 99% M 238196 F 0 R 58353 W 0 c 19 w 1 I 0 O 35256 L 4.06 3.72 3.46 @#@FSLOADPOST 2023:08:14:15:32:10 mri_mask N 6 4.06 3.72 3.46 #-------------------------------------------- #@# MMPialSurf lh Mon 14 Aug 15:32:10 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --lh --i ../surf/lh.pial.T1 --o ../surf/lh.pial.FLAIR --pial --nsmooth 0 --rip-label ../label/lh.cortex+hipamyg.label --pin-medial-wall ../label/lh.cortex.label --white-surf ../surf/lh.white --aparc ../label/lh.aparc.annot --repulse-surf ../surf/lh.white --mmvol FLAIR.mgz FLAIR /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --lh --i ../surf/lh.pial.T1 --o ../surf/lh.pial.FLAIR --pial --nsmooth 0 --rip-label ../label/lh.cortex+hipamyg.label --pin-medial-wall ../label/lh.cortex.label --white-surf ../surf/lh.white --aparc ../label/lh.aparc.annot --repulse-surf ../surf/lh.white --mmvol FLAIR.mgz FLAIR Reading in input surface ../surf/lh.pial.T1 Not smoothing input surface Area 254118 0.42347 0.29789 0.000399 5.8264 Corner 762354 60.00000 25.16029 0.095517 179.7176 Edge 381177 1.02901 0.43397 0.011710 6.5490 Hinge 381177 13.50127 17.66500 0.000089 179.9952 Reading white surface coordinates from ../surf/lh.white Reading repulsion surface coordinates from ../surf/lh.white Reading in aparc ../label/lh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21752, wmmin=5, clip=110 MRIfindBrightNonWM(): 7465 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 57.0993 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex+hipamyg.label MRISripNotLabel() ripped 8432/127061 vertices (118629 unripped) INFO: rip surface needed but not specified, so using input surface Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 Reading in multimodal volume FLAIR.mgz using multi modal weights vertex 63531: xyz = (-64.2862,-7.71719,12.3847) oxyz = (-62.5244,-9.11192,11.8372) wxzy = (-62.5244,-9.11192,11.8372) pxyz = (-64.2862,-7.71719,12.3847) CBVO Creating mask 127061 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing pial target locations using multimodal (2) starting MRIScomputePialTargetLocationsMultiModal() max_outward_dist = 3, sample_dist = 0.1, pix_size = 1, whalf = 7 T2_min_inside = 110, T2_max_inside 300, T2_min_outside = 130, T2_max_outside 300 inside_peak_pct = 0.01, 0.01, outside_peak_pct = 0.5, 0.5 wm_weight = 3, nlabels=0, contrast_type=2 Creating lowres distance volumes t=0.000524404 Creating white distance volumes t=0.656666 (box.dx, box.dy, box.dz) = (148, 228, 312) (region->dx, region->dy, region->dz) = (148, 228, 312) (region->dx, region->dy, region->dz) = (148, 228, 312) Creating pial distance volumes t=1.34613 (box.dx, box.dy, box.dz) = (156, 234, 320) (region->dx, region->dy, region->dz) = (156, 234, 320) (region->dx, region->dy, region->dz) = (156, 234, 320) locating cortical regions not in interior range [110.0 --> 300.0], and not in exterior range [130.0 --> 300.0] t = 2.09195 Starting loop over 127061 vertices vno = 0, t = 2.09195 vno = 20000, t = 2.56175 vno = 40000, t = 3.12428 vno = 60000, t = 3.62835 vno = 80000, t = 4.07127 vno = 100000, t = 4.63365 vno = 120000, t = 5.15948 CPTL: t = 5.34763 109093 surface locations found to contain inconsistent values (41054 in, 68039 out) Positioning Surface: tspring = 0.3, nspring = 1, spring = 0, niters = 100 l_repulse = 0.025, l_surf_repulse = 5, checktol = 1 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 1, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=0.025, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=1.000, l_location=0.500, l_curv=0.500 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=305821.8, rms=0.738 #@% 0 loc cost weight=0.5, cost = 0.685393711436 001: dt: 0.5000, sse=296593.1, rms=0.685 (7.136%) #@% 1 loc cost weight=0.5, cost = 0.641532457420 002: dt: 0.5000, sse=291805.2, rms=0.642 (6.399%) #@% 2 loc cost weight=0.5, cost = 0.607242627777 003: dt: 0.5000, sse=288702.6, rms=0.607 (5.345%) #@% 3 loc cost weight=0.5, cost = 0.580051299951 004: dt: 0.5000, sse=286216.4, rms=0.580 (4.478%) #@% 4 loc cost weight=0.5, cost = 0.559865203795 005: dt: 0.5000, sse=284488.5, rms=0.560 (3.480%) #@% 5 loc cost weight=0.5, cost = 0.545434134517 006: dt: 0.5000, sse=283145.0, rms=0.545 (2.578%) #@% 6 loc cost weight=0.5, cost = 0.535572781282 007: dt: 0.5000, sse=282224.5, rms=0.536 (1.808%) #@% 7 loc cost weight=0.5, cost = 0.529438714265 008: dt: 0.5000, sse=281606.2, rms=0.529 (1.145%) #@% 8 loc cost weight=0.5, cost = 0.526179825912 009: dt: 0.5000, sse=281401.3, rms=0.526 (0.616%) #@% 9 loc cost weight=0.5, cost = 0.525277101835 010: dt: 0.5000, sse=281256.2, rms=0.525 (0.172%) #@% 10 loc cost weight=0.5, cost = 0.526183318799 rms = 0.5262/0.5253, sse=281058.8/281256.2, time step reduction 1 of 3 to 0.250 1 0 0 011: dt: 0.5000, sse=281058.8, rms=0.526 (-0.173%) #@% 11 loc cost weight=0.5, cost = 0.527116714755 rms = 0.5271/0.5262, sse=281007.0/281058.8, time step reduction 2 of 3 to 0.125 1 0 0 012: dt: 0.2500, sse=281007.0, rms=0.527 (-0.177%) #@% 12 loc cost weight=0.5, cost = 0.527480022221 rms = 0.5275/0.5271, sse=281058.9/281007.0, time step reduction 3 of 3 to 0.062 1 0 0 013: dt: 0.1250, sse=281058.9, rms=0.527 (-0.069%) maximum number of reductions reached, breaking from loop positioning took 1.4 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing pial target locations using multimodal (2) starting MRIScomputePialTargetLocationsMultiModal() max_outward_dist = 3, sample_dist = 0.1, pix_size = 1, whalf = 7 T2_min_inside = 110, T2_max_inside 300, T2_min_outside = 130, T2_max_outside 300 inside_peak_pct = 0.01, 0.01, outside_peak_pct = 0.5, 0.5 wm_weight = 3, nlabels=0, contrast_type=2 Creating lowres distance volumes t=0.000215877 Creating white distance volumes t=0.611371 (box.dx, box.dy, box.dz) = (148, 228, 312) (region->dx, region->dy, region->dz) = (148, 228, 312) (region->dx, region->dy, region->dz) = (148, 228, 312) Creating pial distance volumes t=1.25889 (box.dx, box.dy, box.dz) = (152, 232, 318) (region->dx, region->dy, region->dz) = (152, 232, 318) (region->dx, region->dy, region->dz) = (152, 232, 318) locating cortical regions not in interior range [110.0 --> 300.0], and not in exterior range [130.0 --> 300.0] t = 1.92694 Starting loop over 127061 vertices vno = 0, t = 1.92694 vno = 20000, t = 2.39744 vno = 40000, t = 2.93851 vno = 60000, t = 3.46484 vno = 80000, t = 3.94507 vno = 100000, t = 4.50572 vno = 120000, t = 5.0341 CPTL: t = 5.22448 110496 surface locations found to contain inconsistent values (26939 in, 83557 out) Positioning Surface: tspring = 0.3, nspring = 1, spring = 0, niters = 100 l_repulse = 0.025, l_surf_repulse = 5, checktol = 1 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 1, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=0.025, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=1.000, l_location=0.500, l_curv=0.500 mom=0.00, dt=0.50 000: dt: 0.0000, sse=239106.3, rms=0.529 #@% 13 loc cost weight=0.5, cost = 0.518970649593 014: dt: 0.5000, sse=238529.0, rms=0.519 (1.860%) #@% 14 loc cost weight=0.5, cost = 0.513479722632 015: dt: 0.5000, sse=237733.7, rms=0.513 (1.058%) #@% 15 loc cost weight=0.5, cost = 0.511132461709 016: dt: 0.5000, sse=237895.2, rms=0.511 (0.457%) #@% 16 loc cost weight=0.5, cost = 0.509614575103 017: dt: 0.5000, sse=238149.5, rms=0.510 (0.297%) #@% 17 loc cost weight=0.5, cost = 0.509681114961 rms = 0.5097/0.5096, sse=238229.7/238149.4, time step reduction 1 of 3 to 0.250 1 0 0 018: dt: 0.5000, sse=238229.7, rms=0.510 (-0.013%) #@% 18 loc cost weight=0.5, cost = 0.509811715549 rms = 0.5098/0.5097, sse=238182.6/238229.7, time step reduction 2 of 3 to 0.125 1 0 0 019: dt: 0.2500, sse=238182.6, rms=0.510 (-0.026%) #@% 19 loc cost weight=0.5, cost = 0.509824583767 rms = 0.5098/0.5098, sse=238050.5/238182.6, time step reduction 3 of 3 to 0.062 1 0 0 020: dt: 0.1250, sse=238050.5, rms=0.510 (-0.003%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Pinning medial wall to white surface removing intersecting faces 000: 12 intersecting terminating search with 0 intersecting Writing output to ../surf/lh.pial.FLAIR #ET# mris_place_surface 12.78 minutes #VMPC# mris_place_surfaces VmPeak 2385780 mris_place_surface done @#@FSTIME 2023:08:14:15:32:10 mris_place_surface N 31 e 776.85 S 3.83 U 772.95 P 99% M 2098928 F 0 R 1715825 W 0 c 3191 w 1 I 0 O 8936 L 4.06 3.72 3.46 @#@FSLOADPOST 2023:08:14:15:45:07 mris_place_surface N 31 3.87 3.53 3.47 #-------------------------------------------- #@# MMPialSurf rh Mon 14 Aug 15:45:07 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --rh --i ../surf/rh.pial.T1 --o ../surf/rh.pial.FLAIR --pial --nsmooth 0 --rip-label ../label/rh.cortex+hipamyg.label --pin-medial-wall ../label/rh.cortex.label --white-surf ../surf/rh.white --aparc ../label/rh.aparc.annot --repulse-surf ../surf/rh.white --mmvol FLAIR.mgz FLAIR /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --rh --i ../surf/rh.pial.T1 --o ../surf/rh.pial.FLAIR --pial --nsmooth 0 --rip-label ../label/rh.cortex+hipamyg.label --pin-medial-wall ../label/rh.cortex.label --white-surf ../surf/rh.white --aparc ../label/rh.aparc.annot --repulse-surf ../surf/rh.white --mmvol FLAIR.mgz FLAIR Reading in input surface ../surf/rh.pial.T1 Not smoothing input surface Area 245922 0.43895 0.32466 0.000055 6.5585 Corner 737766 60.00000 25.68767 0.060067 179.8507 Edge 368883 1.04829 0.46243 0.009819 6.7062 Hinge 368883 13.93391 18.57405 0.000153 179.9868 Reading white surface coordinates from ../surf/rh.white Reading repulsion surface coordinates from ../surf/rh.white Reading in aparc ../label/rh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21752, wmmin=5, clip=110 MRIfindBrightNonWM(): 7465 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 57.5993 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex+hipamyg.label MRISripNotLabel() ripped 8001/122963 vertices (114962 unripped) INFO: rip surface needed but not specified, so using input surface Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 Reading in multimodal volume FLAIR.mgz using multi modal weights vertex 61482: xyz = (19.8147,-3.80007,-19.3223) oxyz = (19.8147,-3.80007,-19.3223) wxzy = (19.8147,-3.80007,-19.3223) pxyz = (19.8147,-3.80007,-19.3223) CBVO Creating mask 122963 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing pial target locations using multimodal (2) starting MRIScomputePialTargetLocationsMultiModal() max_outward_dist = 3, sample_dist = 0.1, pix_size = 1, whalf = 7 T2_min_inside = 110, T2_max_inside 300, T2_min_outside = 130, T2_max_outside 300 inside_peak_pct = 0.01, 0.01, outside_peak_pct = 0.5, 0.5 wm_weight = 3, nlabels=0, contrast_type=2 Creating lowres distance volumes t=0.000554221 Creating white distance volumes t=0.62998 (box.dx, box.dy, box.dz) = (146, 216, 310) (region->dx, region->dy, region->dz) = (146, 216, 310) (region->dx, region->dy, region->dz) = (146, 216, 310) Creating pial distance volumes t=1.29626 (box.dx, box.dy, box.dz) = (156, 228, 318) (region->dx, region->dy, region->dz) = (156, 228, 318) (region->dx, region->dy, region->dz) = (156, 228, 318) locating cortical regions not in interior range [110.0 --> 300.0], and not in exterior range [130.0 --> 300.0] t = 2.0054 Starting loop over 122963 vertices vno = 0, t = 2.0054 vno = 20000, t = 2.46692 vno = 40000, t = 2.97235 vno = 60000, t = 3.39602 vno = 80000, t = 3.90533 vno = 100000, t = 4.4741 vno = 120000, t = 4.98043 CPTL: t = 5.05297 106702 surface locations found to contain inconsistent values (48654 in, 58048 out) Positioning Surface: tspring = 0.3, nspring = 1, spring = 0, niters = 100 l_repulse = 0.025, l_surf_repulse = 5, checktol = 1 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 1, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=0.025, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=1.000, l_location=0.500, l_curv=0.500 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=311889.9, rms=0.737 #@% 0 loc cost weight=0.5, cost = 0.678082814621 001: dt: 0.5000, sse=301345.2, rms=0.678 (7.985%) #@% 1 loc cost weight=0.5, cost = 0.628574247171 002: dt: 0.5000, sse=295408.1, rms=0.629 (7.301%) #@% 2 loc cost weight=0.5, cost = 0.588590570932 003: dt: 0.5000, sse=291441.7, rms=0.589 (6.361%) #@% 3 loc cost weight=0.5, cost = 0.556584501185 004: dt: 0.5000, sse=288132.2, rms=0.557 (5.438%) #@% 4 loc cost weight=0.5, cost = 0.532073413546 005: dt: 0.5000, sse=286023.2, rms=0.532 (4.404%) #@% 5 loc cost weight=0.5, cost = 0.514195429539 006: dt: 0.5000, sse=284220.6, rms=0.514 (3.360%) #@% 6 loc cost weight=0.5, cost = 0.502067556044 007: dt: 0.5000, sse=282715.8, rms=0.502 (2.359%) #@% 7 loc cost weight=0.5, cost = 0.494675122422 008: dt: 0.5000, sse=281857.5, rms=0.495 (1.472%) #@% 8 loc cost weight=0.5, cost = 0.490771013091 009: dt: 0.5000, sse=281193.5, rms=0.491 (0.789%) #@% 9 loc cost weight=0.5, cost = 0.489800503228 010: dt: 0.5000, sse=280783.8, rms=0.490 (0.198%) #@% 10 loc cost weight=0.5, cost = 0.490595737047 rms = 0.4906/0.4898, sse=280597.2/280783.8, time step reduction 1 of 3 to 0.250 1 0 0 011: dt: 0.5000, sse=280597.2, rms=0.491 (-0.162%) #@% 11 loc cost weight=0.5, cost = 0.491817243460 rms = 0.4918/0.4906, sse=280375.3/280597.2, time step reduction 2 of 3 to 0.125 1 0 0 012: dt: 0.2500, sse=280375.3, rms=0.492 (-0.249%) #@% 12 loc cost weight=0.5, cost = 0.492340316631 rms = 0.4923/0.4918, sse=280352.9/280375.3, time step reduction 3 of 3 to 0.062 1 0 0 013: dt: 0.1250, sse=280352.8, rms=0.492 (-0.106%) maximum number of reductions reached, breaking from loop positioning took 1.3 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing pial target locations using multimodal (2) starting MRIScomputePialTargetLocationsMultiModal() max_outward_dist = 3, sample_dist = 0.1, pix_size = 1, whalf = 7 T2_min_inside = 110, T2_max_inside 300, T2_min_outside = 130, T2_max_outside 300 inside_peak_pct = 0.01, 0.01, outside_peak_pct = 0.5, 0.5 wm_weight = 3, nlabels=0, contrast_type=2 Creating lowres distance volumes t=0.000224479 Creating white distance volumes t=0.621499 (box.dx, box.dy, box.dz) = (146, 216, 310) (region->dx, region->dy, region->dz) = (146, 216, 310) (region->dx, region->dy, region->dz) = (146, 216, 310) Creating pial distance volumes t=1.24589 (box.dx, box.dy, box.dz) = (152, 224, 316) (region->dx, region->dy, region->dz) = (152, 224, 316) (region->dx, region->dy, region->dz) = (152, 224, 316) locating cortical regions not in interior range [110.0 --> 300.0], and not in exterior range [130.0 --> 300.0] t = 1.93973 Starting loop over 122963 vertices vno = 0, t = 1.93973 vno = 20000, t = 2.39473 vno = 40000, t = 2.89608 vno = 60000, t = 3.34673 vno = 80000, t = 3.88215 vno = 100000, t = 4.47096 vno = 120000, t = 4.98387 CPTL: t = 5.05966 108599 surface locations found to contain inconsistent values (30463 in, 78136 out) Positioning Surface: tspring = 0.3, nspring = 1, spring = 0, niters = 100 l_repulse = 0.025, l_surf_repulse = 5, checktol = 1 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 1, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=0.025, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=1.000, l_location=0.500, l_curv=0.500 mom=0.00, dt=0.50 000: dt: 0.0000, sse=233037.2, rms=0.481 #@% 13 loc cost weight=0.5, cost = 0.473353247081 014: dt: 0.5000, sse=232537.9, rms=0.473 (1.669%) #@% 14 loc cost weight=0.5, cost = 0.470208413829 015: dt: 0.5000, sse=231899.7, rms=0.470 (0.664%) #@% 15 loc cost weight=0.5, cost = 0.469839530438 016: dt: 0.5000, sse=231302.4, rms=0.470 (0.078%) #@% 16 loc cost weight=0.5, cost = 0.470628400623 rms = 0.4706/0.4698, sse=231135.3/231302.4, time step reduction 1 of 3 to 0.250 1 0 0 017: dt: 0.5000, sse=231135.2, rms=0.471 (-0.168%) #@% 17 loc cost weight=0.5, cost = 0.471290289659 rms = 0.4713/0.4706, sse=230609.4/231135.3, time step reduction 2 of 3 to 0.125 1 0 0 018: dt: 0.2500, sse=230609.4, rms=0.471 (-0.141%) #@% 18 loc cost weight=0.5, cost = 0.471540438677 rms = 0.4715/0.4713, sse=230629.0/230609.4, time step reduction 3 of 3 to 0.062 1 0 0 019: dt: 0.1250, sse=230629.0, rms=0.472 (-0.053%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Pinning medial wall to white surface removing intersecting faces 000: 13 intersecting terminating search with 0 intersecting Writing output to ../surf/rh.pial.FLAIR #ET# mris_place_surface 12.20 minutes #VMPC# mris_place_surfaces VmPeak 2338944 mris_place_surface done @#@FSTIME 2023:08:14:15:45:07 mris_place_surface N 31 e 741.42 S 3.48 U 737.87 P 99% M 2052608 F 0 R 1697154 W 0 c 3141 w 0 I 0 O 8648 L 3.87 3.53 3.47 @#@FSLOADPOST 2023:08:14:15:57:28 mris_place_surface N 31 3.27 3.23 3.29 #@# white curv lh Mon 14 Aug 15:57:28 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/lh.white, nbrs 2, curvature_avgs 10 writing curvature file ../surf/lh.curv @#@FSTIME 2023:08:14:15:57:28 mris_place_surface N 5 e 2.48 S 0.12 U 2.35 P 99% M 175184 F 0 R 47140 W 0 c 10 w 1 I 0 O 1000 L 3.27 3.23 3.29 @#@FSLOADPOST 2023:08:14:15:57:31 mris_place_surface N 5 3.27 3.23 3.29 #@# white area lh Mon 14 Aug 15:57:31 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/lh.area @#@FSTIME 2023:08:14:15:57:31 mris_place_surface N 3 e 0.85 S 0.07 U 0.77 P 99% M 175260 F 0 R 47140 W 0 c 17 w 1 I 0 O 1000 L 3.27 3.23 3.29 @#@FSLOADPOST 2023:08:14:15:57:32 mris_place_surface N 3 3.27 3.23 3.29 #@# pial curv lh Mon 14 Aug 15:57:32 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/lh.pial, nbrs 2, curvature_avgs 10 writing curvature file ../surf/lh.curv.pial @#@FSTIME 2023:08:14:15:57:32 mris_place_surface N 5 e 1.77 S 0.07 U 1.69 P 99% M 175232 F 0 R 47141 W 0 c 6 w 1 I 0 O 1000 L 3.27 3.23 3.29 @#@FSLOADPOST 2023:08:14:15:57:33 mris_place_surface N 5 3.33 3.24 3.29 #@# pial area lh Mon 14 Aug 15:57:33 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/lh.area.pial @#@FSTIME 2023:08:14:15:57:33 mris_place_surface N 3 e 0.90 S 0.07 U 0.82 P 100% M 175156 F 0 R 47139 W 0 c 5 w 1 I 0 O 1000 L 3.33 3.24 3.29 @#@FSLOADPOST 2023:08:14:15:57:34 mris_place_surface N 3 3.33 3.24 3.29 #@# thickness lh Mon 14 Aug 15:57:34 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 0 of 127061 vertices processed 25000 of 127061 vertices processed 50000 of 127061 vertices processed 75000 of 127061 vertices processed 100000 of 127061 vertices processed 125000 of 127061 vertices processed 0 of 127061 vertices processed 25000 of 127061 vertices processed 50000 of 127061 vertices processed 75000 of 127061 vertices processed 100000 of 127061 vertices processed 125000 of 127061 vertices processed thickness calculation complete, 263:327 truncations. 86540 vertices at 0 distance 116157 vertices at 1 distance 35826 vertices at 2 distance 10576 vertices at 3 distance 3403 vertices at 4 distance 997 vertices at 5 distance 323 vertices at 6 distance 108 vertices at 7 distance 54 vertices at 8 distance 37 vertices at 9 distance 29 vertices at 10 distance 28 vertices at 11 distance 15 vertices at 12 distance 13 vertices at 13 distance 10 vertices at 14 distance 4 vertices at 15 distance 1 vertices at 16 distance 0 vertices at 17 distance 0 vertices at 18 distance 0 vertices at 19 distance 1 vertices at 20 distance writing curvature file ../surf/lh.thickness @#@FSTIME 2023:08:14:15:57:34 mris_place_surface N 6 e 32.30 S 0.10 U 32.19 P 99% M 175268 F 0 R 53842 W 0 c 87 w 1 I 0 O 1000 L 3.33 3.24 3.29 @#@FSLOADPOST 2023:08:14:15:58:07 mris_place_surface N 6 3.25 3.23 3.29 #@# area and vertex vol lh Mon 14 Aug 15:58:07 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_calc -o lh.area.mid lh.area add lh.area.pial Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o lh.area.mid lh.area.mid div 2 Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume sub-073_ses-BSL lh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.volume masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Total face volume 169078 Total vertex volume 168888 (mask=0) #@# sub-073_ses-BSL lh 168888 vertexvol Done @#@FSTIME 2023:08:14:15:58:07 vertexvol N 4 e 1.81 S 0.15 U 1.66 P 99% M 290780 F 0 R 82715 W 0 c 15 w 22 I 0 O 3000 L 3.25 3.23 3.29 @#@FSLOADPOST 2023:08:14:15:58:08 vertexvol N 4 3.31 3.24 3.29 #@# white curv rh Mon 14 Aug 15:58:08 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/rh.white, nbrs 2, curvature_avgs 10 writing curvature file ../surf/rh.curv @#@FSTIME 2023:08:14:15:58:08 mris_place_surface N 5 e 1.91 S 0.09 U 1.82 P 100% M 169744 F 0 R 45631 W 0 c 14 w 1 I 0 O 968 L 3.31 3.24 3.29 @#@FSLOADPOST 2023:08:14:15:58:10 mris_place_surface N 5 3.31 3.24 3.29 #@# white area rh Mon 14 Aug 15:58:10 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/rh.area @#@FSTIME 2023:08:14:15:58:10 mris_place_surface N 3 e 0.95 S 0.08 U 0.86 P 99% M 169760 F 0 R 45629 W 0 c 2 w 1 I 0 O 968 L 3.31 3.24 3.29 @#@FSLOADPOST 2023:08:14:15:58:11 mris_place_surface N 3 3.31 3.24 3.29 #@# pial curv rh Mon 14 Aug 15:58:11 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/rh.pial, nbrs 2, curvature_avgs 10 writing curvature file ../surf/rh.curv.pial @#@FSTIME 2023:08:14:15:58:11 mris_place_surface N 5 e 1.78 S 0.05 U 1.73 P 100% M 169768 F 0 R 45630 W 0 c 10 w 1 I 0 O 968 L 3.31 3.24 3.29 @#@FSLOADPOST 2023:08:14:15:58:13 mris_place_surface N 5 3.29 3.24 3.29 #@# pial area rh Mon 14 Aug 15:58:13 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/rh.area.pial @#@FSTIME 2023:08:14:15:58:13 mris_place_surface N 3 e 0.94 S 0.09 U 0.83 P 99% M 169744 F 0 R 45627 W 0 c 3 w 1 I 0 O 968 L 3.29 3.24 3.29 @#@FSLOADPOST 2023:08:14:15:58:14 mris_place_surface N 3 3.29 3.24 3.29 #@# thickness rh Mon 14 Aug 15:58:14 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 0 of 122963 vertices processed 25000 of 122963 vertices processed 50000 of 122963 vertices processed 75000 of 122963 vertices processed 100000 of 122963 vertices processed 0 of 122963 vertices processed 25000 of 122963 vertices processed 50000 of 122963 vertices processed 75000 of 122963 vertices processed 100000 of 122963 vertices processed thickness calculation complete, 73:127 truncations. 89423 vertices at 0 distance 110714 vertices at 1 distance 32151 vertices at 2 distance 9260 vertices at 3 distance 2988 vertices at 4 distance 859 vertices at 5 distance 264 vertices at 6 distance 75 vertices at 7 distance 31 vertices at 8 distance 25 vertices at 9 distance 24 vertices at 10 distance 25 vertices at 11 distance 22 vertices at 12 distance 11 vertices at 13 distance 16 vertices at 14 distance 7 vertices at 15 distance 12 vertices at 16 distance 9 vertices at 17 distance 7 vertices at 18 distance 1 vertices at 19 distance 2 vertices at 20 distance writing curvature file ../surf/rh.thickness @#@FSTIME 2023:08:14:15:58:14 mris_place_surface N 6 e 30.80 S 0.10 U 30.70 P 99% M 169924 F 0 R 52120 W 0 c 156 w 1 I 0 O 968 L 3.29 3.24 3.29 @#@FSLOADPOST 2023:08:14:15:58:45 mris_place_surface N 6 3.23 3.23 3.28 #@# area and vertex vol rh Mon 14 Aug 15:58:45 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_calc -o rh.area.mid rh.area add rh.area.pial Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o rh.area.mid rh.area.mid div 2 Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume sub-073_ses-BSL rh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.volume masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Total face volume 158570 Total vertex volume 158387 (mask=0) #@# sub-073_ses-BSL rh 158387 vertexvol Done @#@FSTIME 2023:08:14:15:58:45 vertexvol N 4 e 1.63 S 0.14 U 1.49 P 99% M 281964 F 1 R 80111 W 0 c 15 w 22 I 0 O 2904 L 3.23 3.23 3.28 @#@FSLOADPOST 2023:08:14:15:58:47 vertexvol N 4 3.23 3.23 3.28 #----------------------------------------- #@# Curvature Stats lh Mon 14 Aug 15:58:47 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm sub-073_ses-BSL lh curv sulc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/lh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ sub-073_ses-BSL/lh.smoothwm ] Reading surface... [ ok ] Setting texture [ curv ] Reading texture... [ ok ] Setting texture [ sulc ] Reading texture...Gb_filter = 0 [ ok ] Calculating Discrete Principal Curvatures... Determining geometric order for vno faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 235 ] Gb_filter = 0 @#@FSTIME 2023:08:14:15:58:47 mris_curvature_stats N 11 e 2.66 S 0.11 U 2.55 P 99% M 175088 F 0 R 47345 W 0 c 11 w 2 I 8 O 8040 L 3.23 3.23 3.28 @#@FSLOADPOST 2023:08:14:15:58:49 mris_curvature_stats N 11 3.29 3.24 3.29 #----------------------------------------- #@# Curvature Stats rh Mon 14 Aug 15:58:49 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm sub-073_ses-BSL rh curv sulc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/rh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ sub-073_ses-BSL/rh.smoothwm ] Reading surface... [ ok ] Setting texture [ curv ] Reading texture... [ ok ] Setting texture [ sulc ] Reading texture...Gb_filter = 0 [ ok ] Calculating Discrete Principal Curvatures... Determining geometric order for vno faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 207 ] Gb_filter = 0 WARN: S lookup min: -0.056771 WARN: S explicit min: 0.000000 vertex = 1630 @#@FSTIME 2023:08:14:15:58:49 mris_curvature_stats N 11 e 2.58 S 0.10 U 2.47 P 99% M 169684 F 0 R 45831 W 0 c 27 w 1 I 0 O 7784 L 3.29 3.24 3.29 @#@FSLOADPOST 2023:08:14:15:58:52 mris_curvature_stats N 11 3.35 3.26 3.29 #-------------------------------------------- #@# Cortical ribbon mask Mon 14 Aug 15:58:52 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_volmask --aseg_name aseg.presurf --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon sub-073_ses-BSL /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR is /home/rosalia/Desktop/CAN_RUTI loading input data... Running hemis serially Processing left hemi computing distance to left white surface computing distance to left pial surface Processing right hemi computing distance to right white surface computing distance to right pial surface hemi masks overlap voxels = 16 writing volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/ribbon.mgz mris_volmask took 8.68 minutes writing ribbon files @#@FSTIME 2023:08:14:15:58:52 mris_volmask N 12 e 520.89 S 0.83 U 520.03 P 99% M 936280 F 0 R 504641 W 0 c 1732 w 1 I 0 O 784 L 3.35 3.26 3.29 @#@FSLOADPOST 2023:08:14:16:07:33 mris_volmask N 12 3.11 3.18 3.24 #----------------------------------------- #@# Cortical Parc 2 lh Mon 14 Aug 16:07:33 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL lh ../surf/lh.sphere.reg /home/rosalia/software/freesurfer/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 3.0 using min determinant for regularization = 0.088 0 singular and 0 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 109 labels changed using aseg relabeling using gibbs priors... 000: 8411 changed, 127061 examined... 001: 1864 changed, 32458 examined... 002: 569 changed, 10135 examined... 003: 215 changed, 3267 examined... 004: 107 changed, 1246 examined... 005: 47 changed, 637 examined... 006: 20 changed, 286 examined... 007: 8 changed, 120 examined... 008: 6 changed, 48 examined... 009: 4 changed, 37 examined... 010: 7 changed, 22 examined... 011: 6 changed, 29 examined... 012: 2 changed, 27 examined... 013: 1 changed, 15 examined... 014: 0 changed, 7 examined... 30 labels changed using aseg 000: 228 total segments, 143 labels (1465 vertices) changed 001: 91 total segments, 7 labels (30 vertices) changed 002: 84 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 40 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1168 vertices marked for relabeling... 1168 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 0 minutes and 16 seconds. @#@FSTIME 2023:08:14:16:07:33 mris_ca_label N 11 e 15.77 S 0.95 U 14.81 P 99% M 1695028 F 0 R 644419 W 0 c 103 w 1 I 0 O 1992 L 3.11 3.18 3.24 @#@FSLOADPOST 2023:08:14:16:07:49 mris_ca_label N 11 3.09 3.17 3.23 #----------------------------------------- #@# Cortical Parc 2 rh Mon 14 Aug 16:07:49 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL rh ../surf/rh.sphere.reg /home/rosalia/software/freesurfer/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.021 0 singular and 0 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 28 labels changed using aseg relabeling using gibbs priors... 000: 8111 changed, 122963 examined... 001: 1807 changed, 31959 examined... 002: 511 changed, 9748 examined... 003: 196 changed, 2919 examined... 004: 101 changed, 1196 examined... 005: 56 changed, 595 examined... 006: 29 changed, 316 examined... 007: 11 changed, 159 examined... 008: 3 changed, 58 examined... 009: 1 changed, 21 examined... 010: 0 changed, 7 examined... 19 labels changed using aseg 000: 198 total segments, 112 labels (1552 vertices) changed 001: 94 total segments, 9 labels (64 vertices) changed 002: 85 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 33 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1135 vertices marked for relabeling... 1135 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 0 minutes and 16 seconds. @#@FSTIME 2023:08:14:16:07:49 mris_ca_label N 11 e 16.21 S 1.25 U 14.95 P 99% M 1528804 F 0 R 600629 W 0 c 73 w 1 I 0 O 1928 L 3.09 3.17 3.23 @#@FSLOADPOST 2023:08:14:16:08:05 mris_ca_label N 11 3.28 3.21 3.25 #----------------------------------------- #@# Cortical Parc 3 lh Mon 14 Aug 16:08:05 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL lh ../surf/lh.sphere.reg /home/rosalia/software/freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.020 0 singular and 383 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1151 labels changed using aseg relabeling using gibbs priors... 000: 1933 changed, 127061 examined... 001: 455 changed, 9012 examined... 002: 150 changed, 2523 examined... 003: 79 changed, 841 examined... 004: 43 changed, 420 examined... 005: 24 changed, 242 examined... 006: 15 changed, 130 examined... 007: 15 changed, 88 examined... 008: 15 changed, 80 examined... 009: 14 changed, 73 examined... 010: 12 changed, 69 examined... 011: 9 changed, 63 examined... 012: 9 changed, 52 examined... 013: 8 changed, 52 examined... 014: 9 changed, 42 examined... 015: 10 changed, 44 examined... 016: 6 changed, 46 examined... 017: 2 changed, 23 examined... 018: 2 changed, 15 examined... 019: 2 changed, 14 examined... 020: 1 changed, 14 examined... 021: 1 changed, 7 examined... 022: 0 changed, 7 examined... 397 labels changed using aseg 000: 52 total segments, 18 labels (197 vertices) changed 001: 34 total segments, 0 labels (0 vertices) changed 7 filter iterations complete (10 requested, 0 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 791 vertices marked for relabeling... 791 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas.annot... classification took 0 minutes and 13 seconds. @#@FSTIME 2023:08:14:16:08:05 mris_ca_label N 11 e 12.73 S 0.64 U 12.08 P 99% M 902548 F 0 R 287950 W 0 c 77 w 1 I 0 O 1992 L 3.28 3.21 3.25 @#@FSLOADPOST 2023:08:14:16:08:18 mris_ca_label N 11 3.22 3.20 3.24 #----------------------------------------- #@# Cortical Parc 3 rh Mon 14 Aug 16:08:18 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL rh ../surf/rh.sphere.reg /home/rosalia/software/freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.9 using min determinant for regularization = 0.009 0 singular and 325 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1466 labels changed using aseg relabeling using gibbs priors... 000: 1819 changed, 122963 examined... 001: 460 changed, 8625 examined... 002: 150 changed, 2487 examined... 003: 54 changed, 808 examined... 004: 27 changed, 301 examined... 005: 17 changed, 155 examined... 006: 13 changed, 84 examined... 007: 5 changed, 73 examined... 008: 4 changed, 34 examined... 009: 3 changed, 16 examined... 010: 2 changed, 15 examined... 011: 3 changed, 12 examined... 012: 3 changed, 17 examined... 013: 0 changed, 17 examined... 339 labels changed using aseg 000: 55 total segments, 22 labels (103 vertices) changed 001: 34 total segments, 1 labels (1 vertices) changed 002: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 3 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 936 vertices marked for relabeling... 936 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas.annot... classification took 0 minutes and 13 seconds. @#@FSTIME 2023:08:14:16:08:18 mris_ca_label N 11 e 13.01 S 0.74 U 12.26 P 99% M 902872 F 0 R 323108 W 0 c 73 w 0 I 0 O 1928 L 3.22 3.20 3.24 @#@FSLOADPOST 2023:08:14:16:08:31 mris_ca_label N 11 3.19 3.19 3.24 #----------------------------------------- #@# WM/GM Contrast lh Mon 14 Aug 16:08:31 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts pctsurfcon --s sub-073_ses-BSL --lh-only /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Log file is /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts/pctsurfcon.log Mon 14 Aug 16:08:31 CEST 2023 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts /home/rosalia/software/freesurfer/bin/pctsurfcon pctsurfcon 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /home/rosalia/software/freesurfer mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.508276/lh.wm.mgh --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Done reading source surface Mapping Source Volume onto Source Subject Surface Projecting -1 -1 1 1 -1 -1 -1 using old Done mapping volume to surface Number of source voxels hit = 73476 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.508276/lh.wm.mgh Dim: 127061 1 1 mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.508276/lh.gm.mgh --projfrac 0.3 --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Done reading source surface Reading thickness /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.thickness Done Mapping Source Volume onto Source Subject Surface Projecting 0.3 0.3 1 1 0.3 0.3 0.3 using old Done mapping volume to surface Number of source voxels hit = 84344 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.508276/lh.gm.mgh Dim: 127061 1 1 mri_concat /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.508276/lh.wm.mgh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.508276/lh.gm.mgh --paired-diff-norm --mul 100 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh ninputs = 2 Checking inputs nframestot = 2 Allocing output Done allocing Combining pairs nframes = 1 Multiplying by 100.000000 Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh --annot sub-073_ses-BSL lh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/lh.w-g.pct.stats --snr 7.3.1 cwd cmdline mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh --annot sub-073_ses-BSL lh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/lh.w-g.pct.stats --snr sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.annot Seg base 1000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh Vertex Area is 0.690045 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation Reporting on 35 segmentations Using PrintSegStat mri_segstats done Cleaning up @#@FSTIME 2023:08:14:16:08:31 pctsurfcon N 3 e 4.34 S 0.46 U 3.88 P 100% M 242812 F 0 R 180185 W 0 c 33 w 64 I 0 O 3104 L 3.19 3.19 3.24 @#@FSLOADPOST 2023:08:14:16:08:35 pctsurfcon N 3 3.17 3.19 3.24 #----------------------------------------- #@# WM/GM Contrast rh Mon 14 Aug 16:08:35 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts pctsurfcon --s sub-073_ses-BSL --rh-only /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Log file is /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts/pctsurfcon.log Mon 14 Aug 16:08:35 CEST 2023 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts /home/rosalia/software/freesurfer/bin/pctsurfcon pctsurfcon 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /home/rosalia/software/freesurfer mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.508356/rh.wm.mgh --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Done reading source surface Mapping Source Volume onto Source Subject Surface Projecting -1 -1 1 1 -1 -1 -1 using old Done mapping volume to surface Number of source voxels hit = 72290 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.508356/rh.wm.mgh Dim: 122963 1 1 mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.508356/rh.gm.mgh --projfrac 0.3 --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Done reading source surface Reading thickness /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.thickness Done Mapping Source Volume onto Source Subject Surface Projecting 0.3 0.3 1 1 0.3 0.3 0.3 using old Done mapping volume to surface Number of source voxels hit = 82386 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.508356/rh.gm.mgh Dim: 122963 1 1 mri_concat /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.508356/rh.wm.mgh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.508356/rh.gm.mgh --paired-diff-norm --mul 100 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh ninputs = 2 Checking inputs nframestot = 2 Allocing output Done allocing Combining pairs nframes = 1 Multiplying by 100.000000 Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh --annot sub-073_ses-BSL rh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/rh.w-g.pct.stats --snr 7.3.1 cwd cmdline mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh --annot sub-073_ses-BSL rh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/rh.w-g.pct.stats --snr sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.annot Seg base 2000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh Vertex Area is 0.709196 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation Reporting on 35 segmentations Using PrintSegStat mri_segstats done Cleaning up @#@FSTIME 2023:08:14:16:08:35 pctsurfcon N 3 e 3.63 S 0.36 U 3.27 P 100% M 238156 F 0 R 176376 W 0 c 25 w 68 I 0 O 3016 L 3.17 3.19 3.24 @#@FSLOADPOST 2023:08:14:16:08:39 pctsurfcon N 3 3.24 3.20 3.24 #----------------------------------------- #@# Relabel Hypointensities Mon 14 Aug 16:08:39 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading input surface ../surf/lh.white... relabeling lh hypointensities... 4811 voxels changed to hypointensity... reading input surface ../surf/rh.white... relabeling rh hypointensities... 3779 voxels changed to hypointensity... 8351 hypointense voxels neighboring cortex changed @#@FSTIME 2023:08:14:16:08:39 mri_relabel_hypointensities N 3 e 16.11 S 0.53 U 15.57 P 99% M 460996 F 0 R 326296 W 0 c 57 w 1 I 0 O 672 L 3.24 3.20 3.24 @#@FSLOADPOST 2023:08:14:16:08:55 mri_relabel_hypointensities N 3 3.18 3.19 3.24 #----------------------------------------- #@# APas-to-ASeg Mon 14 Aug 16:08:55 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_surf2volseg --o aseg.mgz --i aseg.presurf.hypos.mgz --fix-presurf-with-ribbon /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/ribbon.mgz --threads 1 --lh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label --lh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white --lh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial --rh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label --rh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white --rh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI outvol aseg.mgz 8 avail.processors, using 1 Loading aseg.presurf.hypos.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/ribbon.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Done loading 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nrelabeled = 185856 ndotcheck = 0 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 872560 mri_surf2volseg done @#@FSTIME 2023:08:14:16:08:55 mri_surf2volseg N 20 e 20.82 S 0.41 U 20.40 P 99% M 852352 F 0 R 240081 W 0 c 73 w 1 I 0 O 664 L 3.18 3.19 3.24 @#@FSLOADPOST 2023:08:14:16:09:16 mri_surf2volseg N 20 3.19 3.19 3.24 mri_brainvol_stats sub-073_ses-BSL /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) ComputeBrainVolumeStats2 VoxelVol=1, KeepCSF=1 #CBVS2 MaskVol 2204234.0 #CBVS2 BrainSegVol 987514.0 #CBVS2 BrainSegVolNotVent 892942.0 #CBVS2 SupraTentVol 879339.0 #CBVS2 SupraTentVolNotVent 784767.0 #CBVS2 lhCtxGM 169016.0 #CBVS2 rhCtxGM 158499.4 #CBVS2 lhCerebralWM 206970.5 #CBVS2 rhCerebralWM 203536.5 #CBVS2 SubCortGMVol 47096.0 #CBVS2 CerebellumVol 108175.0 #CBVS2 CerebellumGMVol 84911.0 #CBVS2 VentChorVol 86888.0 #CBVS2 3rd4th5thCSF 7684.0 #CBVS2 AllCSF 94572.0 #CBVS2 CCVol 2885.0 @#@FSTIME 2023:08:14:16:09:16 mri_brainvol_stats N 1 e 4.44 S 0.28 U 4.15 P 100% M 213032 F 0 R 133788 W 0 c 21 w 1 I 0 O 8 L 3.19 3.19 3.24 @#@FSLOADPOST 2023:08:14:16:09:20 mri_brainvol_stats N 1 3.26 3.21 3.24 #----------------------------------------- #@# AParc-to-ASeg aparc Mon 14 Aug 16:09:20 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_surf2volseg --o aparc+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.annot 1000 --lh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label --lh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white --lh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial --rh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.annot 2000 --rh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label --rh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white --rh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI outvol aparc+aseg.mgz 8 avail.processors, using 1 Loading aseg.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 9968 vertices from lh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.annot Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 9406 vertices from rh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.annot Done loading 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nrelabeled = 327115 ndotcheck = 7217 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 856684 mri_surf2volseg done @#@FSTIME 2023:08:14:16:09:21 mri_surf2volseg N 25 e 72.56 S 0.44 U 72.10 P 99% M 836316 F 0 R 232920 W 0 c 391 w 1 I 0 O 752 L 3.26 3.21 3.24 @#@FSLOADPOST 2023:08:14:16:10:33 mri_surf2volseg N 25 3.07 3.16 3.22 #----------------------------------------- #@# AParc-to-ASeg aparc.a2009s Mon 14 Aug 16:10:33 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_surf2volseg --o aparc.a2009s+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.a2009s.annot 11100 --lh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label --lh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white --lh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial --rh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.a2009s.annot 12100 --rh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label --rh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white --rh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI outvol aparc.a2009s+aseg.mgz 8 avail.processors, using 1 Loading aseg.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 9968 vertices from lh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.a2009s.annot Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 9406 vertices from rh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.a2009s.annot Done loading 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 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--lh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial --rh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.DKTatlas.annot 2000 --rh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label --rh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white --rh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI outvol aparc.DKTatlas+aseg.mgz 8 avail.processors, using 1 Loading aseg.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 9968 vertices from lh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.DKTatlas.annot Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 9406 vertices from rh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.DKTatlas.annot Done loading 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 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/home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.annot 3000 --lh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label --lh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white --lh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial --rh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.annot 4000 --rh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label --rh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white --rh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI outvol wmparc.mgz 8 avail.processors, using 1 Loading aparc+aseg.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 9968 vertices from lh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.annot Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 9406 vertices from rh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.annot Done loading 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nrelabeled = 407622 ndotcheck = 4605 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 856684 mri_surf2volseg done @#@FSTIME 2023:08:14:16:13:05 mri_surf2volseg N 25 e 49.84 S 0.46 U 49.38 P 99% M 836476 F 0 R 232922 W 0 c 147 w 1 I 0 O 832 L 3.33 3.22 3.23 @#@FSLOADPOST 2023:08:14:16:13:55 mri_surf2volseg N 25 3.24 3.21 3.22 mri_segstats --seed 1234 --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject sub-073_ses-BSL --surf-wm-vol --ctab /home/rosalia/software/freesurfer/WMParcStatsLUT.txt --etiv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 7.3.1 cwd cmdline mri_segstats --seed 1234 --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject sub-073_ses-BSL --surf-wm-vol --ctab /home/rosalia/software/freesurfer/WMParcStatsLUT.txt --etiv sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) Loading mri/wmparc.mgz Getting Brain Volume Statistics Loading mri/norm.mgz Loading mri/norm.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 390 segmentations Computing statistics for each segmentation Reporting on 70 segmentations Using PrintSegStat mri_segstats done @#@FSTIME 2023:08:14:16:13:55 mri_segstats N 24 e 373.94 S 0.93 U 372.99 P 99% M 239908 F 0 R 1206300 W 0 c 1531 w 1 I 0 O 24 L 3.24 3.21 3.22 @#@FSLOADPOST 2023:08:14:16:20:09 mri_segstats N 24 3.26 3.26 3.24 #----------------------------------------- #@# Parcellation Stats lh Mon 14 Aug 16:20:09 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab sub-073_ses-BSL lh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 169078 Total vertex volume 168888 (mask=0) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1334 921 2073 2.378 0.432 0.112 0.025 12 1.3 bankssts 916 614 1382 2.208 0.788 0.110 0.024 11 0.9 caudalanteriorcingulate 2940 1923 3938 2.080 0.498 0.098 0.023 22 2.7 caudalmiddlefrontal 1983 1302 2263 1.795 0.470 0.129 0.029 24 2.3 cuneus 531 388 1066 2.475 0.575 0.115 0.034 5 0.6 entorhinal 4319 3079 6835 2.266 0.481 0.137 0.031 57 5.6 fusiform 6034 4037 8046 2.117 0.599 0.117 0.027 69 6.7 inferiorparietal 4712 3478 7951 2.340 0.564 0.134 0.034 68 6.8 inferiortemporal 1583 1109 2152 1.954 0.624 0.124 0.028 20 2.0 isthmuscingulate 5926 3719 6909 1.869 0.533 0.120 0.029 66 6.5 lateraloccipital 3886 2886 5866 2.187 0.648 0.144 0.042 52 7.7 lateralorbitofrontal 3560 2355 4160 1.812 0.462 0.122 0.030 40 4.3 lingual 2812 2139 4691 2.208 0.687 0.134 0.034 48 3.9 medialorbitofrontal 3910 3042 7338 2.377 0.501 0.143 0.032 65 5.5 middletemporal 887 572 1327 2.204 0.465 0.080 0.019 4 0.6 parahippocampal 2135 1316 3049 2.262 0.494 0.108 0.025 17 2.1 paracentral 2063 1574 3391 2.155 0.443 0.130 0.029 24 2.5 parsopercularis 1022 772 1730 2.081 0.537 0.138 0.033 14 1.4 parsorbitalis 1709 1239 2268 2.025 0.439 0.113 0.025 14 1.6 parstriangularis 1680 1143 1769 1.827 0.422 0.122 0.030 14 2.1 pericalcarine 6734 4334 7598 1.719 0.541 0.102 0.023 62 6.1 postcentral 1555 1101 2524 2.296 0.641 0.119 0.029 20 1.8 posteriorcingulate 7386 4829 10072 2.107 0.500 0.102 0.022 55 6.8 precentral 5200 3631 7156 2.088 0.494 0.120 0.027 55 5.5 precuneus 1023 733 2311 2.825 1.148 0.121 0.036 11 1.8 rostralanteriorcingulate 7269 5441 8988 1.709 0.431 0.130 0.031 93 9.8 rostralmiddlefrontal 9447 6930 15160 2.177 0.568 0.129 0.032 108 13.1 superiorfrontal 7422 5166 8755 1.752 0.434 0.118 0.025 89 7.6 superiorparietal 5430 3777 9320 2.482 0.548 0.103 0.022 48 4.8 superiortemporal 6746 4689 9511 2.059 0.457 0.117 0.023 74 6.8 supramarginal 305 283 659 2.060 0.526 0.151 0.050 6 0.5 frontalpole 739 597 1778 2.631 0.706 0.157 0.039 13 1.2 temporalpole 740 423 1065 2.229 0.509 0.089 0.017 5 0.5 transversetemporal 3155 2128 5788 2.796 1.014 0.100 0.030 25 3.5 insula @#@FSTIME 2023:08:14:16:20:09 mris_anatomical_stats N 14 e 16.98 S 0.23 U 16.75 P 99% M 451568 F 0 R 130162 W 0 c 61 w 1 I 0 O 24 L 3.26 3.26 3.24 @#@FSLOADPOST 2023:08:14:16:20:26 mris_anatomical_stats N 14 3.20 3.25 3.24 mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab sub-073_ses-BSL lh pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 169078 Total vertex volume 168888 (mask=0) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1334 828 2073 2.378 0.432 0.086 0.019 17 0.8 bankssts 916 672 1382 2.208 0.788 0.125 0.032 98 1.1 caudalanteriorcingulate 2940 1921 3938 2.080 0.498 0.079 0.011 14 1.3 caudalmiddlefrontal 1983 1315 2263 1.795 0.470 0.093 0.016 26 1.2 cuneus 531 498 1066 2.475 0.575 0.135 0.023 7 0.5 entorhinal 4319 2973 6835 2.266 0.481 0.110 0.024 494 3.7 fusiform 6034 3732 8046 2.117 0.599 0.085 0.016 54 3.5 inferiorparietal 4712 3485 7951 2.340 0.564 0.102 0.021 107 3.1 inferiortemporal 1583 1118 2152 1.954 0.624 0.106 0.045 377 1.0 isthmuscingulate 5926 3800 6909 1.869 0.533 0.095 0.018 75 4.0 lateraloccipital 3886 2589 5866 2.187 0.648 0.099 0.022 63 2.9 lateralorbitofrontal 3560 2356 4160 1.812 0.462 0.090 0.017 37 2.1 lingual 2812 2136 4691 2.208 0.687 0.100 0.018 40 1.7 medialorbitofrontal 3910 3212 7338 2.377 0.501 0.111 0.018 42 2.8 middletemporal 887 658 1327 2.204 0.465 0.093 0.018 4 0.7 parahippocampal 2135 1395 3049 2.262 0.494 0.090 0.013 17 1.0 paracentral 2063 1664 3391 2.155 0.443 0.105 0.017 14 1.3 parsopercularis 1022 888 1730 2.081 0.537 0.113 0.015 7 0.7 parsorbitalis 1709 1089 2268 2.025 0.439 0.093 0.017 15 1.1 parstriangularis 1680 856 1769 1.827 0.422 0.081 0.017 18 1.0 pericalcarine 6734 4615 7598 1.719 0.541 0.083 0.012 39 3.2 postcentral 1555 1118 2524 2.296 0.641 0.104 0.027 65 1.0 posteriorcingulate 7386 4882 10072 2.107 0.500 0.082 0.012 50 3.7 precentral 5200 3380 7156 2.088 0.494 0.090 0.017 54 3.3 precuneus 1023 841 2311 2.825 1.148 0.084 0.011 3 0.5 rostralanteriorcingulate 7269 5393 8988 1.709 0.431 0.103 0.017 50 4.9 rostralmiddlefrontal 9447 7184 15160 2.177 0.568 0.102 0.017 85 5.7 superiorfrontal 7422 5102 8755 1.752 0.434 0.097 0.015 57 4.4 superiorparietal 5430 3762 9320 2.482 0.548 0.088 0.014 88 3.2 superiortemporal 6746 4702 9511 2.059 0.457 0.095 0.015 61 3.9 supramarginal 305 365 659 2.060 0.526 0.144 0.016 2 0.2 frontalpole 739 783 1778 2.631 0.706 0.141 0.022 7 0.6 temporalpole 740 542 1065 2.229 0.509 0.079 0.009 3 0.2 transversetemporal 3155 1862 5788 2.796 1.014 0.079 0.036 83 6.5 insula @#@FSTIME 2023:08:14:16:20:26 mris_anatomical_stats N 14 e 17.26 S 0.27 U 16.98 P 99% M 451548 F 0 R 130167 W 0 c 94 w 1 I 0 O 24 L 3.20 3.25 3.24 @#@FSLOADPOST 2023:08:14:16:20:43 mris_anatomical_stats N 14 3.16 3.23 3.23 #----------------------------------------- #@# Parcellation Stats rh Mon 14 Aug 16:20:43 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab sub-073_ses-BSL rh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 158570 Total vertex volume 158387 (mask=0) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1097 743 1618 2.475 0.344 0.101 0.017 6 1.0 bankssts 1022 768 1652 2.278 0.572 0.131 0.035 17 1.5 caudalanteriorcingulate 2536 1849 3555 1.973 0.437 0.138 0.033 33 3.8 caudalmiddlefrontal 2019 1342 2338 1.747 0.443 0.127 0.030 24 2.4 cuneus 524 389 959 2.257 0.574 0.115 0.023 4 0.5 entorhinal 3777 2736 5657 2.136 0.468 0.130 0.028 49 4.2 fusiform 7490 5280 9476 1.896 0.464 0.122 0.027 86 8.0 inferiorparietal 3766 2991 6546 2.183 0.595 0.147 0.034 65 5.6 inferiortemporal 1451 981 1818 1.847 0.597 0.120 0.030 19 1.4 isthmuscingulate 5842 4103 7257 1.817 0.458 0.129 0.029 67 6.8 lateraloccipital 3771 2939 5833 2.179 0.539 0.147 0.044 52 7.9 lateralorbitofrontal 3692 2538 3883 1.618 0.487 0.130 0.032 46 4.6 lingual 3008 2387 4715 2.029 0.534 0.130 0.033 49 4.0 medialorbitofrontal 4249 3226 7174 2.226 0.584 0.127 0.028 54 4.9 middletemporal 939 622 1299 2.021 0.449 0.084 0.020 6 0.6 parahippocampal 2161 1299 3043 2.250 0.409 0.099 0.021 15 1.8 paracentral 1707 1292 2911 2.192 0.526 0.136 0.037 26 2.7 parsopercularis 1052 846 1920 2.113 0.467 0.129 0.029 11 1.0 parsorbitalis 1949 1490 2846 1.987 0.486 0.120 0.029 22 2.3 parstriangularis 1644 1139 1721 1.719 0.406 0.113 0.026 12 1.8 pericalcarine 5644 3572 5947 1.654 0.518 0.095 0.020 48 4.4 postcentral 1634 1160 2494 2.061 0.640 0.122 0.029 21 2.0 posteriorcingulate 7522 5026 9657 1.951 0.503 0.107 0.023 64 7.5 precentral 5368 3897 7262 2.020 0.475 0.129 0.029 58 6.3 precuneus 706 501 1422 2.780 0.755 0.124 0.035 11 1.0 rostralanteriorcingulate 7599 5934 10016 1.750 0.461 0.135 0.035 105 11.6 rostralmiddlefrontal 8880 6577 12994 2.004 0.493 0.130 0.034 99 12.5 superiorfrontal 7197 5084 8159 1.637 0.414 0.108 0.022 73 6.3 superiorparietal 5050 3426 8592 2.492 0.563 0.104 0.021 44 4.2 superiortemporal 5545 3932 7095 1.905 0.499 0.124 0.027 66 6.1 supramarginal 355 396 875 2.060 0.369 0.214 0.049 12 0.7 frontalpole 584 526 2045 3.318 0.837 0.166 0.047 12 1.2 temporalpole 550 325 593 1.732 0.314 0.100 0.018 4 0.3 transversetemporal 3227 2178 5014 2.464 0.786 0.111 0.039 35 4.7 insula @#@FSTIME 2023:08:14:16:20:43 mris_anatomical_stats N 14 e 15.50 S 0.27 U 15.22 P 99% M 437668 F 0 R 122983 W 0 c 53 w 1 I 0 O 24 L 3.23 3.25 3.24 @#@FSLOADPOST 2023:08:14:16:20:59 mris_anatomical_stats N 14 3.47 3.30 3.25 mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.pial.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab sub-073_ses-BSL rh pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 158570 Total vertex volume 158387 (mask=0) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1097 570 1618 2.475 0.344 0.072 0.014 13 0.4 bankssts 1022 772 1652 2.278 0.572 0.119 0.037 35 1.8 caudalanteriorcingulate 2536 1774 3555 1.973 0.437 0.099 0.018 17 1.6 caudalmiddlefrontal 2019 1430 2338 1.747 0.443 0.099 0.015 14 1.3 cuneus 524 450 959 2.257 0.574 0.142 0.040 40 0.5 entorhinal 3777 2590 5657 2.136 0.468 0.110 0.020 120 3.1 fusiform 7490 4982 9476 1.896 0.464 0.092 0.015 62 4.5 inferiorparietal 3766 2997 6546 2.183 0.595 0.107 0.021 56 2.5 inferiortemporal 1451 1030 1818 1.847 0.597 0.116 0.034 106 1.1 isthmuscingulate 5842 4072 7257 1.817 0.458 0.100 0.019 58 3.9 lateraloccipital 3771 2619 5833 2.179 0.539 0.101 0.020 61 2.4 lateralorbitofrontal 3692 2404 3883 1.618 0.487 0.093 0.018 127 2.3 lingual 3008 2377 4715 2.029 0.534 0.096 0.015 31 1.7 medialorbitofrontal 4249 3368 7174 2.226 0.584 0.105 0.016 45 2.9 middletemporal 939 684 1299 2.021 0.449 0.085 0.013 5 0.5 parahippocampal 2161 1395 3043 2.250 0.409 0.089 0.015 18 1.3 paracentral 1707 1331 2911 2.192 0.526 0.102 0.018 11 1.1 parsopercularis 1052 994 1920 2.113 0.467 0.122 0.018 10 0.6 parsorbitalis 1949 1519 2846 1.987 0.486 0.101 0.014 13 1.1 parstriangularis 1644 915 1721 1.719 0.406 0.087 0.019 44 1.3 pericalcarine 5644 3740 5947 1.654 0.518 0.076 0.011 26 2.4 postcentral 1634 1233 2494 2.061 0.640 0.119 0.028 143 2.2 posteriorcingulate 7522 5043 9657 1.951 0.503 0.087 0.014 50 4.0 precentral 5368 3483 7262 2.020 0.475 0.097 0.019 66 3.6 precuneus 706 525 1422 2.780 0.755 0.104 0.019 11 0.4 rostralanteriorcingulate 7599 5781 10016 1.750 0.461 0.104 0.019 75 5.7 rostralmiddlefrontal 8880 6715 12994 2.004 0.493 0.107 0.019 79 6.3 superiorfrontal 7197 5118 8159 1.637 0.414 0.088 0.012 40 3.7 superiorparietal 5050 3572 8592 2.492 0.563 0.083 0.013 87 2.4 superiortemporal 5545 3729 7095 1.905 0.499 0.097 0.017 63 3.8 supramarginal 355 480 875 2.060 0.369 0.163 0.026 3 0.3 frontalpole 584 760 2045 3.318 0.837 0.182 0.028 5 0.9 temporalpole 550 384 593 1.732 0.314 0.080 0.007 2 0.1 transversetemporal 3227 1891 5014 2.464 0.786 0.088 0.024 42 2.3 insula @#@FSTIME 2023:08:14:16:20:59 mris_anatomical_stats N 14 e 15.30 S 0.25 U 15.05 P 99% M 437596 F 0 R 122981 W 0 c 69 w 1 I 0 O 24 L 3.47 3.30 3.25 @#@FSLOADPOST 2023:08:14:16:21:14 mris_anatomical_stats N 14 3.74 3.37 3.28 #----------------------------------------- #@# Parcellation Stats 2 lh Mon 14 Aug 16:21:14 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.a2009s.stats -b -a ../label/lh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab sub-073_ses-BSL lh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/lh.aparc.a2009s.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 169078 Total vertex volume 168888 (mask=0) Saving annotation colortable ../label/aparc.annot.a2009s.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 960 748 1352 1.874 0.407 0.138 0.033 10 1.5 G_and_S_frontomargin 1271 866 1748 2.051 0.510 0.133 0.033 16 1.5 G_and_S_occipital_inf 1539 952 2162 2.093 0.581 0.122 0.031 14 2.0 G_and_S_paracentral 1453 1049 2358 2.212 0.546 0.133 0.030 17 1.9 G_and_S_subcentral 617 578 993 1.664 0.446 0.179 0.048 15 1.4 G_and_S_transv_frontopol 1951 1405 3839 2.751 0.834 0.122 0.032 18 3.0 G_and_S_cingul-Ant 1127 781 1629 2.203 0.459 0.105 0.022 9 1.1 G_and_S_cingul-Mid-Ant 1204 860 2004 2.453 0.413 0.113 0.024 9 1.2 G_and_S_cingul-Mid-Post 499 383 1137 2.475 0.583 0.162 0.042 8 0.8 G_cingul-Post-dorsal 279 218 388 1.859 0.673 0.171 0.045 6 0.7 G_cingul-Post-ventral 1789 1165 2082 1.707 0.463 0.137 0.036 26 2.5 G_cuneus 1307 1026 2408 2.181 0.461 0.144 0.035 20 1.8 G_front_inf-Opercular 357 271 743 2.255 0.435 0.134 0.032 5 0.4 G_front_inf-Orbital 1144 860 1549 1.777 0.464 0.142 0.037 18 1.6 G_front_inf-Triangul 3570 2619 4770 1.727 0.458 0.136 0.035 59 5.3 G_front_middle 6762 5049 12202 2.240 0.587 0.143 0.038 103 10.9 G_front_sup 627 424 1093 2.619 1.052 0.119 0.052 10 0.8 G_Ins_lg_and_S_cent_ins 541 394 1726 3.673 0.974 0.109 0.030 5 0.8 G_insular_short 1793 983 2241 2.066 0.594 0.106 0.032 24 2.1 G_occipital_middle 1356 875 1832 1.957 0.461 0.123 0.027 16 1.4 G_occipital_sup 2010 1425 3255 2.222 0.535 0.142 0.033 32 2.7 G_oc-temp_lat-fusifor 2519 1643 2982 1.750 0.498 0.138 0.036 36 3.6 G_oc-temp_med-Lingual 1290 874 2230 2.231 0.549 0.108 0.032 12 1.4 G_oc-temp_med-Parahip 2387 1895 4103 2.012 0.688 0.159 0.045 45 4.9 G_orbital 2484 1726 3799 2.006 0.630 0.129 0.030 41 2.9 G_pariet_inf-Angular 3190 2230 4844 2.042 0.516 0.120 0.024 41 3.0 G_pariet_inf-Supramar 2986 2137 3647 1.655 0.412 0.124 0.027 40 3.1 G_parietal_sup 2826 1666 2968 1.613 0.496 0.108 0.029 35 2.9 G_postcentral 2698 1652 4069 2.120 0.509 0.108 0.028 28 2.8 G_precentral 2492 1807 3882 1.973 0.462 0.143 0.037 45 3.3 G_precuneus 809 694 1530 1.932 0.645 0.154 0.044 22 1.3 G_rectus 556 363 819 2.209 0.912 0.109 0.036 5 0.7 G_subcallosal 601 342 998 2.379 0.541 0.103 0.021 5 0.5 G_temp_sup-G_T_transv 1759 1304 3798 2.488 0.503 0.138 0.036 30 2.4 G_temp_sup-Lateral 799 592 1841 2.990 0.865 0.092 0.022 4 0.6 G_temp_sup-Plan_polar 973 690 1738 2.414 0.413 0.102 0.024 13 1.0 G_temp_sup-Plan_tempo 2452 1864 4462 2.213 0.639 0.144 0.042 46 4.3 G_temporal_inf 2245 1859 4756 2.289 0.551 0.165 0.041 50 4.0 G_temporal_middle 216 161 292 2.128 0.313 0.120 0.030 2 0.3 Lat_Fis-ant-Horizont 228 165 362 2.495 0.333 0.089 0.012 1 0.1 Lat_Fis-ant-Vertical 1145 761 1299 2.171 0.428 0.103 0.019 6 1.0 Lat_Fis-post 1825 1136 1651 1.443 0.423 0.122 0.033 23 2.2 Pole_occipital 1595 1269 3626 2.536 0.604 0.158 0.041 29 2.7 Pole_temporal 2125 1432 2386 1.973 0.481 0.108 0.024 14 2.1 S_calcarine 3137 2123 3068 1.669 0.496 0.086 0.015 11 2.2 S_central 1120 753 1443 2.203 0.458 0.086 0.013 4 0.6 S_cingul-Marginalis 505 364 647 2.151 0.476 0.150 0.060 4 1.4 S_circular_insula_ant 1547 1005 2308 2.739 0.873 0.075 0.011 4 0.8 S_circular_insula_inf 1669 1104 2208 2.444 0.482 0.097 0.024 9 1.8 S_circular_insula_sup 1029 692 1394 2.389 0.357 0.102 0.015 5 0.8 S_collat_transv_ant 342 247 454 2.103 0.344 0.130 0.028 3 0.4 S_collat_transv_post 2417 1691 2960 1.907 0.536 0.102 0.020 15 2.0 S_front_inf 1108 792 1185 1.616 0.279 0.099 0.020 7 0.9 S_front_middle 2549 1716 3052 1.960 0.496 0.090 0.020 14 2.1 S_front_sup 515 360 539 1.905 0.447 0.105 0.017 3 0.4 S_interm_prim-Jensen 2705 1876 2842 1.794 0.434 0.107 0.021 25 2.5 S_intrapariet_and_P_trans 600 381 710 1.995 0.421 0.110 0.025 6 0.6 S_oc_middle_and_Lunatus 1517 1034 1755 1.972 0.357 0.114 0.021 12 1.4 S_oc_sup_and_transversal 521 344 680 2.385 0.376 0.124 0.029 5 0.6 S_occipital_ant 670 495 947 2.329 0.387 0.129 0.025 6 0.8 S_oc-temp_lat 1658 1137 2138 2.178 0.337 0.099 0.019 10 1.3 S_oc-temp_med_and_Lingual 491 392 600 1.832 0.430 0.135 0.028 4 0.7 S_orbital_lateral 705 471 880 2.245 0.589 0.103 0.020 4 0.6 S_orbital_med-olfact 1513 1086 2224 2.386 0.485 0.131 0.034 14 2.3 S_orbital-H_Shaped 1851 1218 2196 2.114 0.510 0.103 0.017 12 1.5 S_parieto_occipital 1504 925 1260 1.702 0.618 0.097 0.023 22 1.4 S_pericallosal 3207 2188 3708 1.936 0.434 0.107 0.022 23 3.1 S_postcentral 1758 1164 2218 2.115 0.387 0.096 0.017 10 1.4 S_precentral-inf-part 1284 836 1445 2.026 0.368 0.077 0.012 4 0.7 S_precentral-sup-part 666 497 1127 2.541 0.667 0.143 0.030 8 0.9 S_suborbital 1103 767 1458 2.283 0.322 0.121 0.024 8 1.2 S_subparietal 1593 1114 2285 2.461 0.413 0.122 0.024 14 1.7 S_temporal_inf 5092 3461 7159 2.374 0.441 0.102 0.019 32 4.5 S_temporal_sup 361 242 402 2.110 0.290 0.105 0.014 3 0.3 S_temporal_transverse @#@FSTIME 2023:08:14:16:21:14 mris_anatomical_stats N 14 e 18.43 S 0.24 U 18.19 P 99% M 451280 F 0 R 130068 W 0 c 85 w 1 I 0 O 40 L 3.74 3.37 3.28 @#@FSLOADPOST 2023:08:14:16:21:32 mris_anatomical_stats N 14 3.65 3.36 3.28 #----------------------------------------- #@# Parcellation Stats 2 rh Mon 14 Aug 16:21:32 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.a2009s.stats -b -a ../label/rh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab sub-073_ses-BSL rh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/rh.aparc.a2009s.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 158570 Total vertex volume 158387 (mask=0) Saving annotation colortable ../label/aparc.annot.a2009s.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 659 588 1212 2.039 0.440 0.168 0.042 14 1.2 G_and_S_frontomargin 976 733 1288 1.806 0.375 0.145 0.028 12 1.2 G_and_S_occipital_inf 1325 783 1836 2.036 0.435 0.110 0.025 17 1.2 G_and_S_paracentral 1149 796 1757 2.180 0.601 0.125 0.029 12 1.3 G_and_S_subcentral 988 920 1815 1.925 0.434 0.161 0.040 19 1.7 G_and_S_transv_frontopol 2785 2044 4277 2.232 0.550 0.119 0.029 30 3.5 G_and_S_cingul-Ant 1218 903 1839 2.175 0.438 0.127 0.030 13 1.8 G_and_S_cingul-Mid-Ant 1229 875 1991 2.306 0.452 0.115 0.027 11 1.3 G_and_S_cingul-Mid-Post 457 355 883 2.147 0.569 0.146 0.035 7 0.5 G_cingul-Post-dorsal 298 218 428 1.879 0.730 0.142 0.040 5 0.4 G_cingul-Post-ventral 1831 1233 2128 1.664 0.445 0.138 0.036 25 2.6 G_cuneus 1176 936 2348 2.191 0.600 0.159 0.047 25 2.3 G_front_inf-Opercular 355 283 650 2.050 0.511 0.132 0.033 5 0.4 G_front_inf-Orbital 820 673 1323 1.836 0.494 0.133 0.031 12 1.0 G_front_inf-Triangul 3679 3020 5549 1.761 0.483 0.160 0.042 72 6.8 G_front_middle 5876 4464 9680 2.059 0.530 0.149 0.044 92 10.4 G_front_sup 600 409 1068 2.742 0.841 0.109 0.041 6 1.0 G_Ins_lg_and_S_cent_ins 695 554 1439 2.448 1.029 0.158 0.059 12 1.8 G_insular_short 2238 1587 3422 1.978 0.439 0.131 0.032 37 2.6 G_occipital_middle 1262 870 1580 1.748 0.414 0.121 0.025 15 1.3 G_occipital_sup 1636 1151 2240 1.939 0.440 0.127 0.028 23 1.9 G_oc-temp_lat-fusifor 2202 1479 2379 1.558 0.466 0.127 0.035 30 2.8 G_oc-temp_med-Lingual 1234 849 2071 2.089 0.546 0.109 0.029 11 1.2 G_oc-temp_med-Parahip 2381 2028 4619 2.090 0.608 0.155 0.043 43 4.3 G_orbital 2622 1891 3376 1.759 0.493 0.148 0.038 46 3.9 G_pariet_inf-Angular 3000 2176 4314 1.994 0.576 0.137 0.030 44 3.6 G_pariet_inf-Supramar 2042 1529 2623 1.560 0.415 0.127 0.029 32 2.2 G_parietal_sup 2078 1223 1979 1.484 0.397 0.105 0.024 24 2.0 G_postcentral 2900 1856 4287 2.017 0.525 0.107 0.025 31 2.8 G_precentral 2526 1914 3813 1.915 0.462 0.144 0.037 40 3.3 G_precuneus 764 727 1380 1.762 0.605 0.166 0.047 21 1.4 G_rectus 592 445 890 2.137 0.732 0.143 0.045 8 1.1 G_subcallosal 401 227 495 1.848 0.408 0.104 0.018 3 0.3 G_temp_sup-G_T_transv 1639 1163 3358 2.454 0.486 0.132 0.034 24 2.1 G_temp_sup-Lateral 849 586 1814 3.083 0.829 0.069 0.014 2 0.5 G_temp_sup-Plan_polar 873 574 1230 2.152 0.722 0.090 0.022 6 0.6 G_temp_sup-Plan_tempo 2038 1686 3950 2.133 0.674 0.164 0.042 46 3.5 G_temporal_inf 2273 1834 4214 2.045 0.603 0.145 0.035 41 3.2 G_temporal_middle 317 218 456 2.304 0.284 0.075 0.010 1 0.1 Lat_Fis-ant-Horizont 250 178 366 2.456 0.246 0.088 0.013 1 0.1 Lat_Fis-ant-Vertical 1337 853 1438 2.022 0.420 0.095 0.021 7 1.1 Lat_Fis-post 2489 1704 2450 1.491 0.413 0.137 0.037 32 3.5 Pole_occipital 1604 1419 4295 2.601 0.603 0.168 0.044 34 3.1 Pole_temporal 1881 1307 2106 1.885 0.459 0.104 0.020 11 1.6 S_calcarine 2804 1916 2612 1.584 0.451 0.090 0.015 13 1.9 S_central 1182 805 1451 2.067 0.468 0.094 0.016 5 0.8 S_cingul-Marginalis 525 356 680 2.320 0.407 0.134 0.050 4 1.3 S_circular_insula_ant 1134 703 1541 2.620 0.784 0.071 0.011 3 0.5 S_circular_insula_inf 1276 821 1541 2.325 0.394 0.105 0.034 12 1.6 S_circular_insula_sup 785 563 1055 2.301 0.419 0.104 0.017 6 0.6 S_collat_transv_ant 471 332 502 1.863 0.293 0.120 0.024 3 0.5 S_collat_transv_post 1816 1257 2075 1.871 0.401 0.117 0.032 15 2.6 S_front_inf 2030 1416 2117 1.657 0.356 0.096 0.021 13 1.8 S_front_middle 2383 1635 2626 1.779 0.438 0.097 0.018 12 1.9 S_front_sup 468 353 673 1.880 0.484 0.146 0.037 7 0.8 S_interm_prim-Jensen 3815 2635 4034 1.745 0.417 0.092 0.015 20 2.6 S_intrapariet_and_P_trans 568 395 627 1.969 0.352 0.105 0.018 3 0.4 S_oc_middle_and_Lunatus 1108 760 1183 1.859 0.476 0.099 0.017 6 0.8 S_oc_sup_and_transversal 549 404 736 2.150 0.389 0.130 0.027 5 0.6 S_occipital_ant 868 658 1159 2.021 0.419 0.137 0.025 9 1.1 S_oc-temp_lat 1847 1275 2301 2.072 0.465 0.106 0.018 15 1.4 S_oc-temp_med_and_Lingual 462 330 512 1.909 0.315 0.113 0.032 3 0.7 S_orbital_lateral 790 538 1008 2.332 0.400 0.103 0.018 5 0.6 S_orbital_med-olfact 1547 1141 2205 2.245 0.425 0.131 0.040 17 3.1 S_orbital-H_Shaped 2011 1338 2320 2.017 0.484 0.103 0.017 14 1.5 S_parieto_occipital 1541 943 1433 1.829 0.734 0.104 0.024 21 1.4 S_pericallosal 2426 1610 2462 1.728 0.355 0.080 0.014 11 1.4 S_postcentral 1685 1197 1958 1.955 0.420 0.130 0.030 20 2.5 S_precentral-inf-part 1400 955 1466 1.784 0.440 0.100 0.018 7 1.1 S_precentral-sup-part 196 158 370 2.505 0.423 0.165 0.035 3 0.3 S_suborbital 1168 853 1617 2.222 0.329 0.141 0.033 13 1.8 S_subparietal 1183 814 1496 2.295 0.425 0.109 0.019 7 1.1 S_temporal_inf 5668 3853 7572 2.270 0.484 0.103 0.019 38 4.7 S_temporal_sup 307 224 396 2.127 0.413 0.142 0.017 3 0.3 S_temporal_transverse @#@FSTIME 2023:08:14:16:21:32 mris_anatomical_stats N 14 e 16.89 S 0.24 U 16.64 P 99% M 437604 F 0 R 126046 W 0 c 72 w 1 I 0 O 40 L 3.65 3.36 3.28 @#@FSLOADPOST 2023:08:14:16:21:49 mris_anatomical_stats N 14 3.84 3.42 3.30 #----------------------------------------- #@# Parcellation Stats 3 lh Mon 14 Aug 16:21:49 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.DKTatlas.stats -b -a ../label/lh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab sub-073_ses-BSL lh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 169078 Total vertex volume 168888 (mask=0) Saving annotation colortable ../label/aparc.annot.DKTatlas.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1630 1103 2378 2.244 0.626 0.112 0.025 19 1.8 caudalanteriorcingulate 3176 2083 4235 2.074 0.494 0.097 0.023 24 2.9 caudalmiddlefrontal 2609 1715 3044 1.825 0.492 0.124 0.028 30 3.1 cuneus 545 387 1031 2.403 0.561 0.123 0.037 6 0.7 entorhinal 3937 2792 6017 2.238 0.451 0.134 0.029 49 4.8 fusiform 6180 4172 8301 2.088 0.594 0.119 0.028 75 6.9 inferiorparietal 4665 3493 8294 2.343 0.583 0.135 0.035 71 6.7 inferiortemporal 1565 1096 2137 1.969 0.627 0.125 0.028 20 2.0 isthmuscingulate 6090 3808 7134 1.873 0.534 0.120 0.029 69 6.7 lateraloccipital 4145 3108 6531 2.197 0.659 0.144 0.042 59 7.6 lateralorbitofrontal 3637 2407 4236 1.808 0.458 0.122 0.030 40 4.4 lingual 2341 1829 4100 2.191 0.679 0.140 0.037 46 3.4 medialorbitofrontal 5320 3999 9279 2.395 0.488 0.138 0.031 77 7.5 middletemporal 928 603 1412 2.212 0.475 0.081 0.020 5 0.6 parahippocampal 2541 1593 3709 2.306 0.520 0.108 0.024 19 2.6 paracentral 1900 1435 3107 2.171 0.440 0.131 0.031 23 2.5 parsopercularis 1002 732 1522 2.056 0.429 0.133 0.034 12 1.3 parsorbitalis 2367 1733 3058 1.886 0.478 0.117 0.026 24 2.4 parstriangularis 1661 1131 1745 1.825 0.427 0.122 0.030 14 2.0 pericalcarine 7539 4888 8521 1.740 0.536 0.104 0.023 68 7.1 postcentral 1683 1183 2685 2.310 0.606 0.119 0.028 21 1.9 posteriorcingulate 7326 4783 9993 2.122 0.506 0.102 0.022 54 6.8 precentral 5084 3578 7128 2.087 0.489 0.123 0.027 57 5.6 precuneus 1411 989 2786 2.696 1.075 0.117 0.033 13 2.1 rostralanteriorcingulate 5145 3839 6634 1.765 0.468 0.129 0.031 64 6.9 rostralmiddlefrontal 9933 7448 15638 2.067 0.585 0.131 0.033 121 14.2 superiorfrontal 5948 4161 6866 1.725 0.417 0.117 0.025 70 5.8 superiorparietal 7147 5023 12718 2.491 0.562 0.109 0.024 69 6.7 superiortemporal 6200 4300 8546 2.046 0.454 0.117 0.023 67 6.1 supramarginal 740 424 1059 2.214 0.502 0.088 0.016 5 0.4 transversetemporal 2698 1833 5043 2.805 1.074 0.101 0.029 19 3.4 insula @#@FSTIME 2023:08:14:16:21:49 mris_anatomical_stats N 14 e 17.25 S 0.26 U 16.98 P 99% M 451596 F 0 R 130168 W 0 c 94 w 0 I 0 O 24 L 3.84 3.42 3.30 @#@FSLOADPOST 2023:08:14:16:22:07 mris_anatomical_stats N 14 3.72 3.42 3.30 #----------------------------------------- #@# Parcellation Stats 3 rh Mon 14 Aug 16:22:07 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.DKTatlas.stats -b -a ../label/rh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab sub-073_ses-BSL rh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 158570 Total vertex volume 158387 (mask=0) Saving annotation colortable ../label/aparc.annot.DKTatlas.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1156 867 1839 2.230 0.583 0.133 0.035 19 1.8 caudalanteriorcingulate 2674 1933 3700 1.967 0.443 0.138 0.033 35 4.0 caudalmiddlefrontal 2362 1572 2744 1.739 0.442 0.124 0.029 27 2.8 cuneus 473 343 818 2.168 0.593 0.119 0.025 4 0.5 entorhinal 3381 2411 4776 2.092 0.440 0.125 0.025 40 3.5 fusiform 7475 5265 9410 1.891 0.457 0.122 0.027 87 8.0 inferiorparietal 4148 3327 7437 2.202 0.601 0.149 0.036 74 6.4 inferiortemporal 1440 972 1810 1.851 0.589 0.119 0.029 19 1.4 isthmuscingulate 6009 4206 7483 1.813 0.456 0.129 0.029 70 7.0 lateraloccipital 4224 3354 6915 2.171 0.570 0.146 0.043 65 8.1 lateralorbitofrontal 3599 2484 3806 1.621 0.487 0.128 0.031 43 4.4 lingual 2253 1838 3688 2.030 0.567 0.139 0.037 41 3.3 medialorbitofrontal 5026 3776 8389 2.276 0.572 0.127 0.027 61 5.8 middletemporal 1022 683 1433 2.047 0.455 0.087 0.021 7 0.7 parahippocampal 2266 1370 3246 2.267 0.416 0.100 0.021 16 1.9 paracentral 1920 1435 3163 2.171 0.524 0.134 0.036 28 2.8 parsopercularis 958 724 1500 2.086 0.407 0.129 0.033 9 1.5 parsorbitalis 1952 1485 2702 1.914 0.480 0.122 0.032 22 2.6 parstriangularis 1611 1121 1684 1.717 0.397 0.110 0.024 11 1.6 pericalcarine 6189 3949 6522 1.658 0.504 0.097 0.020 54 5.0 postcentral 1693 1205 2574 2.075 0.632 0.123 0.028 21 2.0 posteriorcingulate 7142 4767 9285 1.962 0.511 0.107 0.023 61 6.9 precentral 5453 3985 7395 2.007 0.477 0.131 0.030 61 6.5 precuneus 971 683 1749 2.551 0.831 0.110 0.029 12 1.2 rostralanteriorcingulate 5421 4219 6992 1.728 0.441 0.134 0.035 73 8.4 rostralmiddlefrontal 11563 8781 16933 1.967 0.478 0.133 0.034 140 16.5 superiorfrontal 6130 4308 6822 1.621 0.417 0.105 0.021 61 5.2 superiorparietal 6437 4472 11721 2.548 0.634 0.108 0.023 60 6.1 superiortemporal 5309 3770 6834 1.909 0.499 0.123 0.027 62 5.7 supramarginal 531 314 582 1.723 0.315 0.098 0.018 4 0.3 transversetemporal 2769 1879 4434 2.527 0.771 0.110 0.038 30 4.1 insula @#@FSTIME 2023:08:14:16:22:07 mris_anatomical_stats N 14 e 15.71 S 0.24 U 15.46 P 99% M 437672 F 0 R 122984 W 0 c 72 w 1 I 0 O 24 L 3.72 3.42 3.30 @#@FSLOADPOST 2023:08:14:16:22:22 mris_anatomical_stats N 14 3.94 3.48 3.32 #-------------------------------------------- #@# ASeg Stats Mon 14 Aug 16:22:22 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL mri_segstats --seed 1234 --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --supratent --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /home/rosalia/software/freesurfer/ASegStatsLUT.txt --subject sub-073_ses-BSL /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 7.3.1 cwd cmdline mri_segstats --seed 1234 --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --supratent --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /home/rosalia/software/freesurfer/ASegStatsLUT.txt --subject sub-073_ses-BSL sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) Computing euler number orig.nofix lheno = -30, rheno = -36 orig.nofix lhholes = 16, rhholes = 19 Loading mri/aseg.mgz Getting Brain Volume Statistics Loading mri/norm.mgz Loading mri/norm.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 50 segmentations Computing statistics for each segmentation Reporting on 45 segmentations Using PrintSegStat mri_segstats done @#@FSTIME 2023:08:14:16:22:22 mri_segstats N 32 e 223.96 S 0.74 U 223.20 P 99% M 265508 F 0 R 756212 W 0 c 892 w 1 I 0 O 24 L 3.94 3.48 3.32 @#@FSLOADPOST 2023:08:14:16:26:06 mri_segstats N 32 3.53 3.56 3.39 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label #-------------------------------------------- #@# BA_exvivo Labels lh Mon 14 Aug 16:26:06 CEST 2023 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA1_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA1_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA1_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA1_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4129 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4129 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 254 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.label 4383 mri_label2label: Done @#@FSTIME 2023:08:14:16:26:06 mri_label2label N 12 e 5.80 S 0.25 U 5.54 P 99% M 537316 F 0 R 157573 W 0 c 37 w 0 I 0 O 296 L 3.53 3.56 3.39 @#@FSLOADPOST 2023:08:14:16:26:12 mri_label2label N 12 3.49 3.55 3.39 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA2_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA2_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA2_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA2_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 7909 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 7909 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 445 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.label 8354 mri_label2label: Done @#@FSTIME 2023:08:14:16:26:12 mri_label2label N 12 e 6.88 S 0.24 U 6.63 P 99% M 537504 F 0 R 157640 W 0 c 32 w 1 I 0 O 544 L 3.49 3.55 3.39 @#@FSLOADPOST 2023:08:14:16:26:19 mri_label2label N 12 3.57 3.56 3.39 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3a_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA3a_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA3a_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4077 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4077 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 37 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.label 4114 mri_label2label: Done @#@FSTIME 2023:08:14:16:26:19 mri_label2label N 12 e 5.82 S 0.25 U 5.56 P 99% M 537300 F 0 R 157569 W 0 c 32 w 1 I 0 O 232 L 3.57 3.56 3.39 @#@FSLOADPOST 2023:08:14:16:26:25 mri_label2label N 12 3.52 3.55 3.39 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3b_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA3b_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA3b_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 5983 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5983 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 139 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.label 6122 mri_label2label: Done @#@FSTIME 2023:08:14:16:26:25 mri_label2label N 12 e 6.43 S 0.27 U 6.15 P 99% M 537396 F 0 R 157602 W 0 c 40 w 1 I 0 O 376 L 3.52 3.55 3.39 @#@FSLOADPOST 2023:08:14:16:26:31 mri_label2label N 12 3.64 3.58 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4a_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA4a_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 5784 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5784 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 129 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.label 5913 mri_label2label: Done @#@FSTIME 2023:08:14:16:26:32 mri_label2label N 12 e 6.25 S 0.31 U 5.94 P 99% M 537376 F 0 R 157598 W 0 c 40 w 1 I 0 O 360 L 3.64 3.58 3.40 @#@FSLOADPOST 2023:08:14:16:26:38 mri_label2label N 12 3.67 3.59 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4p_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA4p_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA4p_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4070 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4070 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 77 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.label 4147 mri_label2label: Done @#@FSTIME 2023:08:14:16:26:38 mri_label2label N 12 e 6.37 S 0.27 U 6.10 P 99% M 537332 F 0 R 157568 W 0 c 35 w 1 I 0 O 248 L 3.67 3.59 3.40 @#@FSLOADPOST 2023:08:14:16:26:44 mri_label2label N 12 3.71 3.60 3.41 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA6_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA6_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA6_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA6_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 13589 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 13589 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 531 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.label 14120 mri_label2label: Done @#@FSTIME 2023:08:14:16:26:44 mri_label2label N 12 e 6.74 S 0.25 U 6.48 P 99% M 537916 F 0 R 157740 W 0 c 24 w 1 I 0 O 872 L 3.71 3.60 3.41 @#@FSLOADPOST 2023:08:14:16:26:51 mri_label2label N 12 3.58 3.57 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA44_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA44_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA44_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA44_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4181 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4181 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 106 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.label 4287 mri_label2label: Done @#@FSTIME 2023:08:14:16:26:51 mri_label2label N 12 e 5.18 S 0.28 U 4.90 P 99% M 537244 F 0 R 157570 W 0 c 34 w 1 I 0 O 256 L 3.58 3.57 3.40 @#@FSLOADPOST 2023:08:14:16:26:56 mri_label2label N 12 3.61 3.58 3.41 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA45_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA45_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA45_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3422 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3422 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 624 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.label 4046 mri_label2label: Done @#@FSTIME 2023:08:14:16:26:56 mri_label2label N 12 e 5.06 S 0.30 U 4.75 P 99% M 537280 F 0 R 157568 W 0 c 38 w 1 I 0 O 288 L 3.61 3.58 3.41 @#@FSLOADPOST 2023:08:14:16:27:01 mri_label2label N 12 3.64 3.59 3.41 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V1_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.V1_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V1_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.V1_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4641 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4641 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 541 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.label 5182 mri_label2label: Done @#@FSTIME 2023:08:14:16:27:01 mri_label2label N 12 e 5.27 S 0.30 U 4.96 P 99% M 537288 F 0 R 157582 W 0 c 21 w 1 I 0 O 392 L 3.64 3.59 3.41 @#@FSLOADPOST 2023:08:14:16:27:07 mri_label2label N 12 3.67 3.59 3.41 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V2_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.V2_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V2_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.V2_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 8114 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 8114 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 1111 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.label 9225 mri_label2label: Done @#@FSTIME 2023:08:14:16:27:07 mri_label2label N 12 e 5.91 S 0.26 U 5.65 P 100% M 537692 F 0 R 157649 W 0 c 30 w 1 I 0 O 696 L 3.67 3.59 3.41 @#@FSLOADPOST 2023:08:14:16:27:12 mri_label2label N 12 3.54 3.57 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.MT_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.MT_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.MT_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.MT_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2018 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2018 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 122 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.label 2140 mri_label2label: Done @#@FSTIME 2023:08:14:16:27:13 mri_label2label N 12 e 4.79 S 0.29 U 4.50 P 99% M 537220 F 0 R 157533 W 0 c 16 w 1 I 0 O 152 L 3.54 3.57 3.40 @#@FSLOADPOST 2023:08:14:16:27:17 mri_label2label N 12 3.49 3.56 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.entorhinal_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.entorhinal_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.entorhinal_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1290 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1290 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 33 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.label 1323 mri_label2label: Done @#@FSTIME 2023:08:14:16:27:17 mri_label2label N 12 e 4.68 S 0.28 U 4.40 P 100% M 537148 F 0 R 157522 W 0 c 13 w 1 I 0 O 88 L 3.49 3.56 3.40 @#@FSLOADPOST 2023:08:14:16:27:22 mri_label2label N 12 3.53 3.57 3.41 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.perirhinal_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.perirhinal_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1199 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1199 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 36 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.label 1235 mri_label2label: Done @#@FSTIME 2023:08:14:16:27:22 mri_label2label N 12 e 5.25 S 0.29 U 4.96 P 99% M 537200 F 0 R 157523 W 0 c 34 w 1 I 0 O 80 L 3.53 3.57 3.41 @#@FSLOADPOST 2023:08:14:16:27:27 mri_label2label N 12 3.49 3.56 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG1.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.FG1.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG1.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.FG1.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 414 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 414 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 63 Checking for and removing duplicates Writing label file ./lh.FG1.mpm.vpnl.label 477 mri_label2label: Done @#@FSTIME 2023:08:14:16:27:27 mri_label2label N 12 e 4.48 S 0.28 U 4.19 P 99% M 536932 F 0 R 157502 W 0 c 23 w 1 I 0 O 40 L 3.49 3.56 3.40 @#@FSLOADPOST 2023:08:14:16:27:32 mri_label2label N 12 3.45 3.55 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG2.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.FG2.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG2.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.FG2.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 703 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 703 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 122 Checking for and removing duplicates Writing label file ./lh.FG2.mpm.vpnl.label 825 mri_label2label: Done @#@FSTIME 2023:08:14:16:27:32 mri_label2label N 12 e 4.50 S 0.23 U 4.26 P 99% M 536892 F 0 R 154252 W 0 c 53 w 1 I 0 O 72 L 3.45 3.55 3.40 @#@FSLOADPOST 2023:08:14:16:27:36 mri_label2label N 12 3.42 3.54 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG3.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.FG3.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG3.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.FG3.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1873 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1873 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 90 Checking for and removing duplicates Writing label file ./lh.FG3.mpm.vpnl.label 1963 mri_label2label: Done @#@FSTIME 2023:08:14:16:27:36 mri_label2label N 12 e 4.74 S 0.27 U 4.46 P 99% M 537220 F 0 R 157530 W 0 c 9 w 1 I 0 O 136 L 3.42 3.54 3.40 @#@FSLOADPOST 2023:08:14:16:27:41 mri_label2label N 12 3.30 3.51 3.39 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG4.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.FG4.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG4.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.FG4.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2101 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2101 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 269 Checking for and removing duplicates Writing label file ./lh.FG4.mpm.vpnl.label 2370 mri_label2label: Done @#@FSTIME 2023:08:14:16:27:41 mri_label2label N 12 e 4.87 S 0.23 U 4.63 P 99% M 537272 F 0 R 157538 W 0 c 31 w 1 I 0 O 192 L 3.30 3.51 3.39 @#@FSLOADPOST 2023:08:14:16:27:46 mri_label2label N 12 3.28 3.50 3.39 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc1.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.hOc1.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc1.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.hOc1.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3877 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3877 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 418 Checking for and removing duplicates Writing label file ./lh.hOc1.mpm.vpnl.label 4295 mri_label2label: Done @#@FSTIME 2023:08:14:16:27:46 mri_label2label N 12 e 5.25 S 0.25 U 5.00 P 100% M 537308 F 0 R 157571 W 0 c 16 w 1 I 0 O 320 L 3.28 3.50 3.39 @#@FSLOADPOST 2023:08:14:16:27:51 mri_label2label N 12 3.25 3.49 3.39 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc2.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.hOc2.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc2.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.hOc2.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2919 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2919 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 462 Checking for and removing duplicates Writing label file ./lh.hOc2.mpm.vpnl.label 3381 mri_label2label: Done @#@FSTIME 2023:08:14:16:27:51 mri_label2label N 12 e 4.99 S 0.26 U 4.72 P 100% M 537224 F 0 R 157550 W 0 c 21 w 1 I 0 O 264 L 3.25 3.49 3.39 @#@FSLOADPOST 2023:08:14:16:27:56 mri_label2label N 12 3.31 3.50 3.39 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc3v.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.hOc3v.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc3v.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.hOc3v.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1286 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1286 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 241 Checking for and removing duplicates Writing label file ./lh.hOc3v.mpm.vpnl.label 1527 mri_label2label: Done @#@FSTIME 2023:08:14:16:27:56 mri_label2label N 12 e 4.61 S 0.26 U 4.34 P 99% M 537012 F 0 R 154263 W 0 c 14 w 1 I 0 O 128 L 3.31 3.50 3.39 @#@FSLOADPOST 2023:08:14:16:28:01 mri_label2label N 12 3.37 3.51 3.39 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc4v.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.hOc4v.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc4v.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.hOc4v.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1006 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1006 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 148 Checking for and removing duplicates Writing label file ./lh.hOc4v.mpm.vpnl.label 1154 mri_label2label: Done @#@FSTIME 2023:08:14:16:28:01 mri_label2label N 12 e 4.61 S 0.21 U 4.39 P 99% M 537076 F 0 R 154259 W 0 c 25 w 1 I 0 O 96 L 3.37 3.51 3.39 @#@FSLOADPOST 2023:08:14:16:28:06 mri_label2label N 12 3.42 3.52 3.40 mris_label2annot --s sub-073_ses-BSL --ctab /home/rosalia/software/freesurfer/average/colortable_vpnl.txt --hemi lh --a mpm.vpnl --maxstatwinner --noverbose --l lh.FG1.mpm.vpnl.label --l lh.FG2.mpm.vpnl.label --l lh.FG3.mpm.vpnl.label --l lh.FG4.mpm.vpnl.label --l lh.hOc1.mpm.vpnl.label --l lh.hOc2.mpm.vpnl.label --l lh.hOc3v.mpm.vpnl.label --l lh.hOc4v.mpm.vpnl.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ctab /home/rosalia/software/freesurfer/average/colortable_vpnl.txt Number of ctab entries 9 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label cmdline mris_label2annot --s sub-073_ses-BSL --ctab /home/rosalia/software/freesurfer/average/colortable_vpnl.txt --hemi lh --a mpm.vpnl --maxstatwinner --noverbose --l lh.FG1.mpm.vpnl.label --l lh.FG2.mpm.vpnl.label --l lh.FG3.mpm.vpnl.label --l lh.FG4.mpm.vpnl.label --l lh.hOc1.mpm.vpnl.label --l lh.hOc2.mpm.vpnl.label --l lh.hOc3v.mpm.vpnl.label --l lh.hOc4v.mpm.vpnl.label sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia subject sub-073_ses-BSL hemi lh SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI ColorTable /home/rosalia/software/freesurfer/average/colortable_vpnl.txt AnnotName mpm.vpnl nlables 8 LabelThresh 0 0.000000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig 1 1376057 FG1 2 16711935 FG2 3 16711680 FG3 4 1705837 FG4 5 25600 hOc1 6 255 hOc2 7 16776960 hOc3v 8 65535 hOc4v Mapping unhit to unknown Found 113459 unhit vertices Writing annot to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.mpm.vpnl.annot @#@FSTIME 2023:08:14:16:28:06 mris_label2annot N 26 e 0.69 S 0.05 U 0.63 P 99% M 147764 F 0 R 40404 W 0 c 7 w 1 I 0 O 1992 L 3.42 3.52 3.40 @#@FSLOADPOST 2023:08:14:16:28:06 mris_label2annot N 26 3.42 3.52 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA1_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA1_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA1_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1014 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1014 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 66 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.thresh.label 1080 mri_label2label: Done @#@FSTIME 2023:08:14:16:28:06 mri_label2label N 12 e 4.63 S 0.30 U 4.32 P 99% M 537104 F 0 R 157513 W 0 c 16 w 1 I 0 O 80 L 3.42 3.52 3.40 @#@FSLOADPOST 2023:08:14:16:28:11 mri_label2label N 12 3.47 3.53 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA2_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA2_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA2_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2092 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2092 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 269 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.thresh.label 2361 mri_label2label: Done @#@FSTIME 2023:08:14:16:28:11 mri_label2label N 12 e 4.79 S 0.27 U 4.51 P 99% M 537248 F 0 R 157537 W 0 c 14 w 1 I 0 O 176 L 3.47 3.53 3.40 @#@FSLOADPOST 2023:08:14:16:28:16 mri_label2label N 12 3.51 3.54 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3a_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA3a_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA3a_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1504 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1504 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 4 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.thresh.label 1508 mri_label2label: Done @#@FSTIME 2023:08:14:16:28:16 mri_label2label N 12 e 4.78 S 0.28 U 4.49 P 99% M 537268 F 0 R 157528 W 0 c 19 w 1 I 0 O 80 L 3.51 3.54 3.40 @#@FSLOADPOST 2023:08:14:16:28:21 mri_label2label N 12 3.63 3.56 3.41 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3b_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA3b_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA3b_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1996 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1996 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 33 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.thresh.label 2029 mri_label2label: Done @#@FSTIME 2023:08:14:16:28:21 mri_label2label N 12 e 4.75 S 0.23 U 4.51 P 99% M 537040 F 0 R 154276 W 0 c 28 w 1 I 0 O 128 L 3.63 3.56 3.41 @#@FSLOADPOST 2023:08:14:16:28:25 mri_label2label N 12 3.50 3.53 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4a_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA4a_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2319 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2319 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 66 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.thresh.label 2385 mri_label2label: Done @#@FSTIME 2023:08:14:16:28:25 mri_label2label N 12 e 4.93 S 0.31 U 4.61 P 99% M 537228 F 0 R 157539 W 0 c 21 w 1 I 0 O 152 L 3.50 3.53 3.40 @#@FSLOADPOST 2023:08:14:16:28:30 mri_label2label N 12 3.46 3.52 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4p_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA4p_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA4p_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1549 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1549 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 21 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.thresh.label 1570 mri_label2label: Done @#@FSTIME 2023:08:14:16:28:30 mri_label2label N 12 e 4.73 S 0.23 U 4.49 P 99% M 536972 F 0 R 154265 W 0 c 21 w 1 I 0 O 104 L 3.46 3.52 3.40 @#@FSLOADPOST 2023:08:14:16:28:35 mri_label2label N 12 3.42 3.52 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA6_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA6_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA6_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 7035 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 7035 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 239 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.thresh.label 7274 mri_label2label: Done @#@FSTIME 2023:08:14:16:28:35 mri_label2label N 12 e 5.93 S 0.25 U 5.67 P 99% M 537440 F 0 R 157622 W 0 c 21 w 1 I 0 O 440 L 3.42 3.52 3.40 @#@FSLOADPOST 2023:08:14:16:28:41 mri_label2label N 12 3.31 3.49 3.39 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA44_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA44_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA44_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1912 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1912 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 38 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.thresh.label 1950 mri_label2label: Done @#@FSTIME 2023:08:14:16:28:41 mri_label2label N 12 e 4.73 S 0.25 U 4.47 P 99% M 537116 F 0 R 154271 W 0 c 20 w 1 I 0 O 120 L 3.31 3.49 3.39 @#@FSLOADPOST 2023:08:14:16:28:46 mri_label2label N 12 3.36 3.50 3.39 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA45_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA45_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1151 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1151 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 235 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.thresh.label 1386 mri_label2label: Done @#@FSTIME 2023:08:14:16:28:46 mri_label2label N 12 e 4.67 S 0.28 U 4.38 P 99% M 537148 F 0 R 157525 W 0 c 20 w 1 I 0 O 104 L 3.36 3.50 3.39 @#@FSLOADPOST 2023:08:14:16:28:50 mri_label2label N 12 3.33 3.49 3.39 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V1_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.V1_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.V1_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3405 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3405 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 352 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.thresh.label 3757 mri_label2label: Done @#@FSTIME 2023:08:14:16:28:51 mri_label2label N 12 e 5.02 S 0.24 U 4.77 P 100% M 537080 F 0 R 154299 W 0 c 16 w 1 I 0 O 280 L 3.33 3.49 3.39 @#@FSLOADPOST 2023:08:14:16:28:56 mri_label2label N 12 3.31 3.48 3.39 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V2_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.V2_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.V2_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3334 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3334 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 504 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.thresh.label 3838 mri_label2label: Done @#@FSTIME 2023:08:14:16:28:56 mri_label2label N 12 e 5.17 S 0.25 U 4.92 P 100% M 537348 F 0 R 157559 W 0 c 18 w 1 I 0 O 296 L 3.31 3.48 3.39 @#@FSLOADPOST 2023:08:14:16:29:01 mri_label2label N 12 3.52 3.52 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.MT_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.MT_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.MT_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 513 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 513 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 12 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.thresh.label 525 mri_label2label: Done @#@FSTIME 2023:08:14:16:29:01 mri_label2label N 12 e 4.49 S 0.27 U 4.22 P 100% M 537016 F 0 R 154252 W 0 c 24 w 1 I 0 O 40 L 3.52 3.52 3.40 @#@FSLOADPOST 2023:08:14:16:29:05 mri_label2label N 12 3.48 3.52 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.entorhinal_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.entorhinal_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.entorhinal_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 470 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 470 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 10 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.thresh.label 480 mri_label2label: Done @#@FSTIME 2023:08:14:16:29:05 mri_label2label N 12 e 4.55 S 0.26 U 4.28 P 99% M 536968 F 0 R 154242 W 0 c 18 w 1 I 0 O 32 L 3.48 3.52 3.40 @#@FSLOADPOST 2023:08:14:16:29:10 mri_label2label N 12 3.44 3.51 3.40 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.perirhinal_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.perirhinal_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 450 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 450 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 18 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.thresh.label 468 mri_label2label: Done @#@FSTIME 2023:08:14:16:29:10 mri_label2label N 12 e 4.54 S 0.24 U 4.29 P 99% M 537064 F 0 R 154245 W 0 c 18 w 1 I 0 O 32 L 3.44 3.51 3.40 @#@FSLOADPOST 2023:08:14:16:29:14 mri_label2label N 12 3.41 3.50 3.40 mris_label2annot --s sub-073_ses-BSL --hemi lh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.perirhinal_exvivo.label --l lh.entorhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt Number of ctab entries 15 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label cmdline mris_label2annot --s sub-073_ses-BSL --hemi lh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.perirhinal_exvivo.label --l lh.entorhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia subject sub-073_ses-BSL hemi lh SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI ColorTable /home/rosalia/software/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 88529 unhit vertices Writing annot to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.BA_exvivo.annot @#@FSTIME 2023:08:14:16:29:14 mris_label2annot N 38 e 0.72 S 0.07 U 0.65 P 100% M 148412 F 0 R 40506 W 0 c 5 w 1 I 0 O 1992 L 3.41 3.50 3.40 @#@FSLOADPOST 2023:08:14:16:29:15 mris_label2annot N 38 3.41 3.50 3.40 mris_label2annot --s sub-073_ses-BSL --hemi lh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt Number of ctab entries 15 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label cmdline mris_label2annot --s sub-073_ses-BSL --hemi lh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia subject sub-073_ses-BSL hemi lh SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI ColorTable /home/rosalia/software/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 104289 unhit vertices Writing annot to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.BA_exvivo.thresh.annot @#@FSTIME 2023:08:14:16:29:15 mris_label2annot N 38 e 0.77 S 0.09 U 0.68 P 99% M 148016 F 0 R 40433 W 0 c 4 w 1 I 0 O 1992 L 3.41 3.50 3.40 @#@FSLOADPOST 2023:08:14:16:29:16 mris_label2annot N 38 3.41 3.50 3.40 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.stats -b -a ./lh.BA_exvivo.annot -c ./BA_exvivo.ctab sub-073_ses-BSL lh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ./lh.BA_exvivo.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 169078 Total vertex volume 168888 (mask=0) Saving annotation colortable ./BA_exvivo.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1220 701 1253 1.582 0.475 0.119 0.034 16 1.3 BA1_exvivo 4362 2914 5287 1.905 0.440 0.110 0.024 42 4.4 BA2_exvivo 1000 714 921 1.631 0.306 0.114 0.021 6 0.9 BA3a_exvivo 2395 1560 2380 1.484 0.456 0.093 0.020 18 1.8 BA3b_exvivo 1727 1026 2534 2.264 0.591 0.106 0.028 14 2.0 BA4a_exvivo 1356 842 1558 1.978 0.523 0.086 0.021 7 1.2 BA4p_exvivo 8999 6162 14011 2.182 0.529 0.116 0.027 89 10.1 BA6_exvivo 2096 1521 3286 2.195 0.404 0.118 0.026 20 2.1 BA44_exvivo 2979 2233 3949 1.847 0.462 0.123 0.028 33 3.4 BA45_exvivo 2995 1968 3062 1.693 0.460 0.121 0.033 31 3.8 V1_exvivo 6638 4316 7684 1.805 0.504 0.125 0.030 77 7.8 V2_exvivo 1563 961 2155 2.228 0.501 0.112 0.027 17 1.5 MT_exvivo 640 470 1284 2.455 0.529 0.128 0.036 7 0.9 perirhinal_exvivo 562 375 986 2.291 0.621 0.091 0.023 3 0.4 entorhinal_exvivo @#@FSTIME 2023:08:14:16:29:16 mris_anatomical_stats N 12 e 4.59 S 0.23 U 4.35 P 99% M 447476 F 0 R 129138 W 0 c 27 w 1 I 0 O 32 L 3.41 3.50 3.40 @#@FSLOADPOST 2023:08:14:16:29:21 mris_anatomical_stats N 12 3.29 3.47 3.39 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab sub-073_ses-BSL lh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 169078 Total vertex volume 168888 (mask=0) Saving annotation colortable ./BA_exvivo.thresh.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 839 449 786 1.528 0.460 0.116 0.036 12 0.9 BA1_exvivo 1949 1244 2482 1.919 0.497 0.096 0.022 19 1.8 BA2_exvivo 836 606 751 1.621 0.276 0.122 0.024 5 0.8 BA3a_exvivo 1442 931 1175 1.276 0.199 0.071 0.013 7 0.7 BA3b_exvivo 1652 980 2324 2.181 0.587 0.099 0.027 11 1.9 BA4a_exvivo 1100 692 1276 2.012 0.540 0.082 0.016 4 0.8 BA4p_exvivo 4966 3428 7443 2.099 0.555 0.121 0.030 54 6.3 BA6_exvivo 1313 996 2190 2.154 0.389 0.134 0.031 17 1.6 BA44_exvivo 1184 926 1592 1.776 0.436 0.134 0.030 15 1.5 BA45_exvivo 3152 2073 3274 1.693 0.472 0.120 0.033 32 4.0 V1_exvivo 3331 2175 3466 1.656 0.459 0.136 0.033 44 4.4 V2_exvivo 375 255 539 2.317 0.354 0.122 0.022 3 0.4 MT_exvivo 283 204 504 2.238 0.458 0.133 0.040 3 0.5 perirhinal_exvivo 350 250 608 2.371 0.471 0.082 0.014 1 0.2 entorhinal_exvivo @#@FSTIME 2023:08:14:16:29:21 mris_anatomical_stats N 12 e 4.55 S 0.22 U 4.32 P 99% M 447456 F 0 R 129137 W 0 c 21 w 1 I 0 O 24 L 3.29 3.47 3.39 @#@FSLOADPOST 2023:08:14:16:29:25 mris_anatomical_stats N 12 3.19 3.45 3.38 #-------------------------------------------- #@# BA_exvivo Labels rh Mon 14 Aug 16:29:25 CEST 2023 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA1_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA1_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA1_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA1_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3962 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3962 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 65 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.label 4027 mri_label2label: Done @#@FSTIME 2023:08:14:16:29:25 mri_label2label N 12 e 4.97 S 0.28 U 4.69 P 99% M 528300 F 0 R 154977 W 0 c 15 w 1 I 0 O 240 L 3.19 3.45 3.38 @#@FSLOADPOST 2023:08:14:16:29:30 mri_label2label N 12 3.09 3.42 3.37 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA2_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA2_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA2_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA2_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 6687 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 6687 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 76 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.label 6763 mri_label2label: Done @#@FSTIME 2023:08:14:16:29:30 mri_label2label N 12 e 5.64 S 0.26 U 5.38 P 99% M 528340 F 0 R 155025 W 0 c 20 w 1 I 0 O 376 L 3.09 3.42 3.37 @#@FSLOADPOST 2023:08:14:16:29:36 mri_label2label N 12 3.01 3.40 3.37 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3a_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA3a_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA3a_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3980 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3980 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 18 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.label 3998 mri_label2label: Done @#@FSTIME 2023:08:14:16:29:36 mri_label2label N 12 e 5.11 S 0.22 U 4.88 P 99% M 528244 F 0 R 154976 W 0 c 27 w 1 I 0 O 208 L 3.01 3.40 3.37 @#@FSLOADPOST 2023:08:14:16:29:41 mri_label2label N 12 3.09 3.41 3.37 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3b_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA3b_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA3b_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4522 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4522 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 53 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.label 4575 mri_label2label: Done @#@FSTIME 2023:08:14:16:29:41 mri_label2label N 12 e 5.22 S 0.28 U 4.93 P 99% M 528180 F 0 R 154985 W 0 c 22 w 1 I 0 O 256 L 3.09 3.41 3.37 @#@FSLOADPOST 2023:08:14:16:29:46 mri_label2label N 12 3.16 3.42 3.37 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4a_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA4a_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 5747 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5747 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 139 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.label 5886 mri_label2label: Done @#@FSTIME 2023:08:14:16:29:46 mri_label2label N 12 e 5.31 S 0.27 U 5.03 P 99% M 528380 F 0 R 155012 W 0 c 13 w 1 I 0 O 352 L 3.16 3.42 3.37 @#@FSLOADPOST 2023:08:14:16:29:52 mri_label2label N 12 3.23 3.43 3.38 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4p_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA4p_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA4p_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4473 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4473 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 44 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.label 4517 mri_label2label: Done @#@FSTIME 2023:08:14:16:29:52 mri_label2label N 12 e 5.21 S 0.22 U 4.99 P 99% M 528264 F 0 R 154986 W 0 c 14 w 1 I 0 O 248 L 3.23 3.43 3.38 @#@FSLOADPOST 2023:08:14:16:29:57 mri_label2label N 12 3.13 3.41 3.37 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA6_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA6_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA6_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA6_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 12256 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 12256 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 439 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.label 12695 mri_label2label: Done @#@FSTIME 2023:08:14:16:29:57 mri_label2label N 12 e 6.59 S 0.28 U 6.30 P 99% M 528808 F 0 R 155125 W 0 c 25 w 1 I 0 O 736 L 3.13 3.41 3.37 @#@FSLOADPOST 2023:08:14:16:30:03 mri_label2label N 12 3.04 3.38 3.36 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA44_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA44_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA44_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA44_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 6912 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 6912 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 367 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.label 7279 mri_label2label: Done @#@FSTIME 2023:08:14:16:30:03 mri_label2label N 12 e 5.66 S 0.28 U 5.37 P 99% M 528388 F 0 R 155034 W 0 c 31 w 1 I 0 O 424 L 3.04 3.38 3.36 @#@FSLOADPOST 2023:08:14:16:30:09 mri_label2label N 12 3.03 3.37 3.36 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA45_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA45_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA45_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 5355 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5355 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 405 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.label 5760 mri_label2label: Done @#@FSTIME 2023:08:14:16:30:09 mri_label2label N 12 e 5.25 S 0.23 U 5.01 P 99% M 528276 F 0 R 155007 W 0 c 26 w 1 I 0 O 376 L 3.03 3.37 3.36 @#@FSLOADPOST 2023:08:14:16:30:14 mri_label2label N 12 2.94 3.35 3.35 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V1_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.V1_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V1_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.V1_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4727 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4727 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 459 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.label 5186 mri_label2label: Done @#@FSTIME 2023:08:14:16:30:14 mri_label2label N 12 e 5.12 S 0.25 U 4.86 P 99% M 528340 F 0 R 154995 W 0 c 24 w 1 I 0 O 376 L 2.94 3.35 3.35 @#@FSLOADPOST 2023:08:14:16:30:20 mri_label2label N 12 2.87 3.32 3.34 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V2_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.V2_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V2_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.V2_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 8016 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 8016 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 1035 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.label 9051 mri_label2label: Done @#@FSTIME 2023:08:14:16:30:20 mri_label2label N 12 e 5.68 S 0.22 U 5.46 P 100% M 528620 F 0 R 155056 W 0 c 26 w 1 I 0 O 664 L 2.87 3.32 3.34 @#@FSLOADPOST 2023:08:14:16:30:25 mri_label2label N 12 2.80 3.30 3.33 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.MT_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.MT_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.MT_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.MT_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1932 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1932 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 228 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.label 2160 mri_label2label: Done @#@FSTIME 2023:08:14:16:30:25 mri_label2label N 12 e 4.62 S 0.27 U 4.34 P 99% M 528100 F 0 R 154947 W 0 c 18 w 1 I 0 O 168 L 2.80 3.30 3.33 @#@FSLOADPOST 2023:08:14:16:30:30 mri_label2label N 12 2.73 3.28 3.33 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.entorhinal_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.entorhinal_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.entorhinal_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1038 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1038 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 55 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.label 1093 mri_label2label: Done @#@FSTIME 2023:08:14:16:30:30 mri_label2label N 12 e 4.59 S 0.27 U 4.32 P 99% M 528104 F 0 R 151775 W 0 c 28 w 1 I 0 O 80 L 2.73 3.28 3.33 @#@FSLOADPOST 2023:08:14:16:30:35 mri_label2label N 12 2.67 3.26 3.32 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.perirhinal_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.perirhinal_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 752 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 752 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 50 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.label 802 mri_label2label: Done @#@FSTIME 2023:08:14:16:30:35 mri_label2label N 12 e 4.48 S 0.24 U 4.24 P 99% M 528040 F 0 R 151774 W 0 c 14 w 1 I 0 O 56 L 2.67 3.26 3.32 @#@FSLOADPOST 2023:08:14:16:30:39 mri_label2label N 12 2.62 3.24 3.31 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG1.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.FG1.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG1.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.FG1.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 541 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 541 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 96 Checking for and removing duplicates Writing label file ./rh.FG1.mpm.vpnl.label 637 mri_label2label: Done @#@FSTIME 2023:08:14:16:30:39 mri_label2label N 12 e 4.46 S 0.25 U 4.20 P 99% M 528028 F 0 R 151762 W 0 c 14 w 1 I 0 O 56 L 2.62 3.24 3.31 @#@FSLOADPOST 2023:08:14:16:30:44 mri_label2label N 12 2.62 3.24 3.31 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG2.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.FG2.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG2.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.FG2.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 721 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 721 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 99 Checking for and removing duplicates Writing label file ./rh.FG2.mpm.vpnl.label 820 mri_label2label: Done @#@FSTIME 2023:08:14:16:30:44 mri_label2label N 12 e 4.45 S 0.28 U 4.17 P 99% M 528060 F 0 R 154922 W 0 c 41 w 1 I 0 O 64 L 2.62 3.24 3.31 @#@FSLOADPOST 2023:08:14:16:30:48 mri_label2label N 12 2.57 3.22 3.30 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG3.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.FG3.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG3.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.FG3.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1523 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1523 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 76 Checking for and removing duplicates Writing label file ./rh.FG3.mpm.vpnl.label 1599 mri_label2label: Done @#@FSTIME 2023:08:14:16:30:48 mri_label2label N 12 e 4.53 S 0.25 U 4.27 P 99% M 528156 F 0 R 151788 W 0 c 14 w 1 I 0 O 112 L 2.57 3.22 3.30 @#@FSLOADPOST 2023:08:14:16:30:53 mri_label2label N 12 2.60 3.21 3.30 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG4.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.FG4.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG4.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.FG4.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1586 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1586 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 146 Checking for and removing duplicates Writing label file ./rh.FG4.mpm.vpnl.label 1732 mri_label2label: Done @#@FSTIME 2023:08:14:16:30:53 mri_label2label N 12 e 4.59 S 0.28 U 4.30 P 100% M 528088 F 0 R 154937 W 0 c 21 w 1 I 0 O 128 L 2.60 3.21 3.30 @#@FSLOADPOST 2023:08:14:16:30:57 mri_label2label N 12 2.64 3.21 3.30 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc1.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.hOc1.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc1.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.hOc1.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3667 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3667 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 344 Checking for and removing duplicates Writing label file ./rh.hOc1.mpm.vpnl.label 4011 mri_label2label: Done @#@FSTIME 2023:08:14:16:30:57 mri_label2label N 12 e 4.94 S 0.25 U 4.68 P 99% M 528240 F 0 R 154972 W 0 c 33 w 1 I 0 O 288 L 2.64 3.21 3.30 @#@FSLOADPOST 2023:08:14:16:31:02 mri_label2label N 12 2.67 3.20 3.30 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc2.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.hOc2.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc2.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.hOc2.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2719 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2719 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 349 Checking for and removing duplicates Writing label file ./rh.hOc2.mpm.vpnl.label 3068 mri_label2label: Done @#@FSTIME 2023:08:14:16:31:02 mri_label2label N 12 e 4.76 S 0.25 U 4.51 P 99% M 528172 F 0 R 151807 W 0 c 18 w 1 I 0 O 232 L 2.67 3.20 3.30 @#@FSLOADPOST 2023:08:14:16:31:07 mri_label2label N 12 2.69 3.20 3.30 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc3v.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.hOc3v.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc3v.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.hOc3v.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1228 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1228 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 233 Checking for and removing duplicates Writing label file ./rh.hOc3v.mpm.vpnl.label 1461 mri_label2label: Done @#@FSTIME 2023:08:14:16:31:07 mri_label2label N 12 e 4.59 S 0.30 U 4.28 P 99% M 528128 F 0 R 151778 W 0 c 17 w 1 I 0 O 120 L 2.69 3.20 3.30 @#@FSLOADPOST 2023:08:14:16:31:12 mri_label2label N 12 2.88 3.23 3.31 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc4v.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.hOc4v.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc4v.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.hOc4v.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1025 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1025 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 196 Checking for and removing duplicates Writing label file ./rh.hOc4v.mpm.vpnl.label 1221 mri_label2label: Done @#@FSTIME 2023:08:14:16:31:12 mri_label2label N 12 e 4.48 S 0.27 U 4.21 P 100% M 528156 F 0 R 151777 W 0 c 27 w 1 I 0 O 104 L 2.88 3.23 3.31 @#@FSLOADPOST 2023:08:14:16:31:16 mri_label2label N 12 2.81 3.21 3.30 mris_label2annot --s sub-073_ses-BSL --ctab /home/rosalia/software/freesurfer/average/colortable_vpnl.txt --hemi rh --a mpm.vpnl --maxstatwinner --noverbose --l rh.FG1.mpm.vpnl.label --l rh.FG2.mpm.vpnl.label --l rh.FG3.mpm.vpnl.label --l rh.FG4.mpm.vpnl.label --l rh.hOc1.mpm.vpnl.label --l rh.hOc2.mpm.vpnl.label --l rh.hOc3v.mpm.vpnl.label --l rh.hOc4v.mpm.vpnl.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ctab /home/rosalia/software/freesurfer/average/colortable_vpnl.txt Number of ctab entries 9 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label cmdline mris_label2annot --s sub-073_ses-BSL --ctab /home/rosalia/software/freesurfer/average/colortable_vpnl.txt --hemi rh --a mpm.vpnl --maxstatwinner --noverbose --l rh.FG1.mpm.vpnl.label --l rh.FG2.mpm.vpnl.label --l rh.FG3.mpm.vpnl.label --l rh.FG4.mpm.vpnl.label --l rh.hOc1.mpm.vpnl.label --l rh.hOc2.mpm.vpnl.label --l rh.hOc3v.mpm.vpnl.label --l rh.hOc4v.mpm.vpnl.label sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia subject sub-073_ses-BSL hemi rh SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI ColorTable /home/rosalia/software/freesurfer/average/colortable_vpnl.txt AnnotName mpm.vpnl nlables 8 LabelThresh 0 0.000000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig 1 1376057 FG1 2 16711935 FG2 3 16711680 FG3 4 1705837 FG4 5 25600 hOc1 6 255 hOc2 7 16776960 hOc3v 8 65535 hOc4v Mapping unhit to unknown Found 110733 unhit vertices Writing annot to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.mpm.vpnl.annot @#@FSTIME 2023:08:14:16:31:16 mris_label2annot N 26 e 0.66 S 0.07 U 0.59 P 100% M 143148 F 0 R 39080 W 0 c 6 w 1 I 0 O 1928 L 2.81 3.21 3.30 @#@FSLOADPOST 2023:08:14:16:31:17 mris_label2annot N 26 2.81 3.21 3.30 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA1_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA1_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA1_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 876 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 876 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 15 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.thresh.label 891 mri_label2label: Done @#@FSTIME 2023:08:14:16:31:17 mri_label2label N 12 e 4.42 S 0.29 U 4.13 P 99% M 528176 F 0 R 154926 W 0 c 17 w 1 I 0 O 64 L 2.81 3.21 3.30 @#@FSLOADPOST 2023:08:14:16:31:21 mri_label2label N 12 2.82 3.21 3.30 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA2_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA2_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA2_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2688 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2688 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 20 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.thresh.label 2708 mri_label2label: Done @#@FSTIME 2023:08:14:16:31:21 mri_label2label N 12 e 4.88 S 0.29 U 4.58 P 100% M 528124 F 0 R 151804 W 0 c 15 w 1 I 0 O 144 L 2.82 3.21 3.30 @#@FSLOADPOST 2023:08:14:16:31:26 mri_label2label N 12 2.92 3.22 3.30 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3a_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA3a_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA3a_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1698 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1698 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 6 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.thresh.label 1704 mri_label2label: Done @#@FSTIME 2023:08:14:16:31:26 mri_label2label N 12 e 4.57 S 0.28 U 4.28 P 99% M 528148 F 0 R 151781 W 0 c 22 w 1 I 0 O 88 L 2.92 3.22 3.30 @#@FSLOADPOST 2023:08:14:16:31:31 mri_label2label N 12 3.00 3.23 3.30 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3b_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA3b_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA3b_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2183 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2183 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 27 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.thresh.label 2210 mri_label2label: Done @#@FSTIME 2023:08:14:16:31:31 mri_label2label N 12 e 4.70 S 0.24 U 4.45 P 100% M 528104 F 0 R 151798 W 0 c 20 w 1 I 0 O 128 L 3.00 3.23 3.30 @#@FSLOADPOST 2023:08:14:16:31:35 mri_label2label N 12 3.08 3.25 3.31 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4a_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA4a_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1388 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1388 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 22 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.thresh.label 1410 mri_label2label: Done @#@FSTIME 2023:08:14:16:31:35 mri_label2label N 12 e 4.60 S 0.25 U 4.33 P 99% M 528112 F 0 R 151780 W 0 c 15 w 1 I 0 O 88 L 3.08 3.25 3.31 @#@FSLOADPOST 2023:08:14:16:31:40 mri_label2label N 12 3.00 3.23 3.30 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4p_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA4p_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA4p_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1489 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1489 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 8 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.thresh.label 1497 mri_label2label: Done @#@FSTIME 2023:08:14:16:31:40 mri_label2label N 12 e 4.70 S 0.30 U 4.40 P 99% M 528100 F 0 R 151780 W 0 c 17 w 1 I 0 O 88 L 3.00 3.23 3.30 @#@FSLOADPOST 2023:08:14:16:31:45 mri_label2label N 12 2.92 3.20 3.29 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA6_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA6_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA6_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 6959 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 6959 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 298 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.thresh.label 7257 mri_label2label: Done @#@FSTIME 2023:08:14:16:31:45 mri_label2label N 12 e 5.98 S 0.25 U 5.71 P 99% M 528464 F 0 R 151878 W 0 c 37 w 1 I 0 O 432 L 2.92 3.20 3.29 @#@FSLOADPOST 2023:08:14:16:31:51 mri_label2label N 12 2.84 3.18 3.29 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA44_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA44_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA44_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1012 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1012 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 57 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.thresh.label 1069 mri_label2label: Done @#@FSTIME 2023:08:14:16:31:51 mri_label2label N 12 e 4.78 S 0.29 U 4.49 P 99% M 528116 F 0 R 154929 W 0 c 21 w 1 I 0 O 72 L 2.84 3.18 3.29 @#@FSLOADPOST 2023:08:14:16:31:56 mri_label2label N 12 2.94 3.20 3.29 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA45_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA45_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1178 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1178 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 48 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.thresh.label 1226 mri_label2label: Done @#@FSTIME 2023:08:14:16:31:56 mri_label2label N 12 e 5.01 S 0.29 U 4.71 P 99% M 528236 F 0 R 154935 W 0 c 23 w 1 I 0 O 80 L 2.94 3.20 3.29 @#@FSLOADPOST 2023:08:14:16:32:01 mri_label2label N 12 2.86 3.18 3.28 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V1_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.V1_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.V1_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3232 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3232 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 272 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.thresh.label 3504 mri_label2label: Done @#@FSTIME 2023:08:14:16:32:01 mri_label2label N 12 e 5.02 S 0.24 U 4.78 P 99% M 528144 F 0 R 151814 W 0 c 20 w 1 I 0 O 256 L 2.86 3.18 3.28 @#@FSLOADPOST 2023:08:14:16:32:06 mri_label2label N 12 2.87 3.18 3.28 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V2_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.V2_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.V2_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3437 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3437 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 516 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.thresh.label 3953 mri_label2label: Done @#@FSTIME 2023:08:14:16:32:06 mri_label2label N 12 e 5.34 S 0.27 U 5.07 P 99% M 528192 F 0 R 151824 W 0 c 47 w 0 I 0 O 304 L 2.87 3.18 3.28 @#@FSLOADPOST 2023:08:14:16:32:11 mri_label2label N 12 2.88 3.17 3.28 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.MT_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.MT_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.MT_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 268 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 268 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 14 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.thresh.label 282 mri_label2label: Done @#@FSTIME 2023:08:14:16:32:11 mri_label2label N 12 e 4.51 S 0.27 U 4.23 P 99% M 527812 F 0 R 154908 W 0 c 35 w 1 I 0 O 24 L 2.88 3.17 3.28 @#@FSLOADPOST 2023:08:14:16:32:16 mri_label2label N 12 2.81 3.15 3.27 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.entorhinal_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.entorhinal_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.entorhinal_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 694 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 694 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 20 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.thresh.label 714 mri_label2label: Done @#@FSTIME 2023:08:14:16:32:16 mri_label2label N 12 e 4.73 S 0.28 U 4.45 P 99% M 528052 F 0 R 154921 W 0 c 19 w 1 I 0 O 48 L 2.81 3.15 3.27 @#@FSLOADPOST 2023:08:14:16:32:20 mri_label2label N 12 2.99 3.18 3.28 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.perirhinal_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.perirhinal_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 291 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 291 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 11 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.thresh.label 302 mri_label2label: Done @#@FSTIME 2023:08:14:16:32:20 mri_label2label N 12 e 4.46 S 0.30 U 4.15 P 99% M 528056 F 0 R 151758 W 0 c 19 w 1 I 0 O 24 L 2.99 3.18 3.28 @#@FSLOADPOST 2023:08:14:16:32:25 mri_label2label N 12 2.99 3.18 3.28 mris_label2annot --s sub-073_ses-BSL --hemi rh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.perirhinal_exvivo.label --l rh.entorhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt Number of ctab entries 15 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label cmdline mris_label2annot --s sub-073_ses-BSL --hemi rh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.perirhinal_exvivo.label --l rh.entorhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia subject sub-073_ses-BSL hemi rh SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI ColorTable /home/rosalia/software/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 87095 unhit vertices Writing annot to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.BA_exvivo.annot @#@FSTIME 2023:08:14:16:32:25 mris_label2annot N 38 e 0.78 S 0.06 U 0.71 P 99% M 143772 F 0 R 39079 W 0 c 4 w 1 I 0 O 1928 L 2.99 3.18 3.28 @#@FSLOADPOST 2023:08:14:16:32:26 mris_label2annot N 38 2.99 3.18 3.28 mris_label2annot --s sub-073_ses-BSL --hemi rh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.perirhinal_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt Number of ctab entries 15 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label cmdline mris_label2annot --s sub-073_ses-BSL --hemi rh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.perirhinal_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia subject sub-073_ses-BSL hemi rh SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI ColorTable /home/rosalia/software/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 102648 unhit vertices Writing annot to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.BA_exvivo.thresh.annot @#@FSTIME 2023:08:14:16:32:26 mris_label2annot N 38 e 0.83 S 0.08 U 0.74 P 99% M 143408 F 0 R 39118 W 0 c 6 w 1 I 0 O 1928 L 2.99 3.18 3.28 @#@FSLOADPOST 2023:08:14:16:32:27 mris_label2annot N 38 2.99 3.18 3.28 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.stats -b -a ./rh.BA_exvivo.annot -c ./BA_exvivo.ctab sub-073_ses-BSL rh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ./rh.BA_exvivo.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 158570 Total vertex volume 158387 (mask=0) Saving annotation colortable ./BA_exvivo.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 882 491 873 1.523 0.468 0.128 0.031 14 1.1 BA1_exvivo 2969 1961 3172 1.724 0.378 0.084 0.016 16 1.9 BA2_exvivo 975 700 847 1.566 0.339 0.131 0.024 7 1.0 BA3a_exvivo 1843 1157 1563 1.324 0.343 0.087 0.020 17 1.4 BA3b_exvivo 1531 903 2199 2.163 0.436 0.088 0.018 10 1.1 BA4a_exvivo 1196 765 1442 1.970 0.549 0.076 0.015 5 0.7 BA4p_exvivo 7516 5303 10763 2.008 0.533 0.128 0.033 82 10.5 BA6_exvivo 3115 2269 4776 2.153 0.525 0.134 0.036 42 5.0 BA44_exvivo 3622 2759 5172 1.901 0.444 0.125 0.032 40 4.7 BA45_exvivo 2970 2031 3018 1.602 0.468 0.122 0.034 33 3.8 V1_exvivo 6466 4409 7280 1.702 0.462 0.131 0.031 76 8.0 V2_exvivo 1825 1299 2575 2.068 0.437 0.132 0.031 23 2.2 MT_exvivo 389 294 867 2.353 0.533 0.143 0.044 7 0.5 perirhinal_exvivo 569 417 1030 2.233 0.555 0.105 0.025 4 0.5 entorhinal_exvivo @#@FSTIME 2023:08:14:16:32:27 mris_anatomical_stats N 12 e 4.87 S 0.21 U 4.65 P 99% M 433528 F 0 R 121983 W 0 c 43 w 1 I 0 O 32 L 2.99 3.18 3.28 @#@FSLOADPOST 2023:08:14:16:32:31 mris_anatomical_stats N 12 2.99 3.18 3.28 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab sub-073_ses-BSL rh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 158570 Total vertex volume 158387 (mask=0) Saving annotation colortable ./BA_exvivo.thresh.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 605 322 478 1.302 0.280 0.110 0.029 8 0.6 BA1_exvivo 1641 1053 1889 1.802 0.359 0.074 0.014 7 1.0 BA2_exvivo 877 639 739 1.541 0.259 0.131 0.023 6 0.9 BA3a_exvivo 1451 935 1107 1.237 0.187 0.078 0.015 9 0.9 BA3b_exvivo 949 526 1394 2.224 0.458 0.104 0.022 8 0.9 BA4a_exvivo 965 629 1140 1.940 0.561 0.070 0.014 3 0.6 BA4p_exvivo 5049 3538 7209 1.978 0.542 0.126 0.032 54 6.9 BA6_exvivo 786 645 1592 2.216 0.630 0.169 0.052 18 1.8 BA44_exvivo 889 723 1442 1.919 0.465 0.135 0.030 12 1.0 BA45_exvivo 2841 1944 2862 1.607 0.466 0.121 0.033 31 3.5 V1_exvivo 3438 2306 3562 1.592 0.457 0.134 0.033 42 4.6 V2_exvivo 242 185 409 2.244 0.346 0.139 0.031 3 0.3 MT_exvivo 31 24 56 1.882 0.345 0.184 0.032 1 0.0 perirhinal_exvivo 551 415 1055 2.348 0.434 0.108 0.022 4 0.5 entorhinal_exvivo @#@FSTIME 2023:08:14:16:32:31 mris_anatomical_stats N 12 e 4.74 S 0.21 U 4.52 P 99% M 433808 F 0 R 121980 W 0 c 26 w 2 I 0 O 24 L 2.99 3.18 3.28 @#@FSLOADPOST 2023:08:14:16:32:36 mris_anatomical_stats N 12 2.99 3.17 3.28 Started at Mon 14 Aug 09:33:25 CEST 2023 Ended at Mon 14 Aug 16:32:36 CEST 2023 #@#%# recon-all-run-time-hours 6.986 recon-all -s sub-073_ses-BSL finished without error at Mon 14 Aug 16:32:36 CEST 2023 #New# invocation of recon-all Tue 15 Aug 18:03:16 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI /home/rosalia/software/freesurfer/bin/recon-all -skullstrip -wsthresh 20 -clean-bm -subjid sub-073_ses-BSL subjid sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Actual FREESURFER_HOME /home/rosalia/software/freesurfer build-stamp.txt: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 1024 memorylocked 4091860 kbytes maxproc 127559 maxlocks unlimited maxsignal 127559 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 31Gi 4.2Gi 1.9Gi 970Mi 25Gi 25Gi Swap: 2.0Gi 0B 2.0Gi ######################################## program versions used 7.3.1 (freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466) 7.3.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.3.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:03:16-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ####################################### GCADIR /home/rosalia/software/freesurfer/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /home/rosalia/software/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### mv -f /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/brainmask.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/trash #-------------------------------------------- #@# Skull Stripping Tue 15 Aug 18:03:16 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_watershed -T1 -brain_atlas /home/rosalia/software/freesurfer/average/RB_all_withskull_2020_01_02.gca transforms/talairach_with_skull.lta -h 20 T1.mgz brainmask.auto.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Mode: T1 normalized volume Mode: Use the information of atlas (default parms, --help for details) Mode: Preflooding height manually specified ********************************************************* The input file is T1.mgz The output file is brainmask.auto.mgz Weighting the input with atlas information before watershed *************************WATERSHED************************** Sorting... first estimation of the COG coord: x=129 y=135 z=113 r=73 first estimation of the main basin volume: 1634125 voxels Looking for seedpoints 2 found in the cerebellum 16 found in the rest of the brain global maximum in x=102, y=120, z=83, Imax=255 CSF=18, WM_intensity=110, WM_VARIANCE=5 WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110 preflooding height equal to 20 percent done. Analyze... main basin size=1696339729475147 voxels, voxel volume =1.000 = 1696339729475147 mmm3 = 1696339746357.248 cm3 done. PostAnalyze...Basin Prior 17 basins merged thanks to atlas ***** 0 basin(s) merged in 1 iteration(s) ***** 0 voxel(s) added to the main basin done. Weighting the input with prior template ****************TEMPLATE DEFORMATION**************** second estimation of the COG coord: x=147,y=168, z=129, r=123161 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=4, CSF_MAX=21 , nb = 44082 RIGHT_CER CSF_MIN=0, CSF_intensity=7, CSF_MAX=25 , nb = 3042 LEFT_CER CSF_MIN=0, CSF_intensity=7, CSF_MAX=47 , nb = 2790 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=6, CSF_MAX=30 , nb = 9774 LEFT_BRAIN CSF_MIN=0, CSF_intensity=6, CSF_MAX=36 , nb = 13788 OTHER CSF_MIN=0, CSF_intensity=3, CSF_MAX=6 , nb = 12408 CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 21, 25, 33, 63 after analyzing : 21, 30, 33, 38 RIGHT_CER before analyzing : 25, 26, 29, 64 after analyzing : 25, 28, 29, 37 LEFT_CER before analyzing : 47, 39, 35, 63 after analyzing : 28, 39, 39, 45 RIGHT_BRAIN before analyzing : 30, 31, 33, 59 after analyzing : 30, 32, 33, 38 LEFT_BRAIN before analyzing : 36, 36, 36, 64 after analyzing : 27, 36, 36, 43 OTHER before analyzing : 6, 14, 64, 82 after analyzing : 6, 47, 64, 55 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...111 iterations *********************VALIDATION********************* curvature mean = 0.032, std = 0.143 curvature mean = 63.825, std = 15.754 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 27.24, sigma = 80.13 after rotation: sse = 27.24, sigma = 80.13 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 37.08, its var is 57.53 before Erosion-Dilatation 40.67% of inacurate vertices after Erosion-Dilatation 0.00% of inacurate vertices Validation of the shape of the surface done. Scaling of atlas fields onto current surface fields ********FINAL ITERATIVE TEMPLATE DEFORMATION******** Compute Local values csf/gray Fine Segmentation...49 iterations mri_strip_skull: done peeling brain Brain Size = 1687201 voxels, voxel volume = 1.000 mm3 = 1687201 mmm3 = 1687.201 cm3 ****************************** Saving brainmask.auto.mgz done mri_watershed done @#@FSTIME 2023:08:15:18:03:16 mri_watershed N 8 e 22.16 S 0.36 U 21.79 P 99% M 858360 F 1 R 217315 W 0 c 95 w 2 I 32 O 2784 L 2.73 3.60 3.38 @#@FSLOADPOST 2023:08:15:18:03:38 mri_watershed N 8 3.02 3.60 3.38 cp brainmask.auto.mgz brainmask.mgz #@# white curv lh Tue 15 Aug 18:03:39 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv Update not needed #@# white area lh Tue 15 Aug 18:03:39 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area Update not needed #@# pial curv lh Tue 15 Aug 18:03:39 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial Update not needed #@# pial area lh Tue 15 Aug 18:03:40 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial Update not needed #@# thickness lh Tue 15 Aug 18:03:40 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# area and vertex vol lh Tue 15 Aug 18:03:40 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# white curv rh Tue 15 Aug 18:03:40 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv Update not needed #@# white area rh Tue 15 Aug 18:03:40 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area Update not needed #@# pial curv rh Tue 15 Aug 18:03:40 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial Update not needed #@# pial area rh Tue 15 Aug 18:03:40 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial Update not needed #@# thickness rh Tue 15 Aug 18:03:40 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed #@# area and vertex vol rh Tue 15 Aug 18:03:40 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed Started at Tue 15 Aug 18:03:16 CEST 2023 Ended at Tue 15 Aug 18:03:40 CEST 2023 #@#%# recon-all-run-time-hours 0.007 recon-all -s sub-073_ses-BSL finished without error at Tue 15 Aug 18:03:40 CEST 2023 #New# invocation of recon-all Tue 15 Aug 18:04:35 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI /home/rosalia/software/freesurfer/bin/recon-all -skullstrip -wsthresh 15 -clean-bm -subjid sub-073_ses-BSL subjid sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Actual FREESURFER_HOME /home/rosalia/software/freesurfer build-stamp.txt: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 1024 memorylocked 4091860 kbytes maxproc 127559 maxlocks unlimited maxsignal 127559 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 31Gi 4.2Gi 1.9Gi 970Mi 25Gi 25Gi Swap: 2.0Gi 0B 2.0Gi ######################################## program versions used 7.3.1 (freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466) 7.3.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.3.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:04:35-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ####################################### GCADIR /home/rosalia/software/freesurfer/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /home/rosalia/software/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### mv -f /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/brainmask.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/trash #-------------------------------------------- #@# Skull Stripping Tue 15 Aug 18:04:35 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_watershed -T1 -brain_atlas /home/rosalia/software/freesurfer/average/RB_all_withskull_2020_01_02.gca transforms/talairach_with_skull.lta -h 15 T1.mgz brainmask.auto.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Mode: T1 normalized volume Mode: Use the information of atlas (default parms, --help for details) Mode: Preflooding height manually specified ********************************************************* The input file is T1.mgz The output file is brainmask.auto.mgz Weighting the input with atlas information before watershed *************************WATERSHED************************** Sorting... first estimation of the COG coord: x=129 y=135 z=113 r=73 first estimation of the main basin volume: 1634125 voxels Looking for seedpoints 2 found in the cerebellum 16 found in the rest of the brain global maximum in x=102, y=120, z=83, Imax=255 CSF=18, WM_intensity=110, WM_VARIANCE=5 WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110 preflooding height equal to 15 percent done. Analyze... main basin size=1695357447810723 voxels, voxel volume =1.000 = 1695357447810723 mmm3 = 1695357406806.016 cm3 done. PostAnalyze...Basin Prior 37 basins merged thanks to atlas ***** 0 basin(s) merged in 1 iteration(s) ***** 0 voxel(s) added to the main basin done. Weighting the input with prior template ****************TEMPLATE DEFORMATION**************** second estimation of the COG coord: x=148,y=166, z=130, r=122161 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=4, CSF_MAX=23 , nb = 44166 RIGHT_CER CSF_MIN=0, CSF_intensity=7, CSF_MAX=34 , nb = 3438 LEFT_CER CSF_MIN=0, CSF_intensity=7, CSF_MAX=41 , nb = 3330 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=6, CSF_MAX=29 , nb = 9828 LEFT_BRAIN CSF_MIN=0, CSF_intensity=6, CSF_MAX=37 , nb = 14706 OTHER CSF_MIN=0, CSF_intensity=3, CSF_MAX=6 , nb = 11172 CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 23, 26, 32, 63 after analyzing : 23, 30, 32, 38 RIGHT_CER before analyzing : 34, 29, 24, 64 after analyzing : 22, 29, 29, 37 LEFT_CER before analyzing : 41, 36, 32, 62 after analyzing : 27, 36, 36, 42 RIGHT_BRAIN before analyzing : 29, 28, 28, 60 after analyzing : 22, 28, 28, 36 LEFT_BRAIN before analyzing : 37, 36, 36, 64 after analyzing : 28, 36, 36, 43 OTHER before analyzing : 6, 7, 36, 82 after analyzing : 6, 26, 36, 40 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...111 iterations *********************VALIDATION********************* curvature mean = 0.019, std = 0.089 curvature mean = 64.502, std = 15.378 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 27.62, sigma = 81.69 after rotation: sse = 27.62, sigma = 81.69 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 36.40, its var is 57.57 before Erosion-Dilatation 39.22% of inacurate vertices after Erosion-Dilatation 0.00% of inacurate vertices Validation of the shape of the surface done. Scaling of atlas fields onto current surface fields ********FINAL ITERATIVE TEMPLATE DEFORMATION******** Compute Local values csf/gray Fine Segmentation...62 iterations mri_strip_skull: done peeling brain Brain Size = 1692267 voxels, voxel volume = 1.000 mm3 = 1692267 mmm3 = 1692.267 cm3 ****************************** Saving brainmask.auto.mgz done mri_watershed done @#@FSTIME 2023:08:15:18:04:35 mri_watershed N 8 e 22.29 S 0.38 U 21.91 P 99% M 858012 F 0 R 217272 W 0 c 99 w 0 I 0 O 2760 L 2.66 3.39 3.32 @#@FSLOADPOST 2023:08:15:18:04:57 mri_watershed N 8 3.20 3.46 3.35 cp brainmask.auto.mgz brainmask.mgz #@# white curv lh Tue 15 Aug 18:04:58 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv Update not needed #@# white area lh Tue 15 Aug 18:04:58 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area Update not needed #@# pial curv lh Tue 15 Aug 18:04:58 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial Update not needed #@# pial area lh Tue 15 Aug 18:04:58 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial Update not needed #@# thickness lh Tue 15 Aug 18:04:59 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# area and vertex vol lh Tue 15 Aug 18:04:59 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# white curv rh Tue 15 Aug 18:04:59 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv Update not needed #@# white area rh Tue 15 Aug 18:04:59 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area Update not needed #@# pial curv rh Tue 15 Aug 18:04:59 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial Update not needed #@# pial area rh Tue 15 Aug 18:04:59 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial Update not needed #@# thickness rh Tue 15 Aug 18:04:59 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed #@# area and vertex vol rh Tue 15 Aug 18:04:59 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed Started at Tue 15 Aug 18:04:35 CEST 2023 Ended at Tue 15 Aug 18:04:59 CEST 2023 #@#%# recon-all-run-time-hours 0.007 recon-all -s sub-073_ses-BSL finished without error at Tue 15 Aug 18:04:59 CEST 2023 #New# invocation of recon-all Tue 15 Aug 18:05:45 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI /home/rosalia/software/freesurfer/bin/recon-all -skullstrip -wsthresh 10 -clean-bm -subjid sub-073_ses-BSL subjid sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Actual FREESURFER_HOME /home/rosalia/software/freesurfer build-stamp.txt: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 1024 memorylocked 4091860 kbytes maxproc 127559 maxlocks unlimited maxsignal 127559 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 31Gi 3.8Gi 2.5Gi 782Mi 24Gi 26Gi Swap: 2.0Gi 0B 2.0Gi ######################################## program versions used 7.3.1 (freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466) 7.3.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.3.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:05:45-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ####################################### GCADIR /home/rosalia/software/freesurfer/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /home/rosalia/software/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### mv -f /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/brainmask.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/trash #-------------------------------------------- #@# Skull Stripping Tue 15 Aug 18:05:45 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_watershed -T1 -brain_atlas /home/rosalia/software/freesurfer/average/RB_all_withskull_2020_01_02.gca transforms/talairach_with_skull.lta -h 10 T1.mgz brainmask.auto.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Mode: T1 normalized volume Mode: Use the information of atlas (default parms, --help for details) Mode: Preflooding height manually specified ********************************************************* The input file is T1.mgz The output file is brainmask.auto.mgz Weighting the input with atlas information before watershed *************************WATERSHED************************** Sorting... first estimation of the COG coord: x=129 y=135 z=113 r=73 first estimation of the main basin volume: 1634125 voxels Looking for seedpoints 2 found in the cerebellum 16 found in the rest of the brain global maximum in x=102, y=120, z=83, Imax=255 CSF=18, WM_intensity=110, WM_VARIANCE=5 WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110 preflooding height equal to 10 percent done. Analyze... main basin size=1708628546662382 voxels, voxel volume =1.000 = 1708628546662382 mmm3 = 1708628587315.200 cm3 done. PostAnalyze...Basin Prior 118 basins merged thanks to atlas ***** 0 basin(s) merged in 1 iteration(s) ***** 0 voxel(s) added to the main basin done. Weighting the input with prior template ****************TEMPLATE DEFORMATION**************** second estimation of the COG coord: x=149,y=164, z=129, r=123161 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=4, CSF_MAX=27 , nb = 44184 RIGHT_CER CSF_MIN=0, CSF_intensity=4, CSF_MAX=34 , nb = 3906 LEFT_CER CSF_MIN=0, CSF_intensity=5, CSF_MAX=37 , nb = 4140 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=6, CSF_MAX=29 , nb = 9468 LEFT_BRAIN CSF_MIN=0, CSF_intensity=5, CSF_MAX=36 , nb = 16092 OTHER CSF_MIN=0, CSF_intensity=3, CSF_MAX=6 , nb = 9534 CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 27, 28, 31, 64 after analyzing : 27, 30, 31, 38 RIGHT_CER before analyzing : 34, 29, 23, 65 after analyzing : 22, 29, 29, 38 LEFT_CER before analyzing : 37, 34, 30, 75 after analyzing : 26, 34, 34, 44 RIGHT_BRAIN before analyzing : 29, 29, 30, 60 after analyzing : 22, 29, 30, 36 LEFT_BRAIN before analyzing : 36, 36, 36, 64 after analyzing : 28, 36, 36, 43 OTHER before analyzing : 6, 26, 60, 65 after analyzing : 6, 48, 60, 52 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...111 iterations *********************VALIDATION********************* curvature mean = 0.016, std = 0.071 curvature mean = 64.346, std = 15.447 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 27.03, sigma = 73.40 after rotation: sse = 27.03, sigma = 73.40 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 36.85, its var is 54.87 before Erosion-Dilatation 40.32% of inacurate vertices after Erosion-Dilatation 0.00% of inacurate vertices Validation of the shape of the surface done. Scaling of atlas fields onto current surface fields ********FINAL ITERATIVE TEMPLATE DEFORMATION******** Compute Local values csf/gray Fine Segmentation...102 iterations mri_strip_skull: done peeling brain Brain Size = 2204234 voxels, voxel volume = 1.000 mm3 = 2204234 mmm3 = 2204.234 cm3 ****************************** Saving brainmask.auto.mgz done mri_watershed done @#@FSTIME 2023:08:15:18:05:45 mri_watershed N 8 e 25.58 S 0.37 U 25.21 P 99% M 857924 F 0 R 217240 W 0 c 114 w 2 I 0 O 3008 L 2.42 3.22 3.27 @#@FSLOADPOST 2023:08:15:18:06:11 mri_watershed N 8 2.33 3.14 3.24 cp brainmask.auto.mgz brainmask.mgz #@# white curv lh Tue 15 Aug 18:06:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv Update not needed #@# white area lh Tue 15 Aug 18:06:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area Update not needed #@# pial curv lh Tue 15 Aug 18:06:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial Update not needed #@# pial area lh Tue 15 Aug 18:06:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial Update not needed #@# thickness lh Tue 15 Aug 18:06:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# area and vertex vol lh Tue 15 Aug 18:06:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# white curv rh Tue 15 Aug 18:06:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv Update not needed #@# white area rh Tue 15 Aug 18:06:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area Update not needed #@# pial curv rh Tue 15 Aug 18:06:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial Update not needed #@# pial area rh Tue 15 Aug 18:06:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial Update not needed #@# thickness rh Tue 15 Aug 18:06:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed #@# area and vertex vol rh Tue 15 Aug 18:06:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed Started at Tue 15 Aug 18:05:45 CEST 2023 Ended at Tue 15 Aug 18:06:12 CEST 2023 #@#%# recon-all-run-time-hours 0.007 recon-all -s sub-073_ses-BSL finished without error at Tue 15 Aug 18:06:12 CEST 2023 #New# invocation of recon-all Tue 15 Aug 18:07:19 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI /home/rosalia/software/freesurfer/bin/recon-all -skullstrip -wsthresh 5 -clean-bm -subjid sub-073_ses-BSL subjid sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Actual FREESURFER_HOME /home/rosalia/software/freesurfer build-stamp.txt: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 1024 memorylocked 4091860 kbytes maxproc 127559 maxlocks unlimited maxsignal 127559 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 31Gi 3.8Gi 2.5Gi 777Mi 24Gi 26Gi Swap: 2.0Gi 0B 2.0Gi ######################################## program versions used 7.3.1 (freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466) 7.3.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.3.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:07:19-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ####################################### GCADIR /home/rosalia/software/freesurfer/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /home/rosalia/software/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### mv -f /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/brainmask.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/trash #-------------------------------------------- #@# Skull Stripping Tue 15 Aug 18:07:19 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_watershed -T1 -brain_atlas /home/rosalia/software/freesurfer/average/RB_all_withskull_2020_01_02.gca transforms/talairach_with_skull.lta -h 5 T1.mgz brainmask.auto.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Mode: T1 normalized volume Mode: Use the information of atlas (default parms, --help for details) Mode: Preflooding height manually specified ********************************************************* The input file is T1.mgz The output file is brainmask.auto.mgz Weighting the input with atlas information before watershed *************************WATERSHED************************** Sorting... first estimation of the COG coord: x=129 y=135 z=113 r=73 first estimation of the main basin volume: 1634125 voxels Looking for seedpoints 2 found in the cerebellum 16 found in the rest of the brain global maximum in x=102, y=120, z=83, Imax=255 CSF=18, WM_intensity=110, WM_VARIANCE=5 WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110 preflooding height equal to 5 percent done. Analyze... main basin size=1697312952937483 voxels, voxel volume =1.000 = 1697312952937483 mmm3 = 1697312959102.976 cm3 done. PostAnalyze...Basin Prior 1076 basins merged thanks to atlas ***** 0 basin(s) merged in 1 iteration(s) ***** 0 voxel(s) added to the main basin done. Weighting the input with prior template ****************TEMPLATE DEFORMATION**************** second estimation of the COG coord: x=149,y=164, z=129, r=123161 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=4, CSF_MAX=27 , nb = 44166 RIGHT_CER CSF_MIN=0, CSF_intensity=4, CSF_MAX=44 , nb = 3906 LEFT_CER CSF_MIN=0, CSF_intensity=5, CSF_MAX=29 , nb = 3906 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=6, CSF_MAX=29 , nb = 9612 LEFT_BRAIN CSF_MIN=0, CSF_intensity=5, CSF_MAX=36 , nb = 16164 OTHER CSF_MIN=0, CSF_intensity=3, CSF_MAX=6 , nb = 9576 Problem with the least square interpolation in GM_MIN calculation. CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 27, 28, 31, 64 after analyzing : 27, 30, 31, 38 RIGHT_CER before analyzing : 44, 35, 28, 64 after analyzing : 27, 35, 35, 42 LEFT_CER before analyzing : 29, 29, 29, 79 after analyzing : 22, 29, 29, 41 RIGHT_BRAIN before analyzing : 29, 30, 32, 60 after analyzing : 29, 31, 32, 38 LEFT_BRAIN before analyzing : 36, 36, 37, 64 after analyzing : 27, 36, 37, 43 OTHER before analyzing : 6, 9, 23, 34 after analyzing : 6, 19, 25, 22 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...111 iterations *********************VALIDATION********************* curvature mean = 0.014, std = 0.072 curvature mean = 64.750, std = 15.113 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 26.30, sigma = 74.15 after rotation: sse = 26.30, sigma = 74.15 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 36.49, its var is 56.34 before Erosion-Dilatation 39.65% of inacurate vertices after Erosion-Dilatation 0.00% of inacurate vertices Validation of the shape of the surface done. Scaling of atlas fields onto current surface fields ********FINAL ITERATIVE TEMPLATE DEFORMATION******** Compute Local values csf/gray Fine Segmentation...102 iterations mri_strip_skull: done peeling brain Brain Size = 2209414 voxels, voxel volume = 1.000 mm3 = 2209414 mmm3 = 2209.414 cm3 ****************************** Saving brainmask.auto.mgz done mri_watershed done @#@FSTIME 2023:08:15:18:07:19 mri_watershed N 8 e 26.21 S 0.35 U 25.86 P 99% M 858000 F 0 R 217232 W 0 c 105 w 1 I 0 O 3000 L 1.68 2.79 3.11 @#@FSLOADPOST 2023:08:15:18:07:46 mri_watershed N 8 1.99 2.77 3.10 cp brainmask.auto.mgz brainmask.mgz #@# white curv lh Tue 15 Aug 18:07:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv Update not needed #@# white area lh Tue 15 Aug 18:07:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area Update not needed #@# pial curv lh Tue 15 Aug 18:07:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial Update not needed #@# pial area lh Tue 15 Aug 18:07:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial Update not needed #@# thickness lh Tue 15 Aug 18:07:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# area and vertex vol lh Tue 15 Aug 18:07:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# white curv rh Tue 15 Aug 18:07:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv Update not needed #@# white area rh Tue 15 Aug 18:07:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area Update not needed #@# pial curv rh Tue 15 Aug 18:07:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial Update not needed #@# pial area rh Tue 15 Aug 18:07:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial Update not needed #@# thickness rh Tue 15 Aug 18:07:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed #@# area and vertex vol rh Tue 15 Aug 18:07:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed Started at Tue 15 Aug 18:07:19 CEST 2023 Ended at Tue 15 Aug 18:07:47 CEST 2023 #@#%# recon-all-run-time-hours 0.008 recon-all -s sub-073_ses-BSL finished without error at Tue 15 Aug 18:07:47 CEST 2023 #New# invocation of recon-all Tue 15 Aug 18:08:20 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI /home/rosalia/software/freesurfer/bin/recon-all -skullstrip -wsthresh 1 -clean-bm -subjid sub-073_ses-BSL subjid sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Actual FREESURFER_HOME /home/rosalia/software/freesurfer build-stamp.txt: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 1024 memorylocked 4091860 kbytes maxproc 127559 maxlocks unlimited maxsignal 127559 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 31Gi 3.8Gi 2.5Gi 794Mi 24Gi 26Gi Swap: 2.0Gi 0B 2.0Gi ######################################## program versions used 7.3.1 (freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466) 7.3.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.3.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:08:20-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ####################################### GCADIR /home/rosalia/software/freesurfer/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /home/rosalia/software/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### mv -f /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/brainmask.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/trash #-------------------------------------------- #@# Skull Stripping Tue 15 Aug 18:08:20 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_watershed -T1 -brain_atlas /home/rosalia/software/freesurfer/average/RB_all_withskull_2020_01_02.gca transforms/talairach_with_skull.lta -h 1 T1.mgz brainmask.auto.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Mode: T1 normalized volume Mode: Use the information of atlas (default parms, --help for details) Mode: Preflooding height manually specified ********************************************************* The input file is T1.mgz The output file is brainmask.auto.mgz Weighting the input with atlas information before watershed *************************WATERSHED************************** Sorting... first estimation of the COG coord: x=129 y=135 z=113 r=73 first estimation of the main basin volume: 1634125 voxels Looking for seedpoints 2 found in the cerebellum 16 found in the rest of the brain global maximum in x=102, y=120, z=83, Imax=255 CSF=18, WM_intensity=110, WM_VARIANCE=5 WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110 preflooding height equal to 1 percent done. Analyze... main basin size=1706163738412358 voxels, voxel volume =1.000 = 1706163738412358 mmm3 = 1706163678740.480 cm3 done. PostAnalyze...Basin Prior 17365 basins merged thanks to atlas ***** 0 basin(s) merged in 1 iteration(s) ***** 0 voxel(s) added to the main basin done. Weighting the input with prior template ****************TEMPLATE DEFORMATION**************** second estimation of the COG coord: x=150,y=166, z=130, r=122161 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=4, CSF_MAX=22 , nb = 43662 RIGHT_CER CSF_MIN=0, CSF_intensity=4, CSF_MAX=37 , nb = 4032 LEFT_CER CSF_MIN=0, CSF_intensity=5, CSF_MAX=33 , nb = 4374 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=6, CSF_MAX=28 , nb = 8838 LEFT_BRAIN CSF_MIN=0, CSF_intensity=5, CSF_MAX=33 , nb = 15174 OTHER CSF_MIN=0, CSF_intensity=3, CSF_MAX=6 , nb = 10050 Problem with the least square interpolation in GM_MIN calculation. CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 22, 24, 28, 63 after analyzing : 22, 26, 28, 35 RIGHT_CER before analyzing : 37, 31, 24, 66 after analyzing : 23, 31, 31, 39 LEFT_CER before analyzing : 33, 30, 25, 75 after analyzing : 22, 30, 30, 41 RIGHT_BRAIN before analyzing : 28, 28, 28, 60 after analyzing : 21, 28, 28, 36 LEFT_BRAIN before analyzing : 33, 34, 36, 63 after analyzing : 33, 35, 36, 42 OTHER before analyzing : 6, 21, 80, 91 after analyzing : 6, 60, 80, 67 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...111 iterations *********************VALIDATION********************* curvature mean = 0.021, std = 0.081 curvature mean = 63.277, std = 16.091 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 28.39, sigma = 80.13 after rotation: sse = 28.39, sigma = 80.13 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 38.40, its var is 58.19 before Erosion-Dilatation 41.59% of inacurate vertices after Erosion-Dilatation 0.00% of inacurate vertices Validation of the shape of the surface done. Scaling of atlas fields onto current surface fields ********FINAL ITERATIVE TEMPLATE DEFORMATION******** Compute Local values csf/gray Fine Segmentation...102 iterations mri_strip_skull: done peeling brain Brain Size = 2309985 voxels, voxel volume = 1.000 mm3 = 2309985 mmm3 = 2309.985 cm3 ****************************** Saving brainmask.auto.mgz done mri_watershed done @#@FSTIME 2023:08:15:18:08:20 mri_watershed N 8 e 25.63 S 0.38 U 25.24 P 99% M 857876 F 0 R 217188 W 0 c 104 w 2 I 0 O 3048 L 1.81 2.64 3.04 @#@FSLOADPOST 2023:08:15:18:08:46 mri_watershed N 8 2.00 2.62 3.02 cp brainmask.auto.mgz brainmask.mgz #@# white curv lh Tue 15 Aug 18:08:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv Update not needed #@# white area lh Tue 15 Aug 18:08:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area Update not needed #@# pial curv lh Tue 15 Aug 18:08:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial Update not needed #@# pial area lh Tue 15 Aug 18:08:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial Update not needed #@# thickness lh Tue 15 Aug 18:08:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# area and vertex vol lh Tue 15 Aug 18:08:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# white curv rh Tue 15 Aug 18:08:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv Update not needed #@# white area rh Tue 15 Aug 18:08:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area Update not needed #@# pial curv rh Tue 15 Aug 18:08:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial Update not needed #@# pial area rh Tue 15 Aug 18:08:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial Update not needed #@# thickness rh Tue 15 Aug 18:08:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed #@# area and vertex vol rh Tue 15 Aug 18:08:47 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed Started at Tue 15 Aug 18:08:20 CEST 2023 Ended at Tue 15 Aug 18:08:47 CEST 2023 #@#%# recon-all-run-time-hours 0.007 recon-all -s sub-073_ses-BSL finished without error at Tue 15 Aug 18:08:47 CEST 2023 #New# invocation of recon-all Tue 15 Aug 18:27:22 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI /home/rosalia/software/freesurfer/bin/recon-all -skullstrip -clean-bm -gcut -subjid sub-073_ses-BSL subjid sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Actual FREESURFER_HOME /home/rosalia/software/freesurfer build-stamp.txt: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 1024 memorylocked 4091860 kbytes maxproc 127559 maxlocks unlimited maxsignal 127559 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 31Gi 3.8Gi 3.9Gi 796Mi 23Gi 26Gi Swap: 2.0Gi 0B 2.0Gi ######################################## program versions used 7.3.1 (freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466) 7.3.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:22-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.3.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:27:23-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ####################################### GCADIR /home/rosalia/software/freesurfer/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /home/rosalia/software/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### mv -f /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/brainmask.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/trash #-------------------------------------------- #@# Skull Stripping Tue 15 Aug 18:27:23 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_watershed -T1 -brain_atlas /home/rosalia/software/freesurfer/average/RB_all_withskull_2020_01_02.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Mode: T1 normalized volume Mode: Use the information of atlas (default parms, --help for details) ********************************************************* The input file is T1.mgz The output file is brainmask.auto.mgz Weighting the input with atlas information before watershed *************************WATERSHED************************** Sorting... first estimation of the COG coord: x=129 y=135 z=113 r=73 first estimation of the main basin volume: 1634125 voxels Looking for seedpoints 2 found in the cerebellum 16 found in the rest of the brain global maximum in x=102, y=120, z=83, Imax=255 CSF=18, WM_intensity=110, WM_VARIANCE=5 WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110 preflooding height equal to 10 percent done. Analyze... main basin size=1697386851135470 voxels, voxel volume =1.000 = 1697386851135470 mmm3 = 1697386913071.104 cm3 done. PostAnalyze...Basin Prior 118 basins merged thanks to atlas ***** 0 basin(s) merged in 1 iteration(s) ***** 0 voxel(s) added to the main basin done. Weighting the input with prior template ****************TEMPLATE DEFORMATION**************** second estimation of the COG coord: x=149,y=164, z=129, r=123161 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=4, CSF_MAX=27 , nb = 44184 RIGHT_CER CSF_MIN=0, CSF_intensity=4, CSF_MAX=34 , nb = 3906 LEFT_CER CSF_MIN=0, CSF_intensity=5, CSF_MAX=37 , nb = 4140 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=6, CSF_MAX=29 , nb = 9468 LEFT_BRAIN CSF_MIN=0, CSF_intensity=5, CSF_MAX=36 , nb = 16092 OTHER CSF_MIN=0, CSF_intensity=3, CSF_MAX=6 , nb = 9534 CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 27, 28, 31, 64 after analyzing : 27, 30, 31, 38 RIGHT_CER before analyzing : 34, 29, 23, 65 after analyzing : 22, 29, 29, 38 LEFT_CER before analyzing : 37, 34, 30, 75 after analyzing : 26, 34, 34, 44 RIGHT_BRAIN before analyzing : 29, 29, 30, 60 after analyzing : 22, 29, 30, 36 LEFT_BRAIN before analyzing : 36, 36, 36, 64 after analyzing : 28, 36, 36, 43 OTHER before analyzing : 6, 26, 60, 65 after analyzing : 6, 48, 60, 52 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...111 iterations *********************VALIDATION********************* curvature mean = 0.016, std = 0.071 curvature mean = 64.346, std = 15.447 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 27.03, sigma = 73.40 after rotation: sse = 27.03, sigma = 73.40 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 36.85, its var is 54.87 before Erosion-Dilatation 40.32% of inacurate vertices after Erosion-Dilatation 0.00% of inacurate vertices Validation of the shape of the surface done. Scaling of atlas fields onto current surface fields ********FINAL ITERATIVE TEMPLATE DEFORMATION******** Compute Local values csf/gray Fine Segmentation...102 iterations mri_strip_skull: done peeling brain Brain Size = 2204234 voxels, voxel volume = 1.000 mm3 = 2204234 mmm3 = 2204.234 cm3 ****************************** Saving brainmask.auto.mgz done mri_watershed done @#@FSTIME 2023:08:15:18:27:23 mri_watershed N 6 e 27.10 S 0.37 U 26.72 P 99% M 857896 F 0 R 217239 W 0 c 138 w 1 I 0 O 3008 L 2.71 2.74 2.75 @#@FSLOADPOST 2023:08:15:18:27:50 mri_watershed N 6 3.10 2.83 2.78 rm -f brainmask.gcuts.mgz mri_gcut -110 -mult brainmask.auto.mgz T1.mgz brainmask.auto.mgz brainmask.gcuts.mgz INFO: Care must be taken to thoroughly inspect your data when using mri_gcut. In particular, inspect the edges of gm and cerebellum for over-aggressive cutting. Add -segmentation brainmask.gcuts.mgz to the tkmedit command string to view the voxels which gcut has removed. /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading mask... use voxels with intensity 110 as WM mask threshold set to: 110.000000*0.400000=44.000000 calculating weights... doing mincut... now doing maxflow, be patient... g-cut done! post-processing... post-processing done! masking... ** Gcutted brain is much smaller than the mask! ** Using the mask as the output instead! @#@FSTIME 2023:08:15:18:27:50 mri_gcut N 6 e 10.98 S 0.89 U 10.08 P 100% M 2139328 F 1 R 567546 W 0 c 29 w 1 I 256 O 3008 L 3.10 2.83 2.78 @#@FSLOADPOST 2023:08:15:18:28:01 mri_gcut N 6 3.24 2.87 2.79 cp brainmask.auto.mgz brainmask.mgz #@# white curv lh Tue 15 Aug 18:28:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv Update not needed #@# white area lh Tue 15 Aug 18:28:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area Update not needed #@# pial curv lh Tue 15 Aug 18:28:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial Update not needed #@# pial area lh Tue 15 Aug 18:28:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial Update not needed #@# thickness lh Tue 15 Aug 18:28:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# area and vertex vol lh Tue 15 Aug 18:28:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# white curv rh Tue 15 Aug 18:28:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv Update not needed #@# white area rh Tue 15 Aug 18:28:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area Update not needed #@# pial curv rh Tue 15 Aug 18:28:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial Update not needed #@# pial area rh Tue 15 Aug 18:28:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial Update not needed #@# thickness rh Tue 15 Aug 18:28:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed #@# area and vertex vol rh Tue 15 Aug 18:28:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed Started at Tue 15 Aug 18:27:22 CEST 2023 Ended at Tue 15 Aug 18:28:02 CEST 2023 #@#%# recon-all-run-time-hours 0.011 recon-all -s sub-073_ses-BSL finished without error at Tue 15 Aug 18:28:02 CEST 2023 #New# invocation of recon-all Tue 15 Aug 18:34:04 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI /home/rosalia/software/freesurfer/bin/recon-all -autorecon-pial -subjid sub-073_ses-BSL subjid sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Actual FREESURFER_HOME /home/rosalia/software/freesurfer build-stamp.txt: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 1024 memorylocked 4091860 kbytes maxproc 127559 maxlocks unlimited maxsignal 127559 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 31Gi 3.3Gi 4.4Gi 813Mi 23Gi 26Gi Swap: 2.0Gi 0B 2.0Gi ######################################## program versions used 7.3.1 (freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466) 7.3.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.3.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-16:34:04-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ####################################### GCADIR /home/rosalia/software/freesurfer/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /home/rosalia/software/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### #-------------------------------------------- #@# Mask BFS Tue 15 Aug 18:34:04 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) threshold mask volume at 5 DoAbs = 0 Found 1371935 voxels in mask (pct= 15.06) INFO: MRImask() using MRImaskDifferentGeometry() Writing masked volume to brain.finalsurfs.mgz...done. @#@FSTIME 2023:08:15:18:34:04 mri_mask N 5 e 2.52 S 0.05 U 2.46 P 99% M 112528 F 0 R 26814 W 0 c 24 w 1 I 0 O 2416 L 1.70 2.37 2.61 @#@FSLOADPOST 2023:08:15:18:34:07 mri_mask N 5 1.70 2.37 2.61 #-------------------------------------------- #@# AutoDetGWStats lh Tue 15 Aug 18:34:07 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh border white: 227745 voxels (1.36%) border gray 248599 voxels (1.48%) Reading in intensity volume brain.finalsurfs.mgz Reading in wm volume wm.mgz Reading in surf ../surf/lh.orig.premesh Auto detecting stats MRIclipBrightWM(): nthresh=21715, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (95.0): 95.7 +- 8.8 [70.0 --> 110.0] CCS GM (70.0) : 68.5 +- 12.5 [30.0 --> 110.0] white_mean = 95.6652 +/- 8.833, gray_mean = 68.5172 +/- 12.5178 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=239 nbins=240 intensity peaks found at WM=97+-7.8, GM=64+-13.0 white_mode = 97, gray_mode = 64 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 51.5 (was 70.000000) setting MAX_BORDER_WHITE to 105.8 (was 105.000000) setting MIN_BORDER_WHITE to 64.0 (was 85.000000) setting MAX_CSF to 39.0 (was 40.000000) setting MAX_GRAY to 88.2 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 51.5 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 26.4 (was 40.000000) When placing the white surface white_border_hi = 105.833; white_border_low = 64; white_outside_low = 51.4822; white_inside_hi = 120; white_outside_hi = 105.833; When placing the pial surface pial_border_hi = 51.4822; pial_border_low = 26.4467; pial_outside_low = 10; pial_inside_hi = 88.167; pial_outside_hi = 45.2233; #VMPC# mris_autodet_gwstats VmPeak 242432 mris_autodet_gwstats done @#@FSTIME 2023:08:15:18:34:07 mris_autodet_gwstats N 8 e 4.39 S 0.13 U 4.26 P 99% M 222424 F 0 R 62819 W 0 c 29 w 1 I 0 O 8 L 1.70 2.37 2.61 @#@FSLOADPOST 2023:08:15:18:34:11 mris_autodet_gwstats N 8 1.80 2.38 2.61 #-------------------------------------------- #@# AutoDetGWStats rh Tue 15 Aug 18:34:11 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh border white: 227745 voxels (1.36%) border gray 248599 voxels (1.48%) Reading in intensity volume brain.finalsurfs.mgz Reading in wm volume wm.mgz Reading in surf ../surf/rh.orig.premesh Auto detecting stats MRIclipBrightWM(): nthresh=21715, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (95.0): 95.7 +- 8.8 [70.0 --> 110.0] CCS GM (70.0) : 68.5 +- 12.5 [30.0 --> 110.0] white_mean = 95.6652 +/- 8.833, gray_mean = 68.5172 +/- 12.5178 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=239 nbins=240 intensity peaks found at WM=99+-7.8, GM=62+-13.9 white_mode = 99, gray_mode = 62 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 49.5 (was 70.000000) setting MAX_BORDER_WHITE to 107.8 (was 105.000000) setting MIN_BORDER_WHITE to 62.0 (was 85.000000) setting MAX_CSF to 37.0 (was 40.000000) setting MAX_GRAY to 90.2 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 49.5 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 24.4 (was 40.000000) When placing the white surface white_border_hi = 107.833; white_border_low = 62; white_outside_low = 49.4822; white_inside_hi = 120; white_outside_hi = 107.833; When placing the pial surface pial_border_hi = 49.4822; pial_border_low = 24.4467; pial_outside_low = 10; pial_inside_hi = 90.167; pial_outside_hi = 43.2233; #VMPC# mris_autodet_gwstats VmPeak 237716 mris_autodet_gwstats done @#@FSTIME 2023:08:15:18:34:11 mris_autodet_gwstats N 8 e 4.42 S 0.12 U 4.29 P 99% M 217752 F 0 R 61505 W 0 c 43 w 0 I 0 O 8 L 1.80 2.38 2.61 @#@FSLOADPOST 2023:08:15:18:34:16 mris_autodet_gwstats N 8 1.90 2.39 2.62 #-------------------------------------------- #@# WhitePreAparc lh Tue 15 Aug 18:34:16 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --lh --i ../surf/lh.orig --o ../surf/lh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --lh --i ../surf/lh.orig --o ../surf/lh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 Reading in input surface ../surf/lh.orig Smoothing surface before ripping with 5 iterations Area 254118 0.26893 0.06412 0.001135 0.5897 Corner 762354 60.00000 9.50303 7.779876 147.4471 Edge 381177 0.79165 0.11583 0.035754 1.3332 Hinge 381177 6.25624 6.48998 0.000003 142.3642 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21715, wmmin=5, clip=110 MRIfindBrightNonWM(): 1504 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7593, nmarked2=2, nripped=7593 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 63531: xyz = (-61.3787,-9.41697,11.7441) oxyz = (-61.3787,-9.41697,11.7441) wxzy = (-61.3787,-9.41697,11.7441) pxyz = (0,0,0) CBVO Creating mask 127061 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7593 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7593, nmarked2=2, nripped=7593 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8330080; border_low = 64.0000000; outside_low = 51.4822200; outside_hi = 105.8330080; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=2 had to be increased for 103 vertices, nripped=7593 mean border=77.5, 430 (430) missing vertices, mean dist 0.2 [1.0 (%39.3)->1.0 (%60.7))] %21 local maxima, %73 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1434 min Finding expansion regions mean absolute distance = 0.97 +- 1.20 4727 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=4308148.5, rms=13.234 001: dt: 0.5000, sse=2257060.0, rms=9.439 (28.679%) 002: dt: 0.5000, sse=1347439.2, rms=7.129 (24.472%) 003: dt: 0.5000, sse=947246.6, rms=5.793 (18.734%) 004: dt: 0.5000, sse=734173.5, rms=4.980 (14.048%) 005: dt: 0.5000, sse=617825.7, rms=4.465 (10.330%) 006: dt: 0.5000, sse=556522.4, rms=4.136 (7.362%) 007: dt: 0.5000, sse=519229.9, rms=3.909 (5.497%) 008: dt: 0.5000, sse=493003.1, rms=3.771 (3.543%) 009: dt: 0.5000, sse=474426.3, rms=3.685 (2.280%) rms = 3.6354/3.6846, sse=473033.6/474426.3, time step reduction 1 of 3 to 0.250 0 0 1 010: dt: 0.5000, sse=473033.6, rms=3.635 (1.334%) 011: dt: 0.2500, sse=275077.6, rms=2.304 (36.632%) 012: dt: 0.2500, sse=246231.8, rms=1.993 (13.487%) 013: dt: 0.2500, sse=237172.5, rms=1.909 (4.200%) 014: dt: 0.2500, sse=234159.2, rms=1.851 (3.049%) 015: dt: 0.2500, sse=230118.4, rms=1.799 (2.807%) rms = 1.7740/1.7991, sse=230512.7/230118.4, time step reduction 2 of 3 to 0.125 0 1 1 016: dt: 0.2500, sse=230512.7, rms=1.774 (1.395%) 017: dt: 0.1250, sse=221102.8, rms=1.653 (6.813%) rms = 1.6318/1.6531, sse=219831.1/221102.8, time step reduction 3 of 3 to 0.062 0 0 1 018: dt: 0.1250, sse=219831.1, rms=1.632 (1.293%) maximum number of reductions reached, breaking from loop positioning took 1.7 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7593 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7770, nmarked2=2, nripped=7770 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8330080; border_low = 64.0000000; outside_low = 51.4822200; outside_hi = 105.8330080; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=1 had to be increased for 272 vertices, nripped=7770 mean border=80.0, 387 (259) missing vertices, mean dist -0.3 [0.6 (%64.0)->0.3 (%36.0))] %34 local maxima, %60 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1080 min Finding expansion regions mean absolute distance = 0.46 +- 0.86 4655 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=700620.9, rms=4.549 019: dt: 0.5000, sse=474172.7, rms=3.287 (27.731%) rms = 3.3046/3.2873, sse=470961.7/474172.7, time step reduction 1 of 3 to 0.250 0 0 1 RMS increased, rejecting step 020: dt: 0.2500, sse=379675.4, rms=2.643 (19.609%) 021: dt: 0.2500, sse=320512.7, rms=2.134 (19.255%) 022: dt: 0.2500, sse=296246.6, rms=1.910 (10.491%) 023: dt: 0.2500, sse=286011.7, rms=1.766 (7.562%) 024: dt: 0.2500, sse=277825.5, rms=1.680 (4.837%) rms = 1.6309/1.6802, sse=280833.2/277825.5, time step reduction 2 of 3 to 0.125 0 1 1 025: dt: 0.2500, sse=280833.2, rms=1.631 (2.933%) 026: dt: 0.1250, sse=265546.2, rms=1.515 (7.082%) rms = 1.4726/1.5154, sse=259569.0/265546.2, time step reduction 3 of 3 to 0.062 0 0 1 027: dt: 0.1250, sse=259569.0, rms=1.473 (2.823%) maximum number of reductions reached, breaking from loop positioning took 0.9 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7770 removing 2 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7819, nmarked2=2, nripped=7819 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8330080; border_low = 64.0000000; outside_low = 51.4822200; outside_hi = 105.8330080; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 280 vertices, nripped=7819 mean border=82.9, 390 (225) missing vertices, mean dist -0.2 [0.4 (%69.2)->0.2 (%30.8))] %58 local maxima, %36 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0603 min Finding expansion regions mean absolute distance = 0.35 +- 0.51 3399 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=623042.1, rms=4.207 028: dt: 0.5000, sse=425791.7, rms=2.876 (31.646%) rms = 3.0890/2.8757, sse=435330.9/425791.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 029: dt: 0.2500, sse=319484.3, rms=2.092 (27.252%) 030: dt: 0.2500, sse=277383.9, rms=1.643 (21.454%) 031: dt: 0.2500, sse=262040.1, rms=1.525 (7.215%) rms = 1.4849/1.5247, sse=274226.5/262040.1, time step reduction 2 of 3 to 0.125 0 1 1 032: dt: 0.2500, sse=274226.5, rms=1.485 (2.605%) 033: dt: 0.1250, sse=272204.6, rms=1.350 (9.057%) rms = 1.3172/1.3505, sse=271160.0/272204.6, time step reduction 3 of 3 to 0.062 0 0 1 034: dt: 0.1250, sse=271160.0, rms=1.317 (2.459%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7819 removing 2 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7883, nmarked2=2, nripped=7883 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8330080; border_low = 64.0000000; outside_low = 51.4822200; outside_hi = 105.8330080; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 310 vertices, nripped=7883 mean border=84.3, 395 (205) missing vertices, mean dist -0.1 [0.3 (%60.3)->0.2 (%39.7))] %69 local maxima, %24 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0404 min Finding expansion regions mean absolute distance = 0.27 +- 0.39 2735 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=344464.8, rms=2.245 rms = 2.3450/2.2445, sse=369530.3/344464.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 035: dt: 0.2500, sse=276962.1, rms=1.580 (29.586%) 036: dt: 0.2500, sse=253132.9, rms=1.179 (25.373%) rms = 1.1887/1.1795, sse=250474.8/253132.9, time step reduction 2 of 3 to 0.125 0 0 1 RMS increased, rejecting step rms = 1.1437/1.1795, sse=251049.2/253132.9, time step reduction 3 of 3 to 0.062 0 0 1 037: dt: 0.1250, sse=251049.2, rms=1.144 (3.031%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/lh.white.preaparc #ET# mris_place_surface 4.15 minutes #VMPC# mris_place_surfaces VmPeak 2120140 mris_place_surface done @#@FSTIME 2023:08:15:18:34:16 mris_place_surface N 18 e 256.42 S 0.87 U 255.49 P 99% M 1861440 F 0 R 488614 W 0 c 1555 w 5 I 0 O 8936 L 1.90 2.39 2.62 @#@FSLOADPOST 2023:08:15:18:38:32 mris_place_surface N 18 2.46 2.53 2.62 #-------------------------------------------- #@# WhitePreAparc rh Tue 15 Aug 18:38:32 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --rh --i ../surf/rh.orig --o ../surf/rh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --rh --i ../surf/rh.orig --o ../surf/rh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 Reading in input surface ../surf/rh.orig Smoothing surface before ripping with 5 iterations Area 245922 0.26738 0.06490 0.000055 0.6120 Corner 737766 60.00000 9.63976 0.750136 173.3441 Edge 368883 0.78928 0.11737 0.020031 1.3010 Hinge 368883 6.35115 6.73935 0.000001 154.8015 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21715, wmmin=5, clip=110 MRIfindBrightNonWM(): 1504 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=0 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7628, nmarked2=3, nripped=7628 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 61482: xyz = (19.8147,-3.80007,-19.3223) oxyz = (19.8147,-3.80007,-19.3223) wxzy = (19.8147,-3.80007,-19.3223) pxyz = (0,0,0) CBVO Creating mask 122963 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7628 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7628, nmarked2=3, nripped=7628 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8330080; border_low = 62.0000000; outside_low = 49.4822200; outside_hi = 107.8330080; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=2 had to be increased for 93 vertices, nripped=7628 mean border=76.0, 193 (193) missing vertices, mean dist 0.3 [1.0 (%36.4)->1.0 (%63.6))] %24 local maxima, %69 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1591 min Finding expansion regions mean absolute distance = 1.02 +- 1.25 4823 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=4500066.5, rms=13.770 001: dt: 0.5000, sse=2458712.2, rms=10.056 (26.969%) 002: dt: 0.5000, sse=1494507.9, rms=7.692 (23.506%) 003: dt: 0.5000, sse=1018841.8, rms=6.209 (19.286%) 004: dt: 0.5000, sse=777545.0, rms=5.226 (15.829%) 005: dt: 0.5000, sse=623468.3, rms=4.604 (11.897%) 006: dt: 0.5000, sse=543714.4, rms=4.190 (8.997%) 007: dt: 0.5000, sse=494808.2, rms=3.933 (6.130%) 008: dt: 0.5000, sse=474388.8, rms=3.782 (3.845%) 009: dt: 0.5000, sse=459364.0, rms=3.707 (1.976%) 010: dt: 0.5000, sse=452807.2, rms=3.637 (1.905%) rms = 3.5999/3.6367, sse=452862.2/452807.1, time step reduction 1 of 3 to 0.250 0 1 1 011: dt: 0.5000, sse=452862.2, rms=3.600 (1.011%) 012: dt: 0.2500, sse=265417.7, rms=2.238 (37.827%) 013: dt: 0.2500, sse=237440.9, rms=1.909 (14.722%) 014: dt: 0.2500, sse=224167.8, rms=1.811 (5.103%) 015: dt: 0.2500, sse=219971.5, rms=1.760 (2.829%) rms = 1.7325/1.7600, sse=221180.4/219971.5, time step reduction 2 of 3 to 0.125 0 1 1 016: dt: 0.2500, sse=221180.4, rms=1.733 (1.563%) 017: dt: 0.1250, sse=206249.9, rms=1.618 (6.620%) rms = 1.5947/1.6178, sse=204482.8/206249.9, time step reduction 3 of 3 to 0.062 0 0 1 018: dt: 0.1250, sse=204482.8, rms=1.595 (1.432%) maximum number of reductions reached, breaking from loop positioning took 1.8 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7628 removing 2 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7939, nmarked2=10, nripped=7939 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8330080; border_low = 62.0000000; outside_low = 49.4822200; outside_hi = 107.8330080; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=1 had to be increased for 278 vertices, nripped=7939 mean border=78.6, 215 (58) missing vertices, mean dist -0.3 [0.6 (%64.2)->0.3 (%35.8))] %37 local maxima, %57 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1086 min Finding expansion regions mean absolute distance = 0.47 +- 0.89 4480 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=715016.6, rms=4.732 019: dt: 0.5000, sse=459878.2, rms=3.305 (30.153%) rms = 3.3505/3.3054, sse=464110.0/459878.2, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 020: dt: 0.2500, sse=366831.4, rms=2.623 (20.632%) 021: dt: 0.2500, sse=304921.9, rms=2.064 (21.308%) 022: dt: 0.2500, sse=279410.7, rms=1.750 (15.218%) 023: dt: 0.2500, sse=270382.9, rms=1.599 (8.648%) 024: dt: 0.2500, sse=264947.5, rms=1.504 (5.919%) 025: dt: 0.2500, sse=252992.3, rms=1.453 (3.405%) rms = 1.4292/1.4531, sse=251568.8/252992.3, time step reduction 2 of 3 to 0.125 0 0 1 026: dt: 0.2500, sse=251568.8, rms=1.429 (1.642%) 027: dt: 0.1250, sse=246944.8, rms=1.336 (6.512%) rms = 1.3193/1.3361, sse=247862.7/246944.8, time step reduction 3 of 3 to 0.062 0 1 1 028: dt: 0.1250, sse=247862.7, rms=1.319 (1.257%) maximum number of reductions reached, breaking from loop positioning took 1.0 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7939 removing 4 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8001, nmarked2=11, nripped=8001 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8330080; border_low = 62.0000000; outside_low = 49.4822200; outside_hi = 107.8330080; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 286 vertices, nripped=8001 mean border=81.5, 186 (34) missing vertices, mean dist -0.2 [0.4 (%68.2)->0.2 (%31.8))] %59 local maxima, %34 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0633 min Finding expansion regions mean absolute distance = 0.35 +- 0.52 3290 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=602048.9, rms=4.172 029: dt: 0.5000, sse=379502.4, rms=2.784 (33.265%) rms = 3.0608/2.7839, sse=414109.4/379502.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 030: dt: 0.2500, sse=283648.7, rms=1.915 (31.208%) 031: dt: 0.2500, sse=245945.5, rms=1.449 (24.329%) 032: dt: 0.2500, sse=244157.4, rms=1.315 (9.285%) rms = 1.2765/1.3146, sse=235155.4/244157.4, time step reduction 2 of 3 to 0.125 0 0 1 033: dt: 0.2500, sse=235155.4, rms=1.277 (2.899%) 034: dt: 0.1250, sse=231310.1, rms=1.171 (8.262%) rms = 1.1541/1.1710, sse=227290.2/231310.1, time step reduction 3 of 3 to 0.062 0 0 1 035: dt: 0.1250, sse=227290.2, rms=1.154 (1.443%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=8001 removing 2 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8002, nmarked2=10, nripped=8002 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8330080; border_low = 62.0000000; outside_low = 49.4822200; outside_hi = 107.8330080; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 266 vertices, nripped=8002 mean border=82.9, 255 (31) missing vertices, mean dist -0.1 [0.3 (%59.3)->0.2 (%40.7))] %70 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0430 min Finding expansion regions mean absolute distance = 0.27 +- 0.41 2880 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=302004.7, rms=2.186 rms = 2.2771/2.1863, sse=321757.6/302004.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 036: dt: 0.2500, sse=239832.5, rms=1.441 (34.080%) 037: dt: 0.2500, sse=219968.3, rms=0.937 (35.013%) rms = 0.9643/0.9366, sse=216136.4/219968.3, time step reduction 2 of 3 to 0.125 0 0 1 RMS increased, rejecting step rms = 0.9108/0.9366, sse=219497.6/219968.3, time step reduction 3 of 3 to 0.062 0 0 1 038: dt: 0.1250, sse=219497.6, rms=0.911 (2.754%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/rh.white.preaparc #ET# mris_place_surface 4.34 minutes #VMPC# mris_place_surfaces VmPeak 2085328 mris_place_surface done @#@FSTIME 2023:08:15:18:38:32 mris_place_surface N 18 e 267.80 S 0.85 U 266.91 P 99% M 1826860 F 0 R 479179 W 0 c 1729 w 2 I 0 O 8648 L 2.46 2.53 2.62 @#@FSLOADPOST 2023:08:15:18:43:00 mris_place_surface N 18 3.43 2.86 2.72 #-------------------------------------------- #@# CortexLabel lh Tue 15 Aug 18:43:00 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 0 ../label/lh.cortex.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 2 non-cortical segments detected only using segment with 9765 vertices erasing segment 1 (vno[0] = 73492) @#@FSTIME 2023:08:15:18:43:00 mri_label2label N 5 e 13.78 S 0.15 U 13.61 P 99% M 294536 F 0 R 88800 W 0 c 138 w 5 I 0 O 10224 L 3.43 2.86 2.72 @#@FSLOADPOST 2023:08:15:18:43:14 mri_label2label N 5 3.45 2.89 2.73 #-------------------------------------------- #@# CortexLabel+HipAmyg lh Tue 15 Aug 18:43:14 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 1 ../label/lh.cortex+hipamyg.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=1 NucAccIsMedialWall=0 mris->useRealRAS=0 3 non-cortical segments detected only using segment with 8220 vertices erasing segment 1 (vno[0] = 73492) erasing segment 2 (vno[0] = 74992) @#@FSTIME 2023:08:15:18:43:14 mri_label2label N 5 e 15.23 S 0.15 U 15.07 P 99% M 298992 F 0 R 89315 W 0 c 142 w 6 I 0 O 10360 L 3.45 2.89 2.73 @#@FSLOADPOST 2023:08:15:18:43:29 mri_label2label N 5 3.18 2.86 2.73 #-------------------------------------------- #@# CortexLabel rh Tue 15 Aug 18:43:29 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 0 ../label/rh.cortex.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 7 non-cortical segments detected only using segment with 9183 vertices erasing segment 0 (vno[0] = 18378) erasing segment 2 (vno[0] = 40956) erasing segment 3 (vno[0] = 72311) erasing segment 4 (vno[0] = 73097) erasing segment 5 (vno[0] = 73849) erasing segment 6 (vno[0] = 75240) @#@FSTIME 2023:08:15:18:43:29 mri_label2label N 5 e 15.46 S 0.20 U 15.24 P 99% M 311240 F 0 R 91707 W 0 c 122 w 5 I 0 O 9704 L 3.18 2.86 2.73 @#@FSLOADPOST 2023:08:15:18:43:45 mri_label2label N 5 3.07 2.85 2.73 #-------------------------------------------- #@# CortexLabel+HipAmyg rh Tue 15 Aug 18:43:45 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 1 ../label/rh.cortex+hipamyg.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=1 NucAccIsMedialWall=0 mris->useRealRAS=0 7 non-cortical segments detected only using segment with 7799 vertices erasing segment 0 (vno[0] = 18378) erasing segment 2 (vno[0] = 40956) erasing segment 3 (vno[0] = 72311) erasing segment 4 (vno[0] = 73097) erasing segment 5 (vno[0] = 73849) erasing segment 6 (vno[0] = 75240) @#@FSTIME 2023:08:15:18:43:45 mri_label2label N 5 e 17.95 S 0.16 U 17.77 P 99% M 311212 F 0 R 91727 W 0 c 167 w 5 I 0 O 9824 L 3.07 2.85 2.73 @#@FSLOADPOST 2023:08:15:18:44:03 mri_label2label N 5 2.83 2.81 2.71 #-------------------------------------------- #@# Smooth2 lh Tue 15 Aug 18:44:03 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:08:15:18:44:03 mris_smooth N 7 e 3.95 S 0.15 U 3.78 P 99% M 195628 F 0 R 58880 W 0 c 49 w 5 I 0 O 8944 L 2.83 2.81 2.71 @#@FSLOADPOST 2023:08:15:18:44:07 mris_smooth N 7 3.24 2.90 2.74 #-------------------------------------------- #@# Smooth2 rh Tue 15 Aug 18:44:07 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:08:15:18:44:07 mris_smooth N 7 e 4.17 S 0.15 U 4.00 P 99% M 189376 F 0 R 56964 W 0 c 61 w 5 I 0 O 8656 L 3.24 2.90 2.74 @#@FSLOADPOST 2023:08:15:18:44:11 mris_smooth N 7 3.14 2.88 2.74 #-------------------------------------------- #@# Inflation2 lh Tue 15 Aug 18:44:11 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_inflate ../surf/lh.smoothwm ../surf/lh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ../surf/lh.smoothwm avg radius = 47.6 mm, total surface area = 79063 mm^2 step 000: RMS=0.168 (target=0.015) step 005: RMS=0.114 (target=0.015) step 010: RMS=0.086 (target=0.015) step 015: RMS=0.071 (target=0.015) step 020: RMS=0.058 (target=0.015) step 025: RMS=0.048 (target=0.015) step 030: RMS=0.040 (target=0.015) step 035: RMS=0.033 (target=0.015) step 040: RMS=0.028 (target=0.015) step 045: RMS=0.025 (target=0.015) step 050: RMS=0.022 (target=0.015) step 055: RMS=0.020 (target=0.015) step 060: RMS=0.019 (target=0.015) writing inflated surface to ../surf/lh.inflated writing sulcal depths to ../surf/lh.sulc inflation complete. inflation took 0.4 minutes mris_inflate utimesec 21.068171 mris_inflate stimesec 0.091983 mris_inflate ru_maxrss 196712 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 52576 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 9944 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 1 mris_inflate ru_nivcsw 72 @#@FSTIME 2023:08:15:18:44:11 mris_inflate N 2 e 21.17 S 0.10 U 21.06 P 99% M 197208 F 0 R 52579 W 0 c 72 w 2 I 0 O 9944 L 3.14 2.88 2.74 @#@FSLOADPOST 2023:08:15:18:44:32 mris_inflate N 2 3.15 2.90 2.75 #-------------------------------------------- #@# Inflation2 rh Tue 15 Aug 18:44:32 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_inflate ../surf/rh.smoothwm ../surf/rh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ../surf/rh.smoothwm avg radius = 46.4 mm, total surface area = 77966 mm^2 step 000: RMS=0.173 (target=0.015) step 005: RMS=0.117 (target=0.015) step 010: RMS=0.088 (target=0.015) step 015: RMS=0.073 (target=0.015) step 020: RMS=0.060 (target=0.015) step 025: RMS=0.050 (target=0.015) step 030: RMS=0.041 (target=0.015) step 035: RMS=0.035 (target=0.015) step 040: RMS=0.031 (target=0.015) step 045: RMS=0.027 (target=0.015) step 050: RMS=0.024 (target=0.015) step 055: RMS=0.023 (target=0.015) step 060: RMS=0.022 (target=0.015) writing inflated surface to ../surf/rh.inflated writing sulcal depths to ../surf/rh.sulc inflation complete. inflation took 0.3 minutes mris_inflate utimesec 19.865708 mris_inflate stimesec 0.083990 mris_inflate ru_maxrss 190844 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 50892 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 9624 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 2 mris_inflate ru_nivcsw 82 @#@FSTIME 2023:08:15:18:44:32 mris_inflate N 2 e 19.96 S 0.09 U 19.86 P 99% M 191148 F 0 R 50895 W 0 c 82 w 3 I 0 O 9624 L 3.15 2.90 2.75 @#@FSLOADPOST 2023:08:15:18:44:52 mris_inflate N 2 2.97 2.88 2.74 #-------------------------------------------- #@# Curv .H and .K lh Tue 15 Aug 18:44:52 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature -w -seed 1234 lh.white.preaparc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 total integrated curvature = 14.276*4pi (179.401) --> -13 handles ICI = 146.7, FI = 1360.5, variation=21853.108 writing Gaussian curvature to ./lh.white.preaparc.K...done. writing mean curvature to ./lh.white.preaparc.H...done. @#@FSTIME 2023:08:15:18:44:52 mris_curvature N 4 e 1.64 S 0.07 U 1.56 P 99% M 146052 F 0 R 39786 W 0 c 9 w 1 I 0 O 2000 L 2.97 2.88 2.74 @#@FSLOADPOST 2023:08:15:18:44:54 mris_curvature N 4 2.97 2.88 2.74 rm -f lh.white.H ln -s lh.white.preaparc.H lh.white.H rm -f lh.white.K ln -s lh.white.preaparc.K lh.white.K mris_curvature -seed 1234 -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 144 vertices thresholded to be in k1 ~ [-0.42 0.73], k2 ~ [-0.11 0.11] total integrated curvature = 0.538*4pi (6.766) --> 0 handles ICI = 1.4, FI = 8.3, variation=146.595 112 vertices thresholded to be in [-0.03 0.02] writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 120 vertices thresholded to be in [-0.18 0.30] done. writing mean curvature to ./lh.inflated.H...curvature mean = -0.017, std = 0.022 done. @#@FSTIME 2023:08:15:18:44:54 mris_curvature N 12 e 45.02 S 0.25 U 44.75 P 99% M 344408 F 0 R 89544 W 0 c 183 w 1 I 0 O 2000 L 2.97 2.88 2.74 @#@FSLOADPOST 2023:08:15:18:45:39 mris_curvature N 12 2.78 2.85 2.74 #-------------------------------------------- #@# Curv .H and .K rh Tue 15 Aug 18:45:39 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature -w -seed 1234 rh.white.preaparc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 total integrated curvature = 18.179*4pi (228.441) --> -17 handles ICI = 149.9, FI = 1395.6, variation=22324.166 writing Gaussian curvature to ./rh.white.preaparc.K...done. writing mean curvature to ./rh.white.preaparc.H...done. @#@FSTIME 2023:08:15:18:45:39 mris_curvature N 4 e 1.53 S 0.10 U 1.43 P 100% M 141580 F 0 R 38508 W 0 c 7 w 1 I 0 O 1936 L 2.78 2.85 2.74 @#@FSLOADPOST 2023:08:15:18:45:40 mris_curvature N 4 2.80 2.85 2.74 rm -f rh.white.H ln -s rh.white.preaparc.H rh.white.H rm -f rh.white.K ln -s rh.white.preaparc.K rh.white.K mris_curvature -seed 1234 -thresh .999 -n -a 5 -w -distances 10 10 rh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 136 vertices thresholded to be in k1 ~ [-0.42 1.49], k2 ~ [-0.15 0.32] total integrated curvature = 0.580*4pi (7.292) --> 0 handles ICI = 1.5, FI = 8.0, variation=142.131 130 vertices thresholded to be in [-0.12 0.01] writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.003 92 vertices thresholded to be in [-0.14 0.49] done. writing mean curvature to ./rh.inflated.H...curvature mean = -0.017, std = 0.022 done. @#@FSTIME 2023:08:15:18:45:40 mris_curvature N 12 e 44.61 S 0.25 U 44.35 P 99% M 333676 F 0 R 86671 W 0 c 301 w 1 I 0 O 1936 L 2.80 2.85 2.74 @#@FSLOADPOST 2023:08:15:18:46:25 mris_curvature N 12 2.83 2.84 2.74 #-------------------------------------------- #@# Sphere lh Tue 15 Aug 18:46:25 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_sphere -seed 1234 ../surf/lh.inflated ../surf/lh.sphere /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 version: 7.3.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.318... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 1234 singular matrix in quadratic form singular matrix in quadratic form singular matrix in quadratic form -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %19.65 pass 1: epoch 2 of 3 starting distance error %19.64 unfolding complete - removing small folds... starting distance error %19.58 removing remaining folds... final distance error %19.58 MRISunfold() return, current seed 1234 -01: dt=0.0000, 188 negative triangles VmPeak 520672 114: dt=0.9900, 188 negative triangles 115: dt=0.9900, 94 negative triangles 116: dt=0.9900, 74 negative triangles 117: dt=0.9900, 65 negative triangles 118: dt=0.9900, 62 negative triangles 119: dt=0.9900, 59 negative triangles 120: dt=0.9900, 50 negative triangles 121: dt=0.9900, 54 negative triangles 122: dt=0.9900, 47 negative triangles 123: dt=0.9900, 50 negative triangles 124: dt=0.9900, 43 negative triangles 125: dt=0.9900, 44 negative triangles 126: dt=0.9900, 41 negative triangles 127: dt=0.9900, 38 negative triangles 128: dt=0.9900, 40 negative triangles 129: dt=0.9900, 39 negative triangles 130: dt=0.9900, 27 negative triangles 131: dt=0.9900, 26 negative triangles 132: dt=0.9900, 22 negative triangles 133: dt=0.9900, 27 negative triangles 134: dt=0.9900, 26 negative triangles 135: dt=0.9900, 21 negative triangles 136: dt=0.9900, 16 negative triangles 137: dt=0.9900, 12 negative triangles 138: dt=0.9900, 10 negative triangles 139: dt=0.9900, 8 negative triangles 140: dt=0.9900, 8 negative triangles 141: dt=0.9900, 10 negative triangles 142: dt=0.9900, 7 negative triangles 143: dt=0.9900, 5 negative triangles 144: dt=0.9900, 4 negative triangles 145: dt=0.9900, 2 negative triangles 146: dt=0.9900, 4 negative triangles 147: dt=0.9900, 2 negative triangles 148: dt=0.9900, 1 negative triangles 149: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/lh.sphere spherical transformation took 0.1425 hours FSRUNTIME@ mris_sphere 0.1425 hours 1 threads #VMPC# mris_sphere VmPeak 520672 mris_sphere done @#@FSTIME 2023:08:15:18:46:25 mris_sphere N 4 e 513.13 S 14.28 U 498.72 P 99% M 261724 F 0 R 8349844 W 0 c 4151 w 5 I 0 O 8944 L 2.83 2.84 2.74 @#@FSLOADPOST 2023:08:15:18:54:58 mris_sphere N 4 2.77 2.92 2.83 #-------------------------------------------- #@# Sphere rh Tue 15 Aug 18:54:58 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_sphere -seed 1234 ../surf/rh.inflated ../surf/rh.sphere /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 version: 7.3.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.321... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 1234 -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %20.33 pass 1: epoch 2 of 3 starting distance error %20.29 unfolding complete - removing small folds... starting distance error %20.22 removing remaining folds... final distance error %20.25 MRISunfold() return, current seed 1234 -01: dt=0.0000, 30 negative triangles VmPeak 512468 176: dt=0.9900, 30 negative triangles 177: dt=0.9900, 11 negative triangles 178: dt=0.9900, 9 negative triangles 179: dt=0.9900, 9 negative triangles 180: dt=0.9900, 7 negative triangles 181: dt=0.9900, 8 negative triangles 182: dt=0.9900, 7 negative triangles 183: dt=0.9900, 6 negative triangles 184: dt=0.9900, 5 negative triangles 185: dt=0.9900, 5 negative triangles 186: dt=0.9900, 4 negative triangles 187: dt=0.9900, 4 negative triangles 188: dt=0.9900, 4 negative triangles 189: dt=0.9900, 4 negative triangles 190: dt=0.9900, 3 negative triangles 191: dt=0.9900, 3 negative triangles 192: dt=0.9900, 3 negative triangles 193: dt=0.9900, 2 negative triangles 194: dt=0.9900, 2 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 0.1666 hours FSRUNTIME@ mris_sphere 0.1666 hours 1 threads #VMPC# mris_sphere VmPeak 512468 mris_sphere done @#@FSTIME 2023:08:15:18:54:58 mris_sphere N 4 e 599.80 S 20.22 U 579.43 P 99% M 253708 F 0 R 12319412 W 0 c 4830 w 5 I 0 O 8656 L 2.77 2.92 2.83 @#@FSLOADPOST 2023:08:15:19:04:58 mris_sphere N 4 2.52 2.82 2.83 #-------------------------------------------- #@# Surf Reg lh Tue 15 Aug 19:04:58 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_register -curv ../surf/lh.sphere /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) using smoothwm curvature for final alignment cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts cmdline mris_register -curv ../surf/lh.sphere /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.3.1 7.3.1 reading surface from ../surf/lh.sphere... reading template parameterization from /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height -1.000000 momentum 0.950000 nbhd_size -10 max_nbrs 10 niterations 25 nsurfaces 0 SURFACES 3 flags 16 (10) use curv 16 no sulc 0 no rigid align 0 mris->nsize 1 mris->hemisphere 0 randomSeed 0 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization -------------------- 1 Reading lh.sulc tol=1.0e+00, sigma=0.5, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000 using quadratic fit line minimization curvature mean = 0.000, std = 5.477 curvature mean = 0.035, std = 0.820 curvature mean = 0.016, std = 0.870 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (7.50, 1.00, -9.50) sse = 168602.3, elapsed since starting=0.4102 min MRISrigidBodyAlignGlobal() done 0.41 min curvature mean = 0.007, std = 0.846 curvature mean = 0.008, std = 0.952 curvature mean = 0.004, std = 0.857 curvature mean = 0.003, std = 0.981 curvature mean = 0.003, std = 0.860 curvature mean = 0.001, std = 0.993 2 Reading smoothwm curvature mean = -0.022, std = 0.266 curvature mean = 0.039, std = 0.251 curvature mean = 0.070, std = 0.361 curvature mean = 0.036, std = 0.310 curvature mean = 0.034, std = 0.564 curvature mean = 0.035, std = 0.338 curvature mean = 0.018, std = 0.706 curvature mean = 0.034, std = 0.350 curvature mean = 0.005, std = 0.815 MRISregister() return, current seed 0 -01: dt=0.0000, 6 negative triangles VmPeak 506632 096: dt=0.9900, 6 negative triangles 097: dt=0.9900, 3 negative triangles writing registered surface to ../surf/lh.sphere.reg... registration took 0.11 hours #VMPC# mris_register VmPeak 506632 FSRUNTIME@ mris_register 0.1068 hours 1 threads @#@FSTIME 2023:08:15:19:04:58 mris_register N 4 e 384.45 S 10.50 U 373.89 P 99% M 248204 F 0 R 6557306 W 0 c 2068 w 2 I 0 O 8944 L 2.52 2.82 2.83 @#@FSLOADPOST 2023:08:15:19:11:23 mris_register N 4 3.82 3.23 2.97 ln -sf lh.sphere.reg lh.fsaverage.sphere.reg #-------------------------------------------- #@# Surf Reg rh Tue 15 Aug 19:11:23 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_register -curv ../surf/rh.sphere /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) using smoothwm curvature for final alignment cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts cmdline mris_register -curv ../surf/rh.sphere /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.3.1 7.3.1 reading surface from ../surf/rh.sphere... reading template parameterization from /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height -1.000000 momentum 0.950000 nbhd_size -10 max_nbrs 10 niterations 25 nsurfaces 0 SURFACES 3 flags 16 (10) use curv 16 no sulc 0 no rigid align 0 mris->nsize 1 mris->hemisphere 1 randomSeed 0 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization -------------------- 1 Reading rh.sulc tol=1.0e+00, sigma=0.5, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000 using quadratic fit line minimization curvature mean = 0.000, std = 5.434 curvature mean = 0.029, std = 0.811 curvature mean = 0.010, std = 0.872 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (11.00, -1.50, -4.00) sse = 175118.2, elapsed since starting=0.4157 min MRISrigidBodyAlignGlobal() done 0.42 min curvature mean = 0.011, std = 0.827 curvature mean = 0.004, std = 0.952 curvature mean = 0.007, std = 0.837 curvature mean = 0.002, std = 0.981 curvature mean = 0.006, std = 0.840 curvature mean = 0.000, std = 0.993 2 Reading smoothwm curvature mean = -0.019, std = 0.267 curvature mean = 0.035, std = 0.242 curvature mean = 0.053, std = 0.375 curvature mean = 0.033, std = 0.301 curvature mean = 0.030, std = 0.567 curvature mean = 0.032, std = 0.329 curvature mean = 0.015, std = 0.706 curvature mean = 0.031, std = 0.341 curvature mean = 0.004, std = 0.813 MRISregister() return, current seed 0 -01: dt=0.0000, 39 negative triangles VmPeak 501884 108: dt=0.9900, 39 negative triangles 109: dt=0.9900, 38 negative triangles 110: dt=0.9900, 40 negative triangles 111: dt=0.9900, 45 negative triangles 112: dt=0.9900, 43 negative triangles 113: dt=0.9900, 36 negative triangles 114: dt=0.9900, 31 negative triangles 115: dt=0.9900, 39 negative triangles 116: dt=0.9900, 34 negative triangles 117: dt=0.9900, 32 negative triangles 118: dt=0.9900, 25 negative triangles 119: dt=0.9900, 33 negative triangles 120: dt=0.9900, 28 negative triangles 121: dt=0.9900, 27 negative triangles 122: dt=0.9900, 27 negative triangles 123: dt=0.9900, 26 negative triangles 124: dt=0.9900, 29 negative triangles 125: dt=0.9900, 25 negative triangles 126: dt=0.9900, 20 negative triangles 127: dt=0.9900, 19 negative triangles 128: dt=0.9900, 18 negative triangles 129: dt=0.9900, 22 negative triangles 130: dt=0.9900, 20 negative triangles 131: dt=0.9900, 17 negative triangles 132: dt=0.9900, 17 negative triangles 133: dt=0.9900, 17 negative triangles 134: dt=0.9900, 15 negative triangles 135: dt=0.9900, 19 negative triangles 136: dt=0.9900, 16 negative triangles 137: dt=0.9900, 16 negative triangles 138: dt=0.9900, 13 negative triangles 139: dt=0.9900, 14 negative triangles 140: dt=0.9900, 10 negative triangles 141: dt=0.9900, 15 negative triangles 142: dt=0.9900, 11 negative triangles 143: dt=0.9900, 13 negative triangles 144: dt=0.9900, 11 negative triangles 145: dt=0.9900, 11 negative triangles 146: dt=0.9900, 11 negative triangles 147: dt=0.9900, 10 negative triangles 148: dt=0.9900, 12 negative triangles 149: dt=0.9900, 13 negative triangles 150: dt=0.9900, 9 negative triangles 151: dt=0.9900, 9 negative triangles 152: dt=0.9900, 9 negative triangles 153: dt=0.9900, 6 negative triangles 154: dt=0.9900, 10 negative triangles 155: dt=0.9900, 8 negative triangles 156: dt=0.9900, 3 negative triangles 157: dt=0.9900, 6 negative triangles 158: dt=0.9900, 3 negative triangles 159: dt=0.9900, 2 negative triangles 160: dt=0.9900, 4 negative triangles 161: dt=0.9900, 4 negative triangles writing registered surface to ../surf/rh.sphere.reg... registration took 0.13 hours #VMPC# mris_register VmPeak 501884 FSRUNTIME@ mris_register 0.1288 hours 1 threads @#@FSTIME 2023:08:15:19:11:23 mris_register N 4 e 463.67 S 13.71 U 449.88 P 99% M 243536 F 0 R 7540064 W 0 c 2451 w 5 I 0 O 8656 L 3.82 3.23 2.97 @#@FSLOADPOST 2023:08:15:19:19:06 mris_register N 4 3.22 3.26 3.08 ln -sf rh.sphere.reg rh.fsaverage.sphere.reg #-------------------------------------------- #@# Jacobian white lh Tue 15 Aug 19:19:06 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading surface from ../surf/lh.white.preaparc... writing curvature file ../surf/lh.jacobian_white @#@FSTIME 2023:08:15:19:19:06 mris_jacobian N 3 e 1.15 S 0.13 U 1.02 P 99% M 195256 F 0 R 58831 W 0 c 8 w 0 I 0 O 1000 L 3.22 3.26 3.08 @#@FSLOADPOST 2023:08:15:19:19:08 mris_jacobian N 3 3.22 3.26 3.08 #-------------------------------------------- #@# Jacobian white rh Tue 15 Aug 19:19:08 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading surface from ../surf/rh.white.preaparc... writing curvature file ../surf/rh.jacobian_white @#@FSTIME 2023:08:15:19:19:08 mris_jacobian N 3 e 1.17 S 0.09 U 1.07 P 99% M 189172 F 0 R 56949 W 0 c 5 w 1 I 0 O 968 L 3.22 3.26 3.08 @#@FSLOADPOST 2023:08:15:19:19:09 mris_jacobian N 3 3.22 3.26 3.08 #-------------------------------------------- #@# AvgCurv lh Tue 15 Aug 19:19:09 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mrisp_paint -a 5 /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) averaging curvature patterns 5 times... reading surface from ../surf/lh.sphere.reg... reading template parameterization from /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/lh.avg_curv... @#@FSTIME 2023:08:15:19:19:09 mrisp_paint N 5 e 0.89 S 0.07 U 0.81 P 99% M 150804 F 0 R 41045 W 0 c 5 w 1 I 0 O 1000 L 3.22 3.26 3.08 @#@FSLOADPOST 2023:08:15:19:19:10 mrisp_paint N 5 3.22 3.26 3.08 #-------------------------------------------- #@# AvgCurv rh Tue 15 Aug 19:19:10 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mrisp_paint -a 5 /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) averaging curvature patterns 5 times... reading surface from ../surf/rh.sphere.reg... reading template parameterization from /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/rh.avg_curv... @#@FSTIME 2023:08:15:19:19:10 mrisp_paint N 5 e 0.93 S 0.08 U 0.84 P 100% M 146212 F 0 R 39769 W 0 c 4 w 1 I 0 O 968 L 3.22 3.26 3.08 @#@FSLOADPOST 2023:08:15:19:19:11 mrisp_paint N 5 3.22 3.26 3.08 #----------------------------------------- #@# Cortical Parc lh Tue 15 Aug 19:19:11 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL lh ../surf/lh.sphere.reg /home/rosalia/software/freesurfer/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.8 using min determinant for regularization = 0.006 0 singular and 342 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1405 labels changed using aseg relabeling using gibbs priors... 000: 2894 changed, 127061 examined... 001: 698 changed, 12211 examined... 002: 166 changed, 3954 examined... 003: 56 changed, 1015 examined... 004: 12 changed, 340 examined... 005: 6 changed, 77 examined... 006: 1 changed, 42 examined... 007: 1 changed, 7 examined... 008: 0 changed, 6 examined... 276 labels changed using aseg 000: 122 total segments, 75 labels (242 vertices) changed 001: 47 total segments, 3 labels (6 vertices) changed 002: 44 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 7 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1776 vertices marked for relabeling... 1776 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 12 seconds. @#@FSTIME 2023:08:15:19:19:11 mris_ca_label N 11 e 11.69 S 0.66 U 11.02 P 99% M 1203244 F 0 R 427570 W 0 c 49 w 1 I 0 O 1992 L 3.22 3.26 3.08 @#@FSLOADPOST 2023:08:15:19:19:22 mris_ca_label N 11 3.24 3.26 3.09 #----------------------------------------- #@# Cortical Parc rh Tue 15 Aug 19:19:22 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL rh ../surf/rh.sphere.reg /home/rosalia/software/freesurfer/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.7 using min determinant for regularization = 0.004 0 singular and 309 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1248 labels changed using aseg relabeling using gibbs priors... 000: 2614 changed, 122963 examined... 001: 547 changed, 11341 examined... 002: 115 changed, 3197 examined... 003: 47 changed, 735 examined... 004: 17 changed, 271 examined... 005: 4 changed, 108 examined... 006: 1 changed, 27 examined... 007: 1 changed, 7 examined... 008: 1 changed, 7 examined... 009: 1 changed, 8 examined... 010: 1 changed, 7 examined... 011: 0 changed, 7 examined... 236 labels changed using aseg 000: 90 total segments, 46 labels (132 vertices) changed 001: 45 total segments, 1 labels (1 vertices) changed 002: 44 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 3 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1689 vertices marked for relabeling... 1689 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 11 seconds. @#@FSTIME 2023:08:15:19:19:22 mris_ca_label N 11 e 11.14 S 0.77 U 10.36 P 99% M 1040872 F 0 R 381334 W 0 c 53 w 1 I 0 O 1928 L 3.24 3.26 3.09 @#@FSLOADPOST 2023:08:15:19:19:34 mris_ca_label N 11 3.35 3.28 3.10 #-------------------------------------------- #@# WhiteSurfs lh Tue 15 Aug 19:19:34 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white.preaparc --o ../surf/lh.white --white --nsmooth 0 --rip-label ../label/lh.cortex.label --rip-bg --rip-surf ../surf/lh.white.preaparc --aparc ../label/lh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white.preaparc --o ../surf/lh.white --white --nsmooth 0 --rip-label ../label/lh.cortex.label --rip-bg --rip-surf ../surf/lh.white.preaparc --aparc ../label/lh.aparc.annot Reading in input surface ../surf/lh.white.preaparc Not smoothing input surface Area 254118 0.34276 0.13679 0.000849 2.2007 Corner 762354 60.00000 15.99958 0.131914 178.7173 Edge 381177 0.90385 0.22447 0.019251 3.6602 Hinge 381177 11.18259 13.02780 0.000012 179.8964 Reading in aparc ../label/lh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21715, wmmin=5, clip=110 MRIfindBrightNonWM(): 1504 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex.label MRISripNotLabel() ripped 9976/127061 vertices (117085 unripped) Reading in ripping surface ../surf/lh.white.preaparc Reading in aparc ../label/lh.aparc.annot for ripsurf Ripping BG MRISripBasalGanglia(): 1 -2 2 0.5 ripped 460 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 63531: xyz = (-62.5987,-9.00488,11.9379) oxyz = (-62.5987,-9.00488,11.9379) wxzy = (-62.5987,-9.00488,11.9379) pxyz = (0,0,0) CBVO Creating mask 127061 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8330080; border_low = 64.0000000; outside_low = 51.4822200; outside_hi = 105.8330080; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=2 had to be increased for 154 vertices, nripped=10436 mean border=77.7, 279 (279) missing vertices, mean dist 0.3 [1.8 (%16.3)->0.6 (%83.7))] %19 local maxima, %72 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1411 min Finding expansion regions mean absolute distance = 0.83 +- 1.16 4524 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=1712692.0, rms=8.077 001: dt: 0.5000, sse=759590.8, rms=4.950 (38.720%) 002: dt: 0.5000, sse=508157.7, rms=3.718 (24.897%) 003: dt: 0.5000, sse=460597.5, rms=3.445 (7.322%) 004: dt: 0.5000, sse=435502.3, rms=3.255 (5.520%) rms = 3.3387/3.2551, sse=446958.8/435502.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 005: dt: 0.2500, sse=306252.1, rms=2.261 (30.549%) 006: dt: 0.2500, sse=263673.6, rms=1.785 (21.033%) 007: dt: 0.2500, sse=248117.9, rms=1.608 (9.900%) rms = 1.5665/1.6085, sse=246233.5/248117.9, time step reduction 2 of 3 to 0.125 0 0 1 008: dt: 0.2500, sse=246233.5, rms=1.566 (2.611%) 009: dt: 0.1250, sse=241437.6, rms=1.484 (5.249%) rms = 1.4635/1.4843, sse=239828.7/241437.6, time step reduction 3 of 3 to 0.062 0 0 1 010: dt: 0.1250, sse=239828.7, rms=1.463 (1.400%) maximum number of reductions reached, breaking from loop positioning took 1.2 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8330080; border_low = 64.0000000; outside_low = 51.4822200; outside_hi = 105.8330080; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=1 had to be increased for 146 vertices, nripped=10436 mean border=79.8, 155 (97) missing vertices, mean dist -0.2 [0.6 (%58.8)->0.3 (%41.2))] %33 local maxima, %59 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1338 min Finding expansion regions mean absolute distance = 0.44 +- 0.83 4114 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=547216.9, rms=3.850 011: dt: 0.5000, sse=388314.8, rms=2.799 (27.300%) rms = 2.9048/2.7991, sse=396217.6/388314.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 012: dt: 0.2500, sse=314618.7, rms=2.188 (21.836%) 013: dt: 0.2500, sse=271305.4, rms=1.711 (21.786%) 014: dt: 0.2500, sse=254820.9, rms=1.504 (12.122%) 015: dt: 0.2500, sse=247480.6, rms=1.393 (7.363%) rms = 1.3631/1.3931, sse=246100.7/247480.6, time step reduction 2 of 3 to 0.125 0 0 1 016: dt: 0.2500, sse=246100.7, rms=1.363 (2.152%) 017: dt: 0.1250, sse=241252.3, rms=1.273 (6.640%) rms = 1.2574/1.2726, sse=239579.7/241252.3, time step reduction 3 of 3 to 0.062 0 0 1 018: dt: 0.1250, sse=239579.7, rms=1.257 (1.192%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8330080; border_low = 64.0000000; outside_low = 51.4822200; outside_hi = 105.8330080; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 174 vertices, nripped=10436 mean border=82.7, 136 (76) missing vertices, mean dist -0.2 [0.4 (%69.1)->0.2 (%30.9))] %57 local maxima, %34 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0889 min Finding expansion regions mean absolute distance = 0.35 +- 0.52 3404 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=600099.9, rms=4.153 019: dt: 0.5000, sse=377581.6, rms=2.728 (34.323%) rms = 2.9289/2.7279, sse=411327.7/377581.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 020: dt: 0.2500, sse=288455.2, rms=1.926 (29.380%) 021: dt: 0.2500, sse=255815.2, rms=1.439 (25.318%) 022: dt: 0.2500, sse=245330.6, rms=1.293 (10.094%) rms = 1.2485/1.2935, sse=244934.6/245330.6, time step reduction 2 of 3 to 0.125 0 0 1 023: dt: 0.2500, sse=244934.6, rms=1.249 (3.477%) 024: dt: 0.1250, sse=237884.7, rms=1.133 (9.250%) rms = 1.1052/1.1330, sse=236132.2/237884.7, time step reduction 3 of 3 to 0.062 0 0 1 025: dt: 0.1250, sse=236132.2, rms=1.105 (2.455%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 105.8330080; border_low = 64.0000000; outside_low = 51.4822200; outside_hi = 105.8330080; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 249 vertices, nripped=10436 mean border=84.1, 194 (69) missing vertices, mean dist -0.1 [0.3 (%60.3)->0.2 (%39.7))] %68 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0547 min Finding expansion regions mean absolute distance = 0.27 +- 0.39 2598 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=308861.8, rms=2.135 rms = 2.1989/2.1345, sse=327763.2/308861.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 026: dt: 0.2500, sse=250391.1, rms=1.430 (33.010%) 027: dt: 0.2500, sse=227272.6, rms=0.950 (33.590%) rms = 0.9806/0.9496, sse=229627.4/227272.6, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 0.9190/0.9496, sse=224630.8/227272.6, time step reduction 3 of 3 to 0.062 0 0 1 028: dt: 0.1250, sse=224630.8, rms=0.919 (3.228%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/lh.white #ET# mris_place_surface 3.61 minutes #VMPC# mris_place_surfaces VmPeak 1987876 mris_place_surface done @#@FSTIME 2023:08:15:19:19:34 mris_place_surface N 25 e 225.38 S 0.75 U 224.58 P 99% M 1729400 F 0 R 469902 W 0 c 1147 w 4 I 0 O 8936 L 3.35 3.28 3.10 @#@FSLOADPOST 2023:08:15:19:23:19 mris_place_surface N 25 3.18 3.31 3.16 #-------------------------------------------- #@# WhiteSurfs rh Tue 15 Aug 19:23:19 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white.preaparc --o ../surf/rh.white --white --nsmooth 0 --rip-label ../label/rh.cortex.label --rip-bg --rip-surf ../surf/rh.white.preaparc --aparc ../label/rh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white.preaparc --o ../surf/rh.white --white --nsmooth 0 --rip-label ../label/rh.cortex.label --rip-bg --rip-surf ../surf/rh.white.preaparc --aparc ../label/rh.aparc.annot Reading in input surface ../surf/rh.white.preaparc Not smoothing input surface Area 245922 0.35102 0.14507 0.000055 2.4731 Corner 737766 60.00000 16.06310 0.069205 179.0165 Edge 368883 0.91541 0.23734 0.020031 4.1599 Hinge 368883 11.19256 13.07424 0.000032 179.9597 Reading in aparc ../label/rh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21715, wmmin=5, clip=110 MRIfindBrightNonWM(): 1504 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex.label MRISripNotLabel() ripped 9402/122963 vertices (113561 unripped) Reading in ripping surface ../surf/rh.white.preaparc Reading in aparc ../label/rh.aparc.annot for ripsurf Ripping BG MRISripBasalGanglia(): 1 -2 2 0.5 ripped 481 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 61482: xyz = (19.8147,-3.80007,-19.3223) oxyz = (19.8147,-3.80007,-19.3223) wxzy = (19.8147,-3.80007,-19.3223) pxyz = (0,0,0) CBVO Creating mask 122963 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8330080; border_low = 62.0000000; outside_low = 49.4822200; outside_hi = 107.8330080; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=2 had to be increased for 203 vertices, nripped=9883 mean border=76.1, 256 (256) missing vertices, mean dist 0.3 [1.9 (%15.8)->0.7 (%84.2))] %22 local maxima, %70 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1871 min Finding expansion regions mean absolute distance = 0.85 +- 1.20 4289 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=1797364.5, rms=8.443 001: dt: 0.5000, sse=781574.1, rms=5.134 (39.195%) 002: dt: 0.5000, sse=522674.5, rms=3.857 (24.869%) 003: dt: 0.5000, sse=471313.5, rms=3.539 (8.246%) 004: dt: 0.5000, sse=436534.5, rms=3.330 (5.908%) rms = 3.3872/3.3300, sse=450403.5/436534.5, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 005: dt: 0.2500, sse=308752.9, rms=2.324 (30.202%) 006: dt: 0.2500, sse=264031.3, rms=1.811 (22.101%) 007: dt: 0.2500, sse=253747.3, rms=1.645 (9.120%) rms = 1.6046/1.6454, sse=248115.4/253747.3, time step reduction 2 of 3 to 0.125 0 0 1 008: dt: 0.2500, sse=248115.4, rms=1.605 (2.483%) 009: dt: 0.1250, sse=242619.1, rms=1.527 (4.833%) rms = 1.5122/1.5271, sse=242606.9/242619.1, time step reduction 3 of 3 to 0.062 0 0 1 010: dt: 0.1250, sse=242606.9, rms=1.512 (0.972%) maximum number of reductions reached, breaking from loop positioning took 1.0 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8330080; border_low = 62.0000000; outside_low = 49.4822200; outside_hi = 107.8330080; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=1 had to be increased for 215 vertices, nripped=9883 mean border=78.4, 206 (97) missing vertices, mean dist -0.3 [0.6 (%59.5)->0.3 (%40.5))] %35 local maxima, %56 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1376 min Finding expansion regions mean absolute distance = 0.46 +- 0.89 4388 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=599374.0, rms=4.185 011: dt: 0.5000, sse=404647.2, rms=2.938 (29.812%) rms = 3.0165/2.9375, sse=405440.4/404647.2, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 012: dt: 0.2500, sse=323235.5, rms=2.286 (22.188%) 013: dt: 0.2500, sse=270398.7, rms=1.744 (23.706%) 014: dt: 0.2500, sse=252052.8, rms=1.476 (15.368%) rms = 1.3653/1.4759, sse=259878.8/252052.8, time step reduction 2 of 3 to 0.125 0 1 0 015: dt: 0.2500, sse=259878.8, rms=1.365 (7.493%) 016: dt: 0.1250, sse=239762.6, rms=1.278 (6.364%) rms = 1.2549/1.2784, sse=238170.1/239762.6, time step reduction 3 of 3 to 0.062 0 0 1 017: dt: 0.1250, sse=238170.1, rms=1.255 (1.842%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8330080; border_low = 62.0000000; outside_low = 49.4822200; outside_hi = 107.8330080; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 204 vertices, nripped=9883 mean border=81.3, 187 (59) missing vertices, mean dist -0.2 [0.4 (%68.4)->0.2 (%31.6))] %59 local maxima, %33 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0649 min Finding expansion regions mean absolute distance = 0.36 +- 0.53 3407 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=597981.1, rms=4.210 018: dt: 0.5000, sse=370878.7, rms=2.743 (34.843%) rms = 3.0131/2.7428, sse=403596.2/370878.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 019: dt: 0.2500, sse=280457.6, rms=1.892 (31.005%) 020: dt: 0.2500, sse=243543.6, rms=1.395 (26.271%) 021: dt: 0.2500, sse=233699.8, rms=1.249 (10.502%) rms = 1.2084/1.2487, sse=230890.8/233699.8, time step reduction 2 of 3 to 0.125 0 0 1 022: dt: 0.2500, sse=230890.8, rms=1.208 (3.231%) 023: dt: 0.1250, sse=226518.6, rms=1.126 (6.808%) rms = 1.1165/1.1261, sse=225950.0/226518.6, time step reduction 3 of 3 to 0.062 0 0 1 024: dt: 0.1250, sse=225950.0, rms=1.116 (0.855%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 107.8330080; border_low = 62.0000000; outside_low = 49.4822200; outside_hi = 107.8330080; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 256 vertices, nripped=9883 mean border=82.8, 238 (48) missing vertices, mean dist -0.1 [0.3 (%59.3)->0.2 (%40.7))] %70 local maxima, %22 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0427 min Finding expansion regions mean absolute distance = 0.27 +- 0.42 2828 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=299373.0, rms=2.170 rms = 2.2121/2.1696, sse=313199.7/299373.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 025: dt: 0.2500, sse=239921.2, rms=1.430 (34.091%) 026: dt: 0.2500, sse=215735.7, rms=0.901 (36.979%) rms = 0.9064/0.9012, sse=216223.8/215735.7, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 0.8835/0.9012, sse=214272.2/215735.7, time step reduction 3 of 3 to 0.062 0 0 1 027: dt: 0.1250, sse=214272.2, rms=0.884 (1.960%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/rh.white #ET# mris_place_surface 3.24 minutes #VMPC# mris_place_surfaces VmPeak 1926976 mris_place_surface done @#@FSTIME 2023:08:15:19:23:19 mris_place_surface N 25 e 202.46 S 0.77 U 201.61 P 99% M 1668460 F 0 R 453171 W 0 c 2298 w 5 I 0 O 8648 L 3.18 3.31 3.16 @#@FSLOADPOST 2023:08:15:19:26:42 mris_place_surface N 25 3.48 3.44 3.24 #-------------------------------------------- #@# T1PialSurf lh Tue 15 Aug 19:26:42 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white --o ../surf/lh.pial.T1 --pial --nsmooth 0 --rip-label ../label/lh.cortex+hipamyg.label --pin-medial-wall ../label/lh.cortex.label --aparc ../label/lh.aparc.annot --repulse-surf ../surf/lh.white --white-surf ../surf/lh.white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white --o ../surf/lh.pial.T1 --pial --nsmooth 0 --rip-label ../label/lh.cortex+hipamyg.label --pin-medial-wall ../label/lh.cortex.label --aparc ../label/lh.aparc.annot --repulse-surf ../surf/lh.white --white-surf ../surf/lh.white Reading in input surface ../surf/lh.white Not smoothing input surface Area 254118 0.34514 0.15011 0.000540 2.2218 Corner 762354 60.00000 17.23504 0.200427 178.8496 Edge 381177 0.90855 0.24206 0.019251 3.5537 Hinge 381177 11.29796 13.26528 0.000014 179.8494 Reading white surface coordinates from ../surf/lh.white Reading repulsion surface coordinates from ../surf/lh.white Reading in aparc ../label/lh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21715, wmmin=5, clip=110 MRIfindBrightNonWM(): 1504 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 57.3068 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex+hipamyg.label MRISripNotLabel() ripped 8433/127061 vertices (118628 unripped) INFO: rip surface needed but not specified, so using input surface Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 63531: xyz = (-62.624,-9.09458,11.9026) oxyz = (-62.624,-9.09458,11.9026) wxzy = (-62.624,-9.09458,11.9026) pxyz = (-62.624,-9.09458,11.9026) CBVO Creating mask 127061 n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 88.1669920; border_hi = 51.4822200; border_low = 26.4466590; outside_low = 10.0000000; outside_hi = 45.2233280; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=2 had to be increased for 250 vertices, nripped=8433 mean border=46.5, 344 (344) missing vertices, mean dist 1.7 [0.2 (%0.0)->2.1 (%100.0))] %21 local maxima, %55 large gradients and %17 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1231 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=34697156.0, rms=38.194 001: dt: 0.5000, sse=25725068.0, rms=32.856 (13.976%) 002: dt: 0.5000, sse=18677698.0, rms=27.957 (14.912%) 003: dt: 0.5000, sse=13471242.0, rms=23.694 (15.247%) 004: dt: 0.5000, sse=9913838.0, rms=20.272 (14.444%) 005: dt: 0.5000, sse=7629981.0, rms=17.730 (12.539%) 006: dt: 0.5000, sse=5731505.5, rms=15.298 (13.715%) 007: dt: 0.5000, sse=4316415.0, rms=13.197 (13.738%) 008: dt: 0.5000, sse=3158277.5, rms=11.185 (15.243%) 009: dt: 0.5000, sse=2426785.5, rms=9.701 (13.267%) 010: dt: 0.5000, sse=1885339.1, rms=8.435 (13.054%) 011: dt: 0.5000, sse=1663199.6, rms=7.855 (6.872%) 012: dt: 0.5000, sse=1458710.1, rms=7.280 (7.323%) 013: dt: 0.5000, sse=1433623.8, rms=7.204 (1.043%) 014: dt: 0.5000, sse=1324352.8, rms=6.872 (4.602%) rms = 6.9432/6.8724, sse=1348173.8/1324352.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 015: dt: 0.2500, sse=884707.4, rms=5.339 (22.318%) 016: dt: 0.2500, sse=782255.0, rms=4.911 (8.010%) 017: dt: 0.2500, sse=770969.9, rms=4.860 (1.041%) 018: dt: 0.2500, sse=759440.3, rms=4.809 (1.052%) rms = 4.7683/4.8088, sse=750603.2/759440.3, time step reduction 2 of 3 to 0.125 0 0 1 019: dt: 0.2500, sse=750603.2, rms=4.768 (0.841%) 020: dt: 0.1250, sse=592878.9, rms=4.002 (16.069%) 021: dt: 0.1250, sse=563822.1, rms=3.845 (3.929%) rms = 3.7957/3.8449, sse=555075.2/563822.1, time step reduction 3 of 3 to 0.062 0 0 1 022: dt: 0.1250, sse=555075.2, rms=3.796 (1.279%) maximum number of reductions reached, breaking from loop positioning took 1.9 minutes Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 88.1669920; border_hi = 51.4822200; border_low = 26.4466590; outside_low = 10.0000000; outside_hi = 45.2233280; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=1 had to be increased for 1821 vertices, nripped=8433 mean border=43.9, 299 (20) missing vertices, mean dist 0.1 [0.1 (%54.5)->0.4 (%45.5))] %34 local maxima, %41 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0403 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=965298.4, rms=5.460 rms = 6.7243/5.4600, sse=1331793.5/965298.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 023: dt: 0.2500, sse=764188.3, rms=4.616 (15.463%) 024: dt: 0.2500, sse=715551.7, rms=4.386 (4.979%) rms = 4.3838/4.3859, sse=714677.1/715551.7, time step reduction 2 of 3 to 0.125 0 0 1 025: dt: 0.2500, sse=714677.1, rms=4.384 (0.050%) 026: dt: 0.1250, sse=625068.9, rms=3.925 (10.462%) 027: dt: 0.1250, sse=602397.9, rms=3.801 (3.167%) rms = 3.7588/3.8008, sse=594914.3/602397.9, time step reduction 3 of 3 to 0.062 0 0 1 028: dt: 0.1250, sse=594914.3, rms=3.759 (1.105%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 88.1669920; border_hi = 51.4822200; border_low = 26.4466590; outside_low = 10.0000000; outside_hi = 45.2233280; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 1959 vertices, nripped=8433 mean border=41.9, 459 (17) missing vertices, mean dist 0.1 [0.1 (%49.9)->0.3 (%50.1))] %44 local maxima, %30 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0241 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=758473.9, rms=4.569 rms = 6.4387/4.5689, sse=1247558.4/758473.9, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 029: dt: 0.2500, sse=638916.4, rms=3.976 (12.982%) 030: dt: 0.2500, sse=628907.3, rms=3.922 (1.350%) rms = 4.0238/3.9221, sse=647400.3/628907.3, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step 031: dt: 0.1250, sse=608613.1, rms=3.811 (2.841%) 032: dt: 0.1250, sse=582026.1, rms=3.660 (3.945%) 033: dt: 0.1250, sse=572617.8, rms=3.606 (1.485%) rms = 3.5772/3.6059, sse=567602.6/572617.8, time step reduction 3 of 3 to 0.062 0 0 1 034: dt: 0.1250, sse=567602.6, rms=3.577 (0.797%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes Iteration 3 ========================================= n_averages=2, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 88.1669920; border_hi = 51.4822200; border_low = 26.4466590; outside_low = 10.0000000; outside_hi = 45.2233280; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=127061 Gdiag_no=-1 vno start=0, stop=127061 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 1536 vertices, nripped=8433 mean border=40.7, 1114 (15) missing vertices, mean dist 0.0 [0.1 (%54.5)->0.3 (%45.5))] %47 local maxima, %26 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0158 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=623214.4, rms=3.891 rms = 5.8148/3.8912, sse=1065785.2/623214.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 035: dt: 0.2500, sse=561821.4, rms=3.541 (9.005%) rms = 3.5524/3.5408, sse=563191.4/561821.4, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 3.4933/3.5408, sse=553913.9/561821.4, time step reduction 3 of 3 to 0.062 0 0 1 036: dt: 0.1250, sse=553913.9, rms=3.493 (1.342%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes Pinning medial wall to white surface removing intersecting faces 000: 10 intersecting terminating search with 0 intersecting Writing output to ../surf/lh.pial.T1 #ET# mris_place_surface 3.61 minutes #VMPC# mris_place_surfaces VmPeak 1319552 mris_place_surface done @#@FSTIME 2023:08:15:19:26:42 mris_place_surface N 28 e 224.70 S 0.52 U 224.14 P 99% M 1061040 F 0 R 285928 W 0 c 1282 w 2 I 0 O 8936 L 3.48 3.44 3.24 @#@FSLOADPOST 2023:08:15:19:30:26 mris_place_surface N 28 2.58 3.15 3.18 #-------------------------------------------- #@# T1PialSurf rh Tue 15 Aug 19:30:26 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white --o ../surf/rh.pial.T1 --pial --nsmooth 0 --rip-label ../label/rh.cortex+hipamyg.label --pin-medial-wall ../label/rh.cortex.label --aparc ../label/rh.aparc.annot --repulse-surf ../surf/rh.white --white-surf ../surf/rh.white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white --o ../surf/rh.pial.T1 --pial --nsmooth 0 --rip-label ../label/rh.cortex+hipamyg.label --pin-medial-wall ../label/rh.cortex.label --aparc ../label/rh.aparc.annot --repulse-surf ../surf/rh.white --white-surf ../surf/rh.white Reading in input surface ../surf/rh.white Not smoothing input surface Area 245922 0.35470 0.16044 0.000055 2.6936 Corner 737766 60.00000 17.36118 0.088736 179.8190 Edge 368883 0.92168 0.25643 0.020031 3.7141 Hinge 368883 11.36802 13.43297 0.000014 179.9412 Reading white surface coordinates from ../surf/rh.white Reading repulsion surface coordinates from ../surf/rh.white Reading in aparc ../label/rh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=21715, wmmin=5, clip=110 MRIfindBrightNonWM(): 1504 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 57.3068 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex+hipamyg.label MRISripNotLabel() ripped 7999/122963 vertices (114964 unripped) INFO: rip surface needed but not specified, so using input surface Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 61482: xyz = (19.8147,-3.80007,-19.3223) oxyz = (19.8147,-3.80007,-19.3223) wxzy = (19.8147,-3.80007,-19.3223) pxyz = (19.8147,-3.80007,-19.3223) CBVO Creating mask 122963 n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.1669920; border_hi = 49.4822200; border_low = 24.4466590; outside_low = 10.0000000; outside_hi = 43.2233280; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=2 had to be increased for 280 vertices, nripped=7999 mean border=44.9, 336 (336) missing vertices, mean dist 1.7 [0.0 (%0.0)->2.1 (%100.0))] %17 local maxima, %58 large gradients and %18 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1185 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=34313480.0, rms=38.582 001: dt: 0.5000, sse=25357060.0, rms=33.134 (14.120%) 002: dt: 0.5000, sse=18327414.0, rms=28.128 (15.109%) 003: dt: 0.5000, sse=13151010.0, rms=23.776 (15.473%) 004: dt: 0.5000, sse=9623379.0, rms=20.280 (14.701%) 005: dt: 0.5000, sse=7368862.5, rms=17.689 (12.780%) 006: dt: 0.5000, sse=5605385.5, rms=15.359 (13.171%) 007: dt: 0.5000, sse=4246309.5, rms=13.287 (13.492%) 008: dt: 0.5000, sse=3122840.0, rms=11.289 (15.038%) 009: dt: 0.5000, sse=2395235.8, rms=9.778 (13.380%) 010: dt: 0.5000, sse=1874753.0, rms=8.534 (12.727%) 011: dt: 0.5000, sse=1635433.0, rms=7.895 (7.488%) 012: dt: 0.5000, sse=1452860.5, rms=7.369 (6.664%) 013: dt: 0.5000, sse=1400708.5, rms=7.210 (2.156%) 014: dt: 0.5000, sse=1312569.9, rms=6.934 (3.821%) rms = 6.9008/6.9343, sse=1302785.3/1312569.9, time step reduction 1 of 3 to 0.250 0 0 1 015: dt: 0.5000, sse=1302785.2, rms=6.901 (0.483%) 016: dt: 0.2500, sse=856822.1, rms=5.289 (23.356%) 017: dt: 0.2500, sse=751839.1, rms=4.835 (8.589%) 018: dt: 0.2500, sse=739633.8, rms=4.777 (1.193%) 019: dt: 0.2500, sse=723225.4, rms=4.701 (1.595%) 020: dt: 0.2500, sse=712715.4, rms=4.650 (1.076%) 021: dt: 0.2500, sse=696064.0, rms=4.571 (1.708%) rms = 4.5486/4.5709, sse=691701.3/696064.0, time step reduction 2 of 3 to 0.125 0 0 1 022: dt: 0.2500, sse=691701.3, rms=4.549 (0.489%) 023: dt: 0.1250, sse=569587.4, rms=3.914 (13.957%) 024: dt: 0.1250, sse=549895.0, rms=3.802 (2.860%) rms = 3.7747/3.8018, sse=545270.4/549895.0, time step reduction 3 of 3 to 0.062 0 0 1 025: dt: 0.1250, sse=545270.4, rms=3.775 (0.715%) maximum number of reductions reached, breaking from loop positioning took 2.0 minutes Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.1669920; border_hi = 49.4822200; border_low = 24.4466590; outside_low = 10.0000000; outside_hi = 43.2233280; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=1 had to be increased for 1838 vertices, nripped=7999 mean border=42.6, 450 (32) missing vertices, mean dist 0.1 [0.1 (%58.4)->0.4 (%41.6))] %30 local maxima, %44 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0404 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=858598.7, rms=5.077 rms = 6.2081/5.0772, sse=1152382.3/858598.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 026: dt: 0.2500, sse=700366.8, rms=4.344 (14.442%) 027: dt: 0.2500, sse=660004.1, rms=4.136 (4.788%) rms = 4.1122/4.1360, sse=655091.1/660004.1, time step reduction 2 of 3 to 0.125 0 0 1 028: dt: 0.2500, sse=655091.1, rms=4.112 (0.576%) 029: dt: 0.1250, sse=587948.6, rms=3.736 (9.141%) 030: dt: 0.1250, sse=570729.3, rms=3.634 (2.731%) rms = 3.5994/3.6343, sse=564951.1/570729.3, time step reduction 3 of 3 to 0.062 0 0 1 031: dt: 0.1250, sse=564951.1, rms=3.599 (0.959%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.1669920; border_hi = 49.4822200; border_low = 24.4466590; outside_low = 10.0000000; outside_hi = 43.2233280; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 1964 vertices, nripped=7999 mean border=40.8, 592 (14) missing vertices, mean dist 0.1 [0.1 (%52.4)->0.3 (%47.6))] %43 local maxima, %30 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0241 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=696357.1, rms=4.303 rms = 6.0518/4.3029, sse=1112796.2/696357.1, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 032: dt: 0.2500, sse=600884.1, rms=3.787 (11.992%) rms = 3.7485/3.7869, sse=593983.2/600884.0, time step reduction 2 of 3 to 0.125 0 0 1 033: dt: 0.2500, sse=593983.2, rms=3.748 (1.014%) 034: dt: 0.1250, sse=562995.0, rms=3.563 (4.952%) 035: dt: 0.1250, sse=551511.1, rms=3.493 (1.962%) rms = 3.4697/3.4930, sse=547650.8/551511.1, time step reduction 3 of 3 to 0.062 0 0 1 036: dt: 0.1250, sse=547650.8, rms=3.470 (0.666%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 3 ========================================= n_averages=2, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.1669920; border_hi = 49.4822200; border_low = 24.4466590; outside_low = 10.0000000; outside_hi = 43.2233280; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=122963 Gdiag_no=-1 vno start=0, stop=122963 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 1510 vertices, nripped=7999 mean border=39.5, 1248 (13) missing vertices, mean dist 0.0 [0.1 (%55.6)->0.3 (%44.4))] %47 local maxima, %26 large gradients and %20 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0157 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=606076.0, rms=3.817 rms = 5.6416/3.8169, sse=1002380.6/606076.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 037: dt: 0.2500, sse=547922.2, rms=3.467 (9.158%) rms = 3.4673/3.4673, sse=547142.2/547922.3, time step reduction 2 of 3 to 0.125 0 0 1 038: dt: 0.2500, sse=547142.2, rms=3.467 (0.000%) 039: dt: 0.1250, sse=522391.5, rms=3.308 (4.596%) 040: dt: 0.1250, sse=512302.7, rms=3.243 (1.973%) rms = 3.2160/3.2427, sse=508105.2/512302.7, time step reduction 3 of 3 to 0.062 0 0 1 041: dt: 0.1250, sse=508105.2, rms=3.216 (0.824%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Pinning medial wall to white surface removing intersecting faces 000: 20 intersecting 001: 6 intersecting terminating search with 0 intersecting Writing output to ../surf/rh.pial.T1 #ET# mris_place_surface 3.82 minutes #VMPC# mris_place_surfaces VmPeak 1306384 mris_place_surface done @#@FSTIME 2023:08:15:19:30:26 mris_place_surface N 28 e 237.15 S 0.53 U 236.59 P 99% M 1048128 F 0 R 282092 W 0 c 986 w 1 I 0 O 8648 L 2.58 3.15 3.18 @#@FSLOADPOST 2023:08:15:19:34:23 mris_place_surface N 28 2.13 2.57 2.93 #@# white curv lh Tue 15 Aug 19:34:23 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/lh.white, nbrs 2, curvature_avgs 10 writing curvature file ../surf/lh.curv @#@FSTIME 2023:08:15:19:34:24 mris_place_surface N 5 e 1.67 S 0.07 U 1.60 P 99% M 175172 F 0 R 47144 W 0 c 7 w 1 I 0 O 1000 L 2.13 2.57 2.93 @#@FSLOADPOST 2023:08:15:19:34:25 mris_place_surface N 5 2.13 2.57 2.93 #@# white area lh Tue 15 Aug 19:34:25 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/lh.area @#@FSTIME 2023:08:15:19:34:25 mris_place_surface N 3 e 0.84 S 0.09 U 0.75 P 99% M 175188 F 0 R 47145 W 0 c 5 w 1 I 0 O 1000 L 2.13 2.57 2.93 @#@FSLOADPOST 2023:08:15:19:34:26 mris_place_surface N 3 2.13 2.57 2.93 #@# pial curv lh Tue 15 Aug 19:34:26 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/lh.pial, nbrs 2, curvature_avgs 10 writing curvature file ../surf/lh.curv.pial @#@FSTIME 2023:08:15:19:34:26 mris_place_surface N 5 e 1.64 S 0.09 U 1.54 P 100% M 175332 F 0 R 47145 W 0 c 6 w 1 I 0 O 1000 L 2.13 2.57 2.93 @#@FSLOADPOST 2023:08:15:19:34:28 mris_place_surface N 5 2.12 2.56 2.92 #@# pial area lh Tue 15 Aug 19:34:28 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/lh.area.pial @#@FSTIME 2023:08:15:19:34:28 mris_place_surface N 3 e 0.82 S 0.09 U 0.72 P 99% M 175136 F 0 R 47142 W 0 c 5 w 1 I 0 O 1000 L 2.12 2.56 2.92 @#@FSLOADPOST 2023:08:15:19:34:29 mris_place_surface N 3 2.12 2.56 2.92 #@# thickness lh Tue 15 Aug 19:34:29 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 0 of 127061 vertices processed 25000 of 127061 vertices processed 50000 of 127061 vertices processed 75000 of 127061 vertices processed 100000 of 127061 vertices processed 125000 of 127061 vertices processed 0 of 127061 vertices processed 25000 of 127061 vertices processed 50000 of 127061 vertices processed 75000 of 127061 vertices processed 100000 of 127061 vertices processed 125000 of 127061 vertices processed thickness calculation complete, 85:474 truncations. 84441 vertices at 0 distance 114264 vertices at 1 distance 41025 vertices at 2 distance 10284 vertices at 3 distance 2632 vertices at 4 distance 811 vertices at 5 distance 260 vertices at 6 distance 108 vertices at 7 distance 67 vertices at 8 distance 54 vertices at 9 distance 48 vertices at 10 distance 46 vertices at 11 distance 35 vertices at 12 distance 21 vertices at 13 distance 16 vertices at 14 distance 5 vertices at 15 distance 2 vertices at 16 distance 1 vertices at 17 distance 1 vertices at 18 distance 1 vertices at 19 distance 0 vertices at 20 distance writing curvature file ../surf/lh.thickness @#@FSTIME 2023:08:15:19:34:29 mris_place_surface N 6 e 30.27 S 0.10 U 30.16 P 99% M 175228 F 0 R 53845 W 0 c 123 w 1 I 0 O 1000 L 2.12 2.56 2.92 @#@FSLOADPOST 2023:08:15:19:34:59 mris_place_surface N 6 2.12 2.52 2.89 #@# area and vertex vol lh Tue 15 Aug 19:34:59 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_calc -o lh.area.mid lh.area add lh.area.pial Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o lh.area.mid lh.area.mid div 2 Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume sub-073_ses-BSL lh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.volume masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Total face volume 190936 Total vertex volume 190714 (mask=0) #@# sub-073_ses-BSL lh 190714 vertexvol Done @#@FSTIME 2023:08:15:19:34:59 vertexvol N 4 e 1.67 S 0.17 U 1.49 P 99% M 290784 F 0 R 82710 W 0 c 7 w 22 I 0 O 3000 L 2.12 2.52 2.89 @#@FSLOADPOST 2023:08:15:19:35:01 vertexvol N 4 2.12 2.52 2.89 #@# white curv rh Tue 15 Aug 19:35:01 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/rh.white, nbrs 2, curvature_avgs 10 writing curvature file ../surf/rh.curv @#@FSTIME 2023:08:15:19:35:01 mris_place_surface N 5 e 1.71 S 0.06 U 1.64 P 100% M 169732 F 0 R 45636 W 0 c 11 w 1 I 0 O 968 L 2.12 2.52 2.89 @#@FSLOADPOST 2023:08:15:19:35:02 mris_place_surface N 5 2.19 2.53 2.90 #@# white area rh Tue 15 Aug 19:35:02 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/rh.area @#@FSTIME 2023:08:15:19:35:02 mris_place_surface N 3 e 0.79 S 0.09 U 0.69 P 99% M 169716 F 0 R 45635 W 0 c 4 w 1 I 0 O 968 L 2.19 2.53 2.90 @#@FSLOADPOST 2023:08:15:19:35:03 mris_place_surface N 3 2.19 2.53 2.90 #@# pial curv rh Tue 15 Aug 19:35:03 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/rh.pial, nbrs 2, curvature_avgs 10 writing curvature file ../surf/rh.curv.pial @#@FSTIME 2023:08:15:19:35:03 mris_place_surface N 5 e 1.66 S 0.08 U 1.57 P 100% M 169800 F 0 R 45634 W 0 c 8 w 1 I 0 O 968 L 2.19 2.53 2.90 @#@FSLOADPOST 2023:08:15:19:35:05 mris_place_surface N 5 2.19 2.53 2.90 #@# pial area rh Tue 15 Aug 19:35:05 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/rh.area.pial @#@FSTIME 2023:08:15:19:35:05 mris_place_surface N 3 e 0.78 S 0.07 U 0.71 P 100% M 169752 F 0 R 45636 W 0 c 7 w 1 I 0 O 968 L 2.19 2.53 2.90 @#@FSLOADPOST 2023:08:15:19:35:06 mris_place_surface N 3 2.19 2.53 2.90 #@# thickness rh Tue 15 Aug 19:35:06 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 0 of 122963 vertices processed 25000 of 122963 vertices processed 50000 of 122963 vertices processed 75000 of 122963 vertices processed 100000 of 122963 vertices processed 0 of 122963 vertices processed 25000 of 122963 vertices processed 50000 of 122963 vertices processed 75000 of 122963 vertices processed 100000 of 122963 vertices processed thickness calculation complete, 15:367 truncations. 79878 vertices at 0 distance 110143 vertices at 1 distance 41139 vertices at 2 distance 10556 vertices at 3 distance 2695 vertices at 4 distance 828 vertices at 5 distance 294 vertices at 6 distance 118 vertices at 7 distance 63 vertices at 8 distance 43 vertices at 9 distance 33 vertices at 10 distance 39 vertices at 11 distance 26 vertices at 12 distance 13 vertices at 13 distance 13 vertices at 14 distance 8 vertices at 15 distance 9 vertices at 16 distance 9 vertices at 17 distance 10 vertices at 18 distance 4 vertices at 19 distance 5 vertices at 20 distance writing curvature file ../surf/rh.thickness @#@FSTIME 2023:08:15:19:35:06 mris_place_surface N 6 e 29.23 S 0.09 U 29.13 P 99% M 169628 F 0 R 52119 W 0 c 138 w 1 I 0 O 968 L 2.19 2.53 2.90 @#@FSLOADPOST 2023:08:15:19:35:35 mris_place_surface N 6 2.17 2.49 2.87 #@# area and vertex vol rh Tue 15 Aug 19:35:35 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_calc -o rh.area.mid rh.area add rh.area.pial Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o rh.area.mid rh.area.mid div 2 Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume sub-073_ses-BSL rh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.volume masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Total face volume 192717 Total vertex volume 192487 (mask=0) #@# sub-073_ses-BSL rh 192487 vertexvol Done @#@FSTIME 2023:08:15:19:35:35 vertexvol N 4 e 1.62 S 0.16 U 1.45 P 99% M 281860 F 0 R 80112 W 0 c 8 w 22 I 0 O 2904 L 2.17 2.49 2.87 @#@FSLOADPOST 2023:08:15:19:35:37 vertexvol N 4 2.16 2.48 2.87 #----------------------------------------- #@# Curvature Stats lh Tue 15 Aug 19:35:37 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm sub-073_ses-BSL lh curv sulc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/lh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ sub-073_ses-BSL/lh.smoothwm ] Reading surface... [ ok ] Setting texture [ curv ] Reading texture... [ ok ] Setting texture [ sulc ] Reading texture...Gb_filter = 0 [ ok ] Calculating Discrete Principal Curvatures... Determining geometric order for vno faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 239 ] Gb_filter = 0 @#@FSTIME 2023:08:15:19:35:37 mris_curvature_stats N 11 e 2.46 S 0.08 U 2.37 P 99% M 175128 F 0 R 47346 W 0 c 19 w 1 I 0 O 8040 L 2.16 2.48 2.87 @#@FSLOADPOST 2023:08:15:19:35:39 mris_curvature_stats N 11 2.16 2.48 2.87 #----------------------------------------- #@# Curvature Stats rh Tue 15 Aug 19:35:39 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm sub-073_ses-BSL rh curv sulc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/rh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ sub-073_ses-BSL/rh.smoothwm ] Reading surface... [ ok ] Setting texture [ curv ] Reading texture... [ ok ] Setting texture [ sulc ] Reading texture...Gb_filter = 0 [ ok ] Calculating Discrete Principal Curvatures... Determining geometric order for vno faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 203 ] Gb_filter = 0 WARN: S lookup min: -0.083098 WARN: S explicit min: 0.000000 vertex = 997 @#@FSTIME 2023:08:15:19:35:39 mris_curvature_stats N 11 e 2.28 S 0.06 U 2.22 P 100% M 169744 F 0 R 45834 W 0 c 9 w 2 I 0 O 7784 L 2.16 2.48 2.87 @#@FSLOADPOST 2023:08:15:19:35:42 mris_curvature_stats N 11 2.22 2.49 2.87 #-------------------------------------------- #@# Cortical ribbon mask Tue 15 Aug 19:35:42 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_volmask --aseg_name aseg.presurf --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon sub-073_ses-BSL /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR is /home/rosalia/Desktop/CAN_RUTI loading input data... Running hemis serially Processing left hemi computing distance to left white surface computing distance to left pial surface Processing right hemi computing distance to right white surface computing distance to right pial surface hemi masks overlap voxels = 24 writing volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/ribbon.mgz mris_volmask took 8.01 minutes writing ribbon files @#@FSTIME 2023:08:15:19:35:42 mris_volmask N 12 e 480.53 S 0.75 U 479.75 P 99% M 936412 F 0 R 504660 W 0 c 1620 w 1 I 0 O 848 L 2.22 2.49 2.87 @#@FSLOADPOST 2023:08:15:19:43:42 mris_volmask N 12 2.14 2.19 2.55 #----------------------------------------- #@# Cortical Parc 2 lh Tue 15 Aug 19:43:42 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL lh ../surf/lh.sphere.reg /home/rosalia/software/freesurfer/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 3.0 using min determinant for regularization = 0.088 0 singular and 0 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 131 labels changed using aseg relabeling using gibbs priors... 000: 8420 changed, 127061 examined... 001: 1907 changed, 32595 examined... 002: 608 changed, 10171 examined... 003: 251 changed, 3419 examined... 004: 112 changed, 1448 examined... 005: 56 changed, 653 examined... 006: 34 changed, 340 examined... 007: 19 changed, 212 examined... 008: 7 changed, 107 examined... 009: 3 changed, 38 examined... 010: 2 changed, 18 examined... 011: 0 changed, 9 examined... 34 labels changed using aseg 000: 218 total segments, 136 labels (1571 vertices) changed 001: 84 total segments, 3 labels (14 vertices) changed 002: 81 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 34 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1135 vertices marked for relabeling... 1135 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 0 minutes and 14 seconds. @#@FSTIME 2023:08:15:19:43:42 mris_ca_label N 11 e 13.71 S 0.92 U 12.78 P 99% M 1650452 F 0 R 622071 W 0 c 63 w 1 I 0 O 1992 L 2.14 2.19 2.55 @#@FSLOADPOST 2023:08:15:19:43:56 mris_ca_label N 11 2.19 2.20 2.55 #----------------------------------------- #@# Cortical Parc 2 rh Tue 15 Aug 19:43:56 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL rh ../surf/rh.sphere.reg /home/rosalia/software/freesurfer/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.021 0 singular and 0 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 27 labels changed using aseg relabeling using gibbs priors... 000: 8032 changed, 122963 examined... 001: 1787 changed, 31659 examined... 002: 509 changed, 9766 examined... 003: 183 changed, 2953 examined... 004: 92 changed, 1057 examined... 005: 34 changed, 540 examined... 006: 14 changed, 177 examined... 007: 7 changed, 85 examined... 008: 4 changed, 42 examined... 009: 5 changed, 26 examined... 010: 4 changed, 29 examined... 011: 0 changed, 28 examined... 16 labels changed using aseg 000: 214 total segments, 126 labels (1651 vertices) changed 001: 96 total segments, 8 labels (28 vertices) changed 002: 88 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 28 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1124 vertices marked for relabeling... 1124 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 0 minutes and 12 seconds. @#@FSTIME 2023:08:15:19:43:56 mris_ca_label N 11 e 12.27 S 0.99 U 11.27 P 99% M 1598368 F 0 R 623340 W 0 c 53 w 1 I 0 O 1928 L 2.19 2.20 2.55 @#@FSLOADPOST 2023:08:15:19:44:08 mris_ca_label N 11 2.15 2.19 2.54 #----------------------------------------- #@# Cortical Parc 3 lh Tue 15 Aug 19:44:08 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL lh ../surf/lh.sphere.reg /home/rosalia/software/freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.020 0 singular and 383 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1150 labels changed using aseg relabeling using gibbs priors... 000: 2015 changed, 127061 examined... 001: 488 changed, 9222 examined... 002: 126 changed, 2789 examined... 003: 72 changed, 753 examined... 004: 44 changed, 379 examined... 005: 39 changed, 229 examined... 006: 23 changed, 197 examined... 007: 14 changed, 128 examined... 008: 9 changed, 84 examined... 009: 8 changed, 55 examined... 010: 10 changed, 45 examined... 011: 7 changed, 52 examined... 012: 5 changed, 40 examined... 013: 5 changed, 31 examined... 014: 2 changed, 24 examined... 015: 3 changed, 14 examined... 016: 2 changed, 17 examined... 017: 2 changed, 14 examined... 018: 4 changed, 15 examined... 019: 5 changed, 15 examined... 020: 2 changed, 22 examined... 021: 4 changed, 14 examined... 022: 4 changed, 19 examined... 023: 4 changed, 24 examined... 024: 5 changed, 25 examined... 025: 5 changed, 30 examined... 026: 2 changed, 25 examined... 027: 3 changed, 14 examined... 028: 3 changed, 15 examined... 029: 2 changed, 22 examined... 030: 1 changed, 14 examined... 031: 1 changed, 7 examined... 032: 1 changed, 8 examined... 033: 1 changed, 7 examined... 034: 0 changed, 7 examined... 400 labels changed using aseg 000: 53 total segments, 19 labels (169 vertices) changed 001: 34 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 2 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 766 vertices marked for relabeling... 766 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas.annot... classification took 0 minutes and 10 seconds. @#@FSTIME 2023:08:15:19:44:08 mris_ca_label N 11 e 9.55 S 0.45 U 9.09 P 99% M 906784 F 0 R 289066 W 0 c 60 w 1 I 0 O 1992 L 2.15 2.19 2.54 @#@FSLOADPOST 2023:08:15:19:44:18 mris_ca_label N 11 2.20 2.20 2.54 #----------------------------------------- #@# Cortical Parc 3 rh Tue 15 Aug 19:44:18 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL rh ../surf/rh.sphere.reg /home/rosalia/software/freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.9 using min determinant for regularization = 0.009 0 singular and 325 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1464 labels changed using aseg relabeling using gibbs priors... 000: 1769 changed, 122963 examined... 001: 430 changed, 8378 examined... 002: 129 changed, 2400 examined... 003: 52 changed, 688 examined... 004: 34 changed, 299 examined... 005: 23 changed, 191 examined... 006: 15 changed, 119 examined... 007: 10 changed, 81 examined... 008: 8 changed, 55 examined... 009: 3 changed, 43 examined... 010: 5 changed, 21 examined... 011: 4 changed, 24 examined... 012: 1 changed, 23 examined... 013: 0 changed, 7 examined... 330 labels changed using aseg 000: 56 total segments, 23 labels (93 vertices) changed 001: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 3 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 916 vertices marked for relabeling... 916 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas.annot... classification took 0 minutes and 9 seconds. @#@FSTIME 2023:08:15:19:44:18 mris_ca_label N 11 e 9.51 S 0.44 U 9.06 P 99% M 907448 F 0 R 286625 W 0 c 70 w 1 I 0 O 1928 L 2.20 2.20 2.54 @#@FSLOADPOST 2023:08:15:19:44:27 mris_ca_label N 11 2.17 2.19 2.54 #----------------------------------------- #@# WM/GM Contrast lh Tue 15 Aug 19:44:27 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts pctsurfcon --s sub-073_ses-BSL --lh-only /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Log file is /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts/pctsurfcon.log Tue 15 Aug 19:44:27 CEST 2023 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts /home/rosalia/software/freesurfer/bin/pctsurfcon pctsurfcon 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /home/rosalia/software/freesurfer mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.637452/lh.wm.mgh --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Done reading source surface Mapping Source Volume onto Source Subject Surface Projecting -1 -1 1 1 -1 -1 -1 using old Done mapping volume to surface Number of source voxels hit = 73634 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.637452/lh.wm.mgh Dim: 127061 1 1 mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.637452/lh.gm.mgh --projfrac 0.3 --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Done reading source surface Reading thickness /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.thickness Done Mapping Source Volume onto Source Subject Surface Projecting 0.3 0.3 1 1 0.3 0.3 0.3 using old Done mapping volume to surface Number of source voxels hit = 86851 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.637452/lh.gm.mgh Dim: 127061 1 1 mri_concat /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.637452/lh.wm.mgh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.637452/lh.gm.mgh --paired-diff-norm --mul 100 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh ninputs = 2 Checking inputs nframestot = 2 Allocing output Done allocing Combining pairs nframes = 1 Multiplying by 100.000000 Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh --annot sub-073_ses-BSL lh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/lh.w-g.pct.stats --snr 7.3.1 cwd cmdline mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh --annot sub-073_ses-BSL lh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/lh.w-g.pct.stats --snr sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.annot Seg base 1000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh Vertex Area is 0.690276 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation Reporting on 35 segmentations Using PrintSegStat mri_segstats done Cleaning up @#@FSTIME 2023:08:15:19:44:27 pctsurfcon N 3 e 3.42 S 0.34 U 3.08 P 100% M 242712 F 1 R 180352 W 0 c 21 w 68 I 0 O 3104 L 2.17 2.19 2.54 @#@FSLOADPOST 2023:08:15:19:44:31 pctsurfcon N 3 2.17 2.19 2.54 #----------------------------------------- #@# WM/GM Contrast rh Tue 15 Aug 19:44:31 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts pctsurfcon --s sub-073_ses-BSL --rh-only /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Log file is /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts/pctsurfcon.log Tue 15 Aug 19:44:31 CEST 2023 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts /home/rosalia/software/freesurfer/bin/pctsurfcon pctsurfcon 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /home/rosalia/software/freesurfer mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.637547/rh.wm.mgh --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Done reading source surface Mapping Source Volume onto Source Subject Surface Projecting -1 -1 1 1 -1 -1 -1 using old Done mapping volume to surface Number of source voxels hit = 72425 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.637547/rh.wm.mgh Dim: 122963 1 1 mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.637547/rh.gm.mgh --projfrac 0.3 --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Done reading source surface Reading thickness /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.thickness Done Mapping Source Volume onto Source Subject Surface Projecting 0.3 0.3 1 1 0.3 0.3 0.3 using old Done mapping volume to surface Number of source voxels hit = 84866 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.637547/rh.gm.mgh Dim: 122963 1 1 mri_concat /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.637547/rh.wm.mgh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.637547/rh.gm.mgh --paired-diff-norm --mul 100 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh ninputs = 2 Checking inputs nframestot = 2 Allocing output Done allocing Combining pairs nframes = 1 Multiplying by 100.000000 Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh --annot sub-073_ses-BSL rh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/rh.w-g.pct.stats --snr 7.3.1 cwd cmdline mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh --annot sub-073_ses-BSL rh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/rh.w-g.pct.stats --snr sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.annot Seg base 2000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh Vertex Area is 0.709389 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation Reporting on 35 segmentations Using PrintSegStat mri_segstats done Cleaning up @#@FSTIME 2023:08:15:19:44:31 pctsurfcon N 3 e 3.33 S 0.33 U 2.99 P 100% M 238252 F 0 R 176361 W 0 c 21 w 67 I 0 O 3016 L 2.17 2.19 2.54 @#@FSLOADPOST 2023:08:15:19:44:34 pctsurfcon N 3 2.24 2.21 2.54 #----------------------------------------- #@# Relabel Hypointensities Tue 15 Aug 19:44:34 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading input surface ../surf/lh.white... relabeling lh hypointensities... 4903 voxels changed to hypointensity... reading input surface ../surf/rh.white... relabeling rh hypointensities... 3922 voxels changed to hypointensity... 8585 hypointense voxels neighboring cortex changed @#@FSTIME 2023:08:15:19:44:34 mri_relabel_hypointensities N 3 e 14.46 S 0.45 U 14.00 P 99% M 461220 F 0 R 326285 W 0 c 61 w 2 I 8 O 672 L 2.24 2.21 2.54 @#@FSLOADPOST 2023:08:15:19:44:49 mri_relabel_hypointensities N 3 2.34 2.23 2.54 #----------------------------------------- #@# APas-to-ASeg Tue 15 Aug 19:44:49 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_surf2volseg --o aseg.mgz --i aseg.presurf.hypos.mgz --fix-presurf-with-ribbon /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/ribbon.mgz --threads 1 --lh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label --lh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white --lh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial --rh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label --rh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white --rh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI outvol aseg.mgz 8 avail.processors, using 1 Loading aseg.presurf.hypos.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/ribbon.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Done loading 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nrelabeled = 152709 ndotcheck = 0 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 872560 mri_surf2volseg done @#@FSTIME 2023:08:15:19:44:49 mri_surf2volseg N 20 e 23.00 S 0.39 U 22.59 P 99% M 852340 F 0 R 240084 W 0 c 136 w 1 I 0 O 704 L 2.34 2.23 2.54 @#@FSLOADPOST 2023:08:15:19:45:12 mri_surf2volseg N 20 2.24 2.21 2.53 mri_brainvol_stats sub-073_ses-BSL /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) ComputeBrainVolumeStats2 VoxelVol=1, KeepCSF=1 #CBVS2 MaskVol 1982807.0 #CBVS2 BrainSegVol 1043876.0 #CBVS2 BrainSegVolNotVent 949304.0 #CBVS2 SupraTentVol 936191.0 #CBVS2 SupraTentVolNotVent 841619.0 #CBVS2 lhCtxGM 191054.3 #CBVS2 rhCtxGM 192612.2 #CBVS2 lhCerebralWM 206799.5 #CBVS2 rhCerebralWM 204302.5 #CBVS2 SubCortGMVol 47096.0 #CBVS2 CerebellumVol 107685.0 #CBVS2 CerebellumGMVol 84421.0 #CBVS2 VentChorVol 86888.0 #CBVS2 3rd4th5thCSF 7684.0 #CBVS2 AllCSF 94572.0 #CBVS2 CCVol 2885.0 @#@FSTIME 2023:08:15:19:45:12 mri_brainvol_stats N 1 e 4.47 S 0.25 U 4.21 P 99% M 212976 F 0 R 138620 W 0 c 10 w 1 I 0 O 8 L 2.24 2.21 2.53 @#@FSLOADPOST 2023:08:15:19:45:16 mri_brainvol_stats N 1 2.22 2.21 2.53 #----------------------------------------- #@# AParc-to-ASeg aparc Tue 15 Aug 19:45:16 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_surf2volseg --o aparc+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.annot 1000 --lh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label --lh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white --lh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial --rh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.annot 2000 --rh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label --rh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white --rh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI outvol aparc+aseg.mgz 8 avail.processors, using 1 Loading aseg.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 9976 vertices from lh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.annot Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 9402 vertices from rh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.annot Done loading 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nrelabeled = 383372 ndotcheck = 10004 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 856704 mri_surf2volseg done @#@FSTIME 2023:08:15:19:45:16 mri_surf2volseg N 25 e 87.47 S 0.39 U 87.07 P 99% M 836708 F 0 R 232958 W 0 c 283 w 2 I 8 O 800 L 2.22 2.21 2.53 @#@FSLOADPOST 2023:08:15:19:46:44 mri_surf2volseg N 25 2.58 2.29 2.53 #----------------------------------------- #@# AParc-to-ASeg aparc.a2009s Tue 15 Aug 19:46:44 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_surf2volseg --o aparc.a2009s+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.a2009s.annot 11100 --lh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label --lh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white --lh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial --rh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.a2009s.annot 12100 --rh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label --rh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white --rh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI outvol aparc.a2009s+aseg.mgz 8 avail.processors, using 1 Loading aseg.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 9976 vertices from lh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.a2009s.annot Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 9402 vertices from rh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.a2009s.annot Done loading 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nrelabeled = 383372 ndotcheck = 10004 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 856780 mri_surf2volseg done @#@FSTIME 2023:08:15:19:46:44 mri_surf2volseg N 25 e 87.77 S 0.43 U 87.34 P 99% M 836572 F 0 R 236108 W 0 c 298 w 1 I 0 O 856 L 2.58 2.29 2.53 @#@FSLOADPOST 2023:08:15:19:48:12 mri_surf2volseg N 25 2.41 2.32 2.52 #----------------------------------------- #@# AParc-to-ASeg aparc.DKTatlas Tue 15 Aug 19:48:12 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_surf2volseg --o aparc.DKTatlas+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.DKTatlas.annot 1000 --lh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label --lh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white --lh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial --rh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.DKTatlas.annot 2000 --rh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label --rh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white --rh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI outvol aparc.DKTatlas+aseg.mgz 8 avail.processors, using 1 Loading aseg.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 9976 vertices from lh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.DKTatlas.annot Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 9402 vertices from rh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.DKTatlas.annot Done loading 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 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/home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.annot 3000 --lh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label --lh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white --lh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial --rh-annot /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.annot 4000 --rh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label --rh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white --rh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI outvol wmparc.mgz 8 avail.processors, using 1 Loading aparc+aseg.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 9976 vertices from lh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.annot Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 9402 vertices from rh hemi Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.annot Done loading 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nrelabeled = 408217 ndotcheck = 4879 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 856704 mri_surf2volseg done @#@FSTIME 2023:08:15:19:49:40 mri_surf2volseg N 25 e 47.58 S 0.42 U 47.16 P 99% M 836692 F 0 R 232957 W 0 c 134 w 1 I 0 O 880 L 2.49 2.38 2.52 @#@FSLOADPOST 2023:08:15:19:50:28 mri_surf2volseg N 25 2.75 2.47 2.55 mri_segstats --seed 1234 --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject sub-073_ses-BSL --surf-wm-vol --ctab /home/rosalia/software/freesurfer/WMParcStatsLUT.txt --etiv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 7.3.1 cwd cmdline mri_segstats --seed 1234 --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject sub-073_ses-BSL --surf-wm-vol --ctab /home/rosalia/software/freesurfer/WMParcStatsLUT.txt --etiv sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) Loading mri/wmparc.mgz Getting Brain Volume Statistics Loading mri/norm.mgz Loading mri/norm.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 390 segmentations Computing statistics for each segmentation Reporting on 70 segmentations Using PrintSegStat mri_segstats done @#@FSTIME 2023:08:15:19:50:28 mri_segstats N 24 e 339.39 S 0.78 U 338.57 P 99% M 239832 F 0 R 1206296 W 0 c 2104 w 1 I 0 O 24 L 2.75 2.47 2.55 @#@FSLOADPOST 2023:08:15:19:56:07 mri_segstats N 24 1.01 1.50 2.09 #----------------------------------------- #@# Parcellation Stats lh Tue 15 Aug 19:56:07 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab sub-073_ses-BSL lh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 190936 Total vertex volume 190714 (mask=0) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1336 925 2037 2.079 0.563 0.110 0.022 12 1.2 bankssts 901 602 1406 2.057 0.799 0.103 0.022 10 0.8 caudalanteriorcingulate 2946 1941 4653 2.191 0.497 0.096 0.022 21 2.4 caudalmiddlefrontal 1922 1278 2393 1.722 0.378 0.128 0.029 23 2.2 cuneus 529 384 1415 2.713 0.661 0.115 0.034 6 0.6 entorhinal 4328 3112 8345 2.331 0.630 0.136 0.030 55 5.4 fusiform 5914 3980 8891 2.094 0.513 0.116 0.027 70 6.1 inferiorparietal 4702 3419 9027 2.288 0.670 0.131 0.036 70 7.0 inferiortemporal 1573 1105 2358 1.908 0.708 0.120 0.028 19 1.8 isthmuscingulate 6132 3818 8698 2.009 0.528 0.119 0.028 67 6.6 lateraloccipital 3917 2862 6411 2.077 0.589 0.139 0.040 49 6.9 lateralorbitofrontal 3538 2355 4773 1.826 0.504 0.120 0.029 39 4.1 lingual 2761 2104 5130 2.139 0.695 0.132 0.034 47 3.7 medialorbitofrontal 3951 3080 8679 2.383 0.572 0.139 0.031 60 5.4 middletemporal 905 587 1585 2.304 0.635 0.081 0.020 5 0.6 parahippocampal 2089 1305 3031 2.131 0.518 0.107 0.024 15 1.9 paracentral 2070 1593 3815 2.112 0.472 0.129 0.028 24 2.3 parsopercularis 1062 811 2126 2.080 0.585 0.135 0.031 13 1.3 parsorbitalis 1684 1230 2360 1.765 0.448 0.112 0.025 14 1.6 parstriangularis 1697 1159 1787 1.643 0.386 0.122 0.031 14 2.2 pericalcarine 6744 4367 8797 1.812 0.503 0.102 0.023 69 6.1 postcentral 1558 1107 2414 2.016 0.593 0.115 0.027 19 1.7 posteriorcingulate 7374 4837 11120 2.120 0.582 0.100 0.022 53 6.5 precentral 5259 3692 7990 1.994 0.534 0.119 0.026 58 5.3 precuneus 1036 740 2445 2.613 1.210 0.114 0.032 9 1.6 rostralanteriorcingulate 7267 5465 11912 1.911 0.501 0.127 0.030 96 9.3 rostralmiddlefrontal 9455 6957 18057 2.223 0.603 0.126 0.031 104 12.0 superiorfrontal 7291 5106 10636 1.875 0.500 0.117 0.025 89 7.3 superiorparietal 5445 3754 9025 2.177 0.614 0.103 0.021 48 4.7 superiortemporal 6765 4734 10422 1.985 0.506 0.116 0.023 72 6.5 supramarginal 293 277 887 2.319 0.678 0.151 0.043 6 0.4 frontalpole 739 445 1229 2.148 0.849 0.137 0.054 13 1.5 temporalpole 743 433 958 1.957 0.485 0.088 0.017 5 0.4 transversetemporal 3159 2137 5902 2.617 1.028 0.101 0.028 23 3.5 insula @#@FSTIME 2023:08:15:19:56:07 mris_anatomical_stats N 14 e 9.14 S 0.20 U 8.93 P 99% M 451556 F 0 R 130164 W 0 c 68 w 1 I 0 O 32 L 1.01 1.50 2.09 @#@FSLOADPOST 2023:08:15:19:56:16 mris_anatomical_stats N 14 1.16 1.52 2.09 mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab sub-073_ses-BSL lh pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 190936 Total vertex volume 190714 (mask=0) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1336 989 2037 2.079 0.563 0.116 0.025 13 1.4 bankssts 901 778 1406 2.057 0.799 0.175 0.058 103 1.9 caudalanteriorcingulate 2946 2260 4653 2.191 0.497 0.109 0.020 20 2.5 caudalmiddlefrontal 1922 1580 2393 1.722 0.378 0.135 0.033 24 2.2 cuneus 529 717 1415 2.713 0.661 0.291 0.080 15 2.4 entorhinal 4328 3908 8345 2.331 0.630 0.158 0.037 68 7.0 fusiform 5914 4505 8891 2.094 0.513 0.122 0.026 58 6.3 inferiorparietal 4702 4383 9027 2.288 0.670 0.154 0.036 98 7.4 inferiortemporal 1573 1368 2358 1.908 0.708 0.168 0.046 35 2.7 isthmuscingulate 6132 4949 8698 2.009 0.528 0.138 0.035 135 8.1 lateraloccipital 3917 3366 6411 2.077 0.589 0.164 0.043 85 6.8 lateralorbitofrontal 3538 2982 4773 1.826 0.504 0.132 0.031 87 4.3 lingual 2761 2673 5130 2.139 0.695 0.173 0.038 46 4.6 medialorbitofrontal 3951 4119 8679 2.383 0.572 0.169 0.035 56 6.0 middletemporal 905 801 1585 2.304 0.635 0.151 0.036 9 1.5 parahippocampal 2089 1547 3031 2.131 0.518 0.112 0.020 19 1.6 paracentral 2070 2032 3815 2.112 0.472 0.152 0.029 22 2.7 parsopercularis 1062 1212 2126 2.080 0.585 0.175 0.032 11 1.5 parsorbitalis 1684 1376 2360 1.765 0.448 0.143 0.029 19 2.3 parstriangularis 1697 1054 1787 1.643 0.386 0.110 0.028 19 1.8 pericalcarine 6744 5412 8797 1.812 0.503 0.117 0.021 52 6.0 postcentral 1558 1304 2414 2.016 0.593 0.160 0.041 83 2.4 posteriorcingulate 7374 5639 11120 2.120 0.582 0.110 0.020 58 6.0 precentral 5259 4201 7990 1.994 0.534 0.131 0.027 58 5.9 precuneus 1036 1052 2445 2.613 1.210 0.172 0.040 15 1.8 rostralanteriorcingulate 7267 6988 11912 1.911 0.501 0.157 0.031 77 10.3 rostralmiddlefrontal 9455 8942 18057 2.223 0.603 0.151 0.030 115 12.2 superiorfrontal 7291 6216 10636 1.875 0.500 0.139 0.025 75 7.7 superiorparietal 5445 4358 9025 2.177 0.614 0.120 0.023 56 5.2 superiortemporal 6765 5736 10422 1.985 0.506 0.135 0.027 84 8.1 supramarginal 293 510 887 2.319 0.678 0.258 0.046 5 0.6 frontalpole 739 642 1229 2.148 0.849 0.173 0.052 16 1.4 temporalpole 743 561 958 1.957 0.485 0.092 0.014 3 0.4 transversetemporal 3159 2219 5902 2.617 1.028 0.132 0.039 79 5.6 insula @#@FSTIME 2023:08:15:19:56:16 mris_anatomical_stats N 14 e 9.18 S 0.23 U 8.94 P 99% M 451552 F 0 R 130165 W 0 c 53 w 0 I 0 O 32 L 1.16 1.52 2.09 @#@FSLOADPOST 2023:08:15:19:56:25 mris_anatomical_stats N 14 1.13 1.50 2.08 #----------------------------------------- #@# Parcellation Stats rh Tue 15 Aug 19:56:25 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab sub-073_ses-BSL rh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 192717 Total vertex volume 192487 (mask=0) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1072 729 1574 2.227 0.455 0.102 0.018 6 0.9 bankssts 1016 763 1945 2.413 0.686 0.128 0.032 17 1.4 caudalanteriorcingulate 2504 1828 4319 2.136 0.539 0.135 0.032 30 3.3 caudalmiddlefrontal 1951 1294 2569 1.774 0.389 0.126 0.029 22 2.3 cuneus 520 380 1279 2.423 0.752 0.118 0.025 4 0.5 entorhinal 3790 2768 7366 2.286 0.594 0.131 0.029 51 4.3 fusiform 7510 5315 12340 2.093 0.533 0.122 0.027 89 8.0 inferiorparietal 3775 2975 8258 2.298 0.712 0.144 0.036 65 5.5 inferiortemporal 1443 976 2132 1.928 0.660 0.118 0.029 18 1.4 isthmuscingulate 5882 4130 9838 2.023 0.571 0.127 0.030 67 7.0 lateraloccipital 3786 2958 7044 2.202 0.543 0.145 0.042 52 7.1 lateralorbitofrontal 3698 2554 4959 1.770 0.491 0.130 0.031 47 4.6 lingual 3008 2406 5716 2.070 0.563 0.131 0.032 46 4.1 medialorbitofrontal 4365 3259 9007 2.329 0.596 0.125 0.027 54 5.0 middletemporal 955 630 1723 2.255 0.705 0.084 0.021 6 0.6 parahippocampal 2184 1325 3257 2.235 0.525 0.100 0.022 16 1.9 paracentral 1785 1369 3453 2.185 0.570 0.143 0.038 26 3.1 parsopercularis 1020 824 2390 2.235 0.612 0.130 0.030 11 1.0 parsorbitalis 1977 1511 3333 1.937 0.492 0.119 0.030 21 2.5 parstriangularis 1641 1142 1791 1.649 0.364 0.113 0.025 13 1.7 pericalcarine 5679 3618 7267 1.829 0.479 0.093 0.019 43 4.3 postcentral 1623 1157 2574 1.921 0.629 0.120 0.027 21 1.8 posteriorcingulate 7440 4962 11621 2.144 0.584 0.105 0.022 58 6.7 precentral 5368 3909 8270 1.981 0.494 0.129 0.029 58 6.3 precuneus 706 518 1500 2.602 0.757 0.126 0.031 13 0.9 rostralanteriorcingulate 7590 5974 13309 1.941 0.553 0.135 0.034 105 11.3 rostralmiddlefrontal 8877 6583 16285 2.129 0.578 0.129 0.033 96 12.0 superiorfrontal 7216 5098 10630 1.847 0.505 0.108 0.022 74 6.1 superiorparietal 4960 3349 8834 2.334 0.610 0.104 0.020 43 4.1 superiortemporal 5500 3895 8662 2.018 0.534 0.124 0.027 69 5.9 supramarginal 349 390 1208 2.373 0.666 0.201 0.047 11 0.6 frontalpole 596 451 1902 2.948 0.915 0.140 0.044 9 0.9 temporalpole 525 316 589 1.678 0.319 0.097 0.017 4 0.3 transversetemporal 3250 2175 5542 2.422 0.852 0.106 0.035 29 4.0 insula @#@FSTIME 2023:08:15:19:56:25 mris_anatomical_stats N 14 e 8.59 S 0.18 U 8.40 P 99% M 437568 F 0 R 122982 W 0 c 33 w 1 I 0 O 32 L 1.13 1.50 2.08 @#@FSLOADPOST 2023:08:15:19:56:34 mris_anatomical_stats N 14 1.11 1.49 2.06 mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.pial.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab sub-073_ses-BSL rh pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 192717 Total vertex volume 192487 (mask=0) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1072 669 1574 2.227 0.455 0.111 0.029 14 1.2 bankssts 1016 938 1945 2.413 0.686 0.209 0.069 60 3.1 caudalanteriorcingulate 2504 2126 4319 2.136 0.539 0.143 0.034 31 3.3 caudalmiddlefrontal 1951 1695 2569 1.774 0.389 0.149 0.033 23 2.6 cuneus 520 648 1279 2.423 0.752 0.226 0.059 10 1.4 entorhinal 3790 3459 7366 2.286 0.594 0.153 0.036 76 5.8 fusiform 7510 6357 12340 2.093 0.533 0.141 0.030 93 9.4 inferiorparietal 3775 3925 8258 2.298 0.712 0.169 0.042 71 6.1 inferiortemporal 1443 1242 2132 1.928 0.660 0.177 0.053 39 3.2 isthmuscingulate 5882 5475 9838 2.023 0.571 0.155 0.035 76 8.3 lateraloccipital 3786 3499 7044 2.202 0.543 0.159 0.040 57 6.0 lateralorbitofrontal 3698 3215 4959 1.770 0.491 0.152 0.615 4463 4.7 lingual 3008 3072 5716 2.070 0.563 0.164 0.034 52 4.5 medialorbitofrontal 4365 4351 9007 2.329 0.596 0.162 0.035 94 6.4 middletemporal 955 908 1723 2.255 0.705 0.168 0.050 15 2.7 parahippocampal 2184 1563 3257 2.235 0.525 0.109 0.020 19 1.8 paracentral 1785 1685 3453 2.185 0.570 0.157 0.053 38 2.4 parsopercularis 1020 1258 2390 2.235 0.612 0.179 0.032 13 1.2 parsorbitalis 1977 1939 3333 1.937 0.492 0.153 0.033 30 2.7 parstriangularis 1641 1065 1791 1.649 0.364 0.109 0.026 21 1.5 pericalcarine 5679 4399 7267 1.829 0.479 0.106 0.019 36 4.5 postcentral 1623 1472 2574 1.921 0.629 0.175 0.043 69 3.4 posteriorcingulate 7440 5788 11621 2.144 0.584 0.115 0.021 71 6.6 precentral 5368 4367 8270 1.981 0.494 0.144 0.032 71 7.0 precuneus 706 647 1500 2.602 0.757 0.184 0.050 18 1.2 rostralanteriorcingulate 7590 7614 13309 1.941 0.553 0.170 0.036 115 12.1 rostralmiddlefrontal 8877 8487 16285 2.129 0.578 0.163 0.035 136 13.2 superiorfrontal 7216 6330 10630 1.847 0.505 0.133 0.023 68 7.2 superiorparietal 4960 4109 8834 2.334 0.610 0.121 0.022 46 4.6 superiortemporal 5500 4678 8662 2.018 0.534 0.141 0.030 63 7.0 supramarginal 349 674 1208 2.373 0.666 0.303 0.053 6 0.8 frontalpole 596 808 1902 2.948 0.915 0.243 0.058 11 1.6 temporalpole 525 406 589 1.678 0.319 0.097 0.011 2 0.2 transversetemporal 3250 2338 5542 2.422 0.852 0.145 0.042 82 6.2 insula @#@FSTIME 2023:08:15:19:56:34 mris_anatomical_stats N 14 e 9.48 S 0.24 U 9.23 P 99% M 437640 F 0 R 122981 W 0 c 38 w 1 I 0 O 32 L 1.11 1.49 2.06 @#@FSLOADPOST 2023:08:15:19:56:43 mris_anatomical_stats N 14 1.25 1.50 2.06 #----------------------------------------- #@# Parcellation Stats 2 lh Tue 15 Aug 19:56:44 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.a2009s.stats -b -a ../label/lh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab sub-073_ses-BSL lh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/lh.aparc.a2009s.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 190936 Total vertex volume 190714 (mask=0) Saving annotation colortable ../label/aparc.annot.a2009s.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 991 780 1796 1.891 0.569 0.141 0.036 12 1.5 G_and_S_frontomargin 1341 907 2435 2.252 0.634 0.129 0.030 16 1.4 G_and_S_occipital_inf 1569 979 2516 2.183 0.531 0.119 0.029 14 1.9 G_and_S_paracentral 1491 1077 2740 2.159 0.533 0.133 0.031 18 1.9 G_and_S_subcentral 605 566 1382 1.923 0.572 0.174 0.044 23 1.2 G_and_S_transv_frontopol 1914 1380 3841 2.435 0.915 0.118 0.031 15 2.7 G_and_S_cingul-Ant 1141 779 1546 1.923 0.456 0.106 0.023 10 1.0 G_and_S_cingul-Mid-Ant 1186 847 1848 2.085 0.442 0.112 0.024 9 1.1 G_and_S_cingul-Mid-Post 491 383 1309 2.562 0.527 0.157 0.039 8 0.7 G_cingul-Post-dorsal 276 218 511 2.109 0.768 0.170 0.047 6 0.6 G_cingul-Post-ventral 1791 1191 2525 1.814 0.412 0.136 0.035 26 2.5 G_cuneus 1300 1038 2852 2.254 0.426 0.138 0.034 17 1.6 G_front_inf-Opercular 326 253 766 2.323 0.299 0.136 0.031 5 0.3 G_front_inf-Orbital 1318 986 2352 1.992 0.495 0.137 0.035 20 1.7 G_front_inf-Triangul 3477 2564 6845 2.171 0.489 0.133 0.034 52 4.7 G_front_middle 6789 5110 15020 2.368 0.600 0.140 0.037 97 9.9 G_front_sup 641 431 1265 2.692 0.809 0.117 0.036 7 0.9 G_Ins_lg_and_S_cent_ins 546 404 1891 3.635 0.845 0.110 0.029 5 0.8 G_insular_short 1761 1000 2694 2.210 0.506 0.107 0.031 24 1.8 G_occipital_middle 1225 799 1863 1.962 0.481 0.122 0.027 15 1.2 G_occipital_sup 1991 1433 4487 2.561 0.598 0.140 0.033 30 2.6 G_oc-temp_lat-fusifor 2461 1628 3727 1.944 0.484 0.136 0.036 34 3.4 G_oc-temp_med-Lingual 1261 855 2920 2.577 0.664 0.108 0.032 14 1.3 G_oc-temp_med-Parahip 2453 1902 5121 2.165 0.613 0.146 0.041 40 4.1 G_orbital 2366 1666 4667 2.271 0.498 0.128 0.030 42 2.6 G_pariet_inf-Angular 3249 2289 5680 2.095 0.514 0.119 0.023 40 2.9 G_pariet_inf-Supramar 2935 2125 4972 1.964 0.527 0.121 0.026 40 2.8 G_parietal_sup 2840 1698 3825 1.891 0.487 0.107 0.029 42 2.9 G_postcentral 2708 1675 5141 2.423 0.565 0.105 0.027 28 2.6 G_precentral 2553 1868 5300 2.259 0.531 0.142 0.036 48 3.1 G_precuneus 834 725 2109 2.254 0.556 0.154 0.043 24 1.5 G_rectus 503 325 762 2.097 0.957 0.107 0.033 5 0.5 G_subcallosal 610 355 916 2.124 0.475 0.100 0.021 5 0.5 G_temp_sup-G_T_transv 1739 1261 4226 2.557 0.591 0.134 0.033 31 2.1 G_temp_sup-Lateral 767 544 1647 2.680 0.821 0.087 0.022 4 0.5 G_temp_sup-Plan_polar 994 717 1786 2.169 0.423 0.099 0.022 11 1.0 G_temp_sup-Plan_tempo 2374 1793 5635 2.452 0.766 0.139 0.040 44 3.8 G_temporal_inf 2225 1868 6314 2.626 0.539 0.160 0.039 47 3.7 G_temporal_middle 231 174 274 1.632 0.365 0.128 0.030 2 0.3 Lat_Fis-ant-Horizont 171 124 202 1.616 0.326 0.096 0.013 1 0.1 Lat_Fis-ant-Vertical 1094 728 1059 1.728 0.399 0.104 0.019 5 1.0 Lat_Fis-post 1874 1097 2311 1.810 0.446 0.116 0.031 21 2.2 Pole_occipital 1658 1106 3034 2.146 0.738 0.144 0.048 30 3.2 Pole_temporal 2118 1432 2088 1.610 0.502 0.108 0.024 14 2.1 S_calcarine 3157 2144 3204 1.655 0.491 0.087 0.015 11 2.2 S_central 1094 731 1215 1.807 0.401 0.085 0.013 4 0.6 S_cingul-Marginalis 524 375 623 1.929 0.401 0.151 0.058 5 1.4 S_circular_insula_ant 1546 1004 1959 2.167 0.988 0.075 0.011 4 0.8 S_circular_insula_inf 1631 1077 1895 1.988 0.583 0.096 0.024 8 1.7 S_circular_insula_sup 1016 681 1215 1.935 0.433 0.098 0.014 5 0.7 S_collat_transv_ant 381 274 575 1.974 0.555 0.134 0.027 3 0.5 S_collat_transv_post 2308 1617 2982 1.843 0.504 0.100 0.019 13 1.9 S_front_inf 1098 785 1389 1.729 0.463 0.099 0.018 7 0.8 S_front_middle 2521 1714 3428 1.969 0.565 0.090 0.020 14 2.1 S_front_sup 484 338 476 1.642 0.298 0.102 0.015 3 0.3 S_interm_prim-Jensen 2709 1893 3127 1.751 0.371 0.108 0.021 25 2.5 S_intrapariet_and_P_trans 845 518 1006 1.914 0.500 0.114 0.026 9 0.8 S_oc_middle_and_Lunatus 1471 1004 1701 1.761 0.467 0.116 0.021 11 1.4 S_oc_sup_and_transversal 483 333 622 2.137 0.364 0.116 0.027 3 0.5 S_occipital_ant 721 528 1139 2.108 0.546 0.135 0.028 7 0.9 S_oc-temp_lat 1644 1127 1973 1.901 0.402 0.098 0.018 9 1.2 S_oc-temp_med_and_Lingual 492 397 638 1.553 0.372 0.133 0.027 4 0.7 S_orbital_lateral 690 458 797 1.915 0.610 0.107 0.021 6 0.6 S_orbital_med-olfact 1502 1076 2277 2.070 0.578 0.129 0.034 13 2.2 S_orbital-H_Shaped 1843 1215 1939 1.742 0.433 0.103 0.017 12 1.5 S_parieto_occipital 1506 927 1263 1.641 0.699 0.088 0.020 18 1.2 S_pericallosal 3297 2244 3725 1.751 0.428 0.106 0.021 24 3.1 S_postcentral 1695 1119 2126 1.985 0.444 0.095 0.017 9 1.3 S_precentral-inf-part 1326 865 1521 1.900 0.429 0.077 0.012 5 0.7 S_precentral-sup-part 698 518 1120 2.197 0.805 0.138 0.028 7 0.9 S_suborbital 1120 782 1343 1.869 0.396 0.120 0.023 8 1.2 S_subparietal 1636 1156 2268 2.142 0.464 0.122 0.029 15 2.3 S_temporal_inf 5100 3480 6629 2.017 0.453 0.102 0.019 30 4.6 S_temporal_sup 359 241 341 1.616 0.342 0.107 0.015 3 0.3 S_temporal_transverse @#@FSTIME 2023:08:15:19:56:44 mris_anatomical_stats N 14 e 10.28 S 0.21 U 10.07 P 99% M 451372 F 0 R 130069 W 0 c 30 w 1 I 0 O 48 L 1.25 1.50 2.06 @#@FSLOADPOST 2023:08:15:19:56:54 mris_anatomical_stats N 14 1.45 1.54 2.07 #----------------------------------------- #@# Parcellation Stats 2 rh Tue 15 Aug 19:56:54 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.a2009s.stats -b -a ../label/rh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab sub-073_ses-BSL rh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/rh.aparc.a2009s.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 192717 Total vertex volume 192487 (mask=0) Saving annotation colortable ../label/aparc.annot.a2009s.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 691 621 1517 1.978 0.692 0.168 0.043 15 1.2 G_and_S_frontomargin 957 731 1940 2.150 0.651 0.144 0.028 12 1.1 G_and_S_occipital_inf 1366 829 2169 2.169 0.492 0.111 0.027 15 1.4 G_and_S_paracentral 1185 830 2015 2.140 0.492 0.123 0.029 13 1.3 G_and_S_subcentral 921 892 2452 2.199 0.614 0.167 0.039 22 1.6 G_and_S_transv_frontopol 2829 2085 4710 2.112 0.585 0.119 0.028 33 3.5 G_and_S_cingul-Ant 1190 886 1960 2.141 0.562 0.125 0.028 14 1.6 G_and_S_cingul-Mid-Ant 1238 885 1970 2.092 0.483 0.113 0.026 10 1.3 G_and_S_cingul-Mid-Post 463 361 1151 2.391 0.541 0.144 0.035 7 0.5 G_cingul-Post-dorsal 294 212 546 2.148 0.676 0.142 0.038 5 0.4 G_cingul-Post-ventral 1769 1198 2531 1.804 0.384 0.135 0.034 22 2.3 G_cuneus 1171 947 2907 2.367 0.586 0.160 0.044 24 2.2 G_front_inf-Opercular 389 319 936 2.284 0.438 0.135 0.033 5 0.5 G_front_inf-Orbital 814 664 1787 2.173 0.486 0.130 0.030 11 1.0 G_front_inf-Triangul 3714 3054 8516 2.234 0.498 0.159 0.042 68 6.5 G_front_middle 5850 4466 13020 2.333 0.584 0.149 0.042 89 10.0 G_front_sup 580 397 1199 2.841 0.929 0.107 0.037 5 0.8 G_Ins_lg_and_S_cent_ins 769 598 1964 2.634 0.937 0.144 0.052 11 1.4 G_insular_short 2149 1531 4858 2.379 0.589 0.132 0.032 33 2.4 G_occipital_middle 1244 852 1993 1.946 0.503 0.121 0.025 15 1.3 G_occipital_sup 1605 1137 3159 2.288 0.563 0.128 0.028 23 1.8 G_oc-temp_lat-fusifor 2355 1594 3537 1.908 0.498 0.129 0.034 32 2.9 G_oc-temp_med-Lingual 1228 852 3145 2.581 0.714 0.114 0.034 14 1.4 G_oc-temp_med-Parahip 2260 1949 6207 2.442 0.593 0.154 0.042 41 3.8 G_orbital 2717 1973 5199 2.181 0.575 0.145 0.036 48 3.7 G_pariet_inf-Angular 3061 2225 5694 2.213 0.543 0.136 0.030 48 3.5 G_pariet_inf-Supramar 2075 1567 4229 2.098 0.515 0.126 0.028 33 2.1 G_parietal_sup 2122 1262 3004 1.943 0.444 0.103 0.024 23 1.9 G_postcentral 2881 1852 5825 2.456 0.565 0.105 0.023 27 2.5 G_precentral 2531 1932 5040 2.160 0.500 0.144 0.037 41 3.3 G_precuneus 781 757 2099 2.215 0.496 0.160 0.042 17 1.2 G_rectus 564 406 939 2.296 0.748 0.146 0.047 10 1.1 G_subcallosal 394 227 482 1.784 0.292 0.104 0.017 3 0.2 G_temp_sup-G_T_transv 1544 1093 4017 2.717 0.477 0.130 0.033 21 1.9 G_temp_sup-Lateral 835 571 1548 2.560 0.786 0.069 0.015 2 0.5 G_temp_sup-Plan_polar 821 537 1270 2.138 0.606 0.088 0.017 6 0.5 G_temp_sup-Plan_tempo 2116 1741 5790 2.486 0.801 0.163 0.045 50 3.9 G_temporal_inf 2257 1836 6130 2.533 0.642 0.144 0.035 38 3.2 G_temporal_middle 305 210 337 1.616 0.380 0.073 0.010 1 0.1 Lat_Fis-ant-Horizont 251 178 300 1.749 0.295 0.088 0.013 1 0.1 Lat_Fis-ant-Vertical 1401 885 1419 1.804 0.447 0.094 0.019 6 1.2 Lat_Fis-post 2634 1772 3449 1.771 0.438 0.134 0.036 32 3.8 Pole_occipital 1734 1332 4403 2.454 0.758 0.148 0.042 33 2.7 Pole_temporal 1876 1313 1951 1.633 0.454 0.106 0.021 11 1.7 S_calcarine 2795 1909 2809 1.645 0.473 0.089 0.015 12 1.9 S_central 1195 810 1411 1.867 0.446 0.093 0.016 5 0.8 S_cingul-Marginalis 503 341 622 2.159 0.385 0.134 0.052 4 1.3 S_circular_insula_ant 1127 698 1327 2.131 0.853 0.071 0.011 4 0.5 S_circular_insula_inf 1269 812 1435 2.066 0.405 0.101 0.032 9 1.5 S_circular_insula_sup 774 557 1102 2.083 0.407 0.106 0.017 6 0.6 S_collat_transv_ant 445 313 472 1.669 0.287 0.120 0.024 3 0.5 S_collat_transv_post 1750 1202 1927 1.747 0.444 0.114 0.031 14 2.4 S_front_inf 2050 1433 2318 1.684 0.412 0.093 0.020 11 1.7 S_front_middle 2504 1723 3228 1.856 0.530 0.099 0.018 13 2.1 S_front_sup 356 271 649 1.980 0.526 0.144 0.037 5 0.6 S_interm_prim-Jensen 3751 2581 4278 1.717 0.442 0.093 0.015 22 2.6 S_intrapariet_and_P_trans 583 405 666 1.798 0.322 0.105 0.017 3 0.4 S_oc_middle_and_Lunatus 1154 795 1289 1.765 0.454 0.098 0.016 6 0.9 S_oc_sup_and_transversal 570 427 918 2.098 0.479 0.130 0.027 5 0.7 S_occipital_ant 888 672 1386 2.010 0.596 0.134 0.025 9 1.0 S_oc-temp_lat 1686 1164 2158 1.920 0.489 0.101 0.017 14 1.1 S_oc-temp_med_and_Lingual 451 321 453 1.599 0.297 0.110 0.033 3 0.7 S_orbital_lateral 846 587 1031 2.011 0.532 0.107 0.020 5 0.7 S_orbital_med-olfact 1535 1143 2302 1.979 0.458 0.132 0.036 17 2.6 S_orbital-H_Shaped 2007 1340 2250 1.797 0.453 0.105 0.018 14 1.6 S_parieto_occipital 1533 934 1380 1.762 0.772 0.101 0.022 20 1.3 S_pericallosal 2329 1542 2463 1.707 0.388 0.080 0.014 11 1.3 S_postcentral 1616 1138 1965 1.978 0.438 0.129 0.029 18 2.3 S_precentral-inf-part 1398 957 1718 1.891 0.495 0.102 0.019 8 1.1 S_precentral-sup-part 232 182 415 2.192 0.638 0.134 0.027 2 0.2 S_suborbital 1143 832 1626 1.987 0.408 0.140 0.033 12 1.8 S_subparietal 1137 779 1330 2.065 0.401 0.109 0.019 7 1.0 S_temporal_inf 5694 3873 7877 2.113 0.456 0.104 0.020 39 4.8 S_temporal_sup 309 227 367 1.805 0.392 0.144 0.018 3 0.3 S_temporal_transverse @#@FSTIME 2023:08:15:19:56:54 mris_anatomical_stats N 14 e 10.18 S 0.19 U 9.98 P 99% M 437464 F 0 R 126043 W 0 c 136 w 1 I 0 O 56 L 1.45 1.54 2.07 @#@FSLOADPOST 2023:08:15:19:57:04 mris_anatomical_stats N 14 1.61 1.57 2.07 #----------------------------------------- #@# Parcellation Stats 3 lh Tue 15 Aug 19:57:04 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.DKTatlas.stats -b -a ../label/lh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab sub-073_ses-BSL lh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 190936 Total vertex volume 190714 (mask=0) Saving annotation colortable ../label/aparc.annot.DKTatlas.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1659 1121 2460 2.044 0.637 0.110 0.024 18 1.7 caudalanteriorcingulate 3175 2097 4997 2.179 0.498 0.096 0.022 22 2.6 caudalmiddlefrontal 2574 1712 3234 1.743 0.412 0.123 0.028 29 2.9 cuneus 542 383 1411 2.696 0.662 0.123 0.038 7 0.7 entorhinal 3941 2817 7484 2.325 0.629 0.133 0.029 47 4.8 fusiform 6091 4140 9320 2.090 0.511 0.118 0.027 76 6.5 inferiorparietal 4622 3421 9343 2.301 0.687 0.132 0.035 70 6.6 inferiortemporal 1557 1093 2338 1.914 0.706 0.120 0.027 18 1.8 isthmuscingulate 6265 3882 8923 2.011 0.523 0.118 0.029 70 6.7 lateraloccipital 4153 3076 7426 2.154 0.620 0.140 0.039 54 7.0 lateralorbitofrontal 3651 2432 4925 1.825 0.511 0.121 0.030 40 4.2 lingual 2318 1821 4685 2.186 0.685 0.137 0.036 45 3.2 medialorbitofrontal 5358 4034 10572 2.309 0.559 0.136 0.030 74 7.3 middletemporal 934 609 1654 2.312 0.636 0.082 0.021 5 0.6 parahippocampal 2538 1605 3734 2.159 0.535 0.105 0.023 18 2.4 paracentral 1939 1476 3513 2.118 0.464 0.130 0.030 23 2.4 parsopercularis 1036 767 1671 1.928 0.490 0.136 0.035 13 1.4 parsorbitalis 2339 1722 3588 1.835 0.482 0.114 0.025 23 2.2 parstriangularis 1657 1139 1755 1.653 0.391 0.121 0.031 14 2.0 pericalcarine 7569 4939 9886 1.813 0.505 0.104 0.024 79 7.1 postcentral 1685 1184 2548 2.014 0.572 0.115 0.026 20 1.8 posteriorcingulate 7297 4783 10943 2.121 0.581 0.101 0.022 53 6.5 precentral 5111 3617 8071 2.025 0.530 0.122 0.027 59 5.3 precuneus 1413 984 2853 2.439 1.138 0.112 0.031 12 1.9 rostralanteriorcingulate 5137 3847 8513 1.944 0.518 0.126 0.030 58 6.7 rostralmiddlefrontal 9903 7467 19249 2.171 0.624 0.129 0.032 127 12.9 superiorfrontal 5840 4114 8430 1.863 0.501 0.115 0.024 66 5.5 superiorparietal 7180 4862 11834 2.176 0.645 0.106 0.025 69 6.8 superiortemporal 6193 4322 9253 1.962 0.500 0.115 0.022 64 5.9 supramarginal 742 431 954 1.948 0.485 0.088 0.017 5 0.4 transversetemporal 2666 1805 5146 2.645 1.078 0.100 0.027 19 3.1 insula @#@FSTIME 2023:08:15:19:57:04 mris_anatomical_stats N 14 e 9.96 S 0.20 U 9.76 P 99% M 451604 F 0 R 130164 W 0 c 36 w 1 I 0 O 32 L 1.61 1.57 2.07 @#@FSLOADPOST 2023:08:15:19:57:14 mris_anatomical_stats N 14 1.52 1.55 2.06 #----------------------------------------- #@# Parcellation Stats 3 rh Tue 15 Aug 19:57:14 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.DKTatlas.stats -b -a ../label/rh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab sub-073_ses-BSL rh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 192717 Total vertex volume 192487 (mask=0) Saving annotation colortable ../label/aparc.annot.DKTatlas.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1139 854 2151 2.359 0.696 0.130 0.033 19 1.6 caudalanteriorcingulate 2672 1940 4644 2.142 0.542 0.135 0.032 33 3.5 caudalmiddlefrontal 2339 1551 3127 1.797 0.402 0.122 0.027 25 2.6 cuneus 475 347 1233 2.437 0.796 0.117 0.028 4 0.5 entorhinal 3405 2445 6184 2.250 0.552 0.127 0.027 43 3.7 fusiform 7437 5260 12176 2.085 0.531 0.122 0.027 90 7.9 inferiorparietal 4191 3343 9521 2.313 0.729 0.147 0.038 76 6.6 inferiortemporal 1430 966 2113 1.926 0.660 0.118 0.029 18 1.4 isthmuscingulate 6024 4218 10071 2.025 0.566 0.128 0.029 67 6.9 lateraloccipital 4223 3354 8371 2.212 0.601 0.145 0.041 65 7.2 lateralorbitofrontal 3609 2504 4849 1.766 0.493 0.129 0.031 44 4.5 lingual 2273 1868 4632 2.142 0.585 0.136 0.035 37 3.2 medialorbitofrontal 5096 3767 10164 2.337 0.581 0.125 0.027 60 5.8 middletemporal 1015 673 1839 2.264 0.699 0.085 0.022 7 0.6 parahippocampal 2282 1396 3478 2.250 0.526 0.101 0.023 17 2.0 paracentral 1954 1483 3705 2.165 0.560 0.139 0.035 27 3.0 parsopercularis 950 721 1872 2.177 0.538 0.129 0.034 9 1.5 parsorbitalis 1933 1473 3116 1.879 0.506 0.121 0.031 21 2.5 parstriangularis 1622 1125 1779 1.665 0.378 0.112 0.025 12 1.6 pericalcarine 6186 3960 7873 1.823 0.483 0.095 0.020 48 4.7 postcentral 1677 1191 2641 1.933 0.604 0.121 0.027 22 1.8 posteriorcingulate 7138 4754 11259 2.155 0.584 0.105 0.022 56 6.4 precentral 5436 3989 8491 1.980 0.501 0.131 0.030 61 6.4 precuneus 983 708 1878 2.406 0.788 0.117 0.029 17 1.3 rostralanteriorcingulate 5415 4222 9032 1.902 0.507 0.132 0.034 66 8.1 rostralmiddlefrontal 11556 8824 21617 2.103 0.577 0.133 0.033 140 15.9 superiorfrontal 6161 4335 8973 1.839 0.507 0.104 0.021 61 5.0 superiorparietal 6324 4300 11725 2.367 0.661 0.106 0.022 56 5.6 superiortemporal 5278 3747 8387 2.020 0.535 0.122 0.027 65 5.5 supramarginal 520 314 593 1.692 0.320 0.097 0.017 4 0.3 transversetemporal 2818 1899 4992 2.470 0.851 0.105 0.034 25 3.5 insula @#@FSTIME 2023:08:15:19:57:14 mris_anatomical_stats N 14 e 8.74 S 0.24 U 8.50 P 99% M 437680 F 0 R 122980 W 0 c 61 w 0 I 0 O 32 L 1.52 1.55 2.06 @#@FSLOADPOST 2023:08:15:19:57:23 mris_anatomical_stats N 14 1.59 1.56 2.06 #-------------------------------------------- #@# ASeg Stats Tue 15 Aug 19:57:23 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL mri_segstats --seed 1234 --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --supratent --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /home/rosalia/software/freesurfer/ASegStatsLUT.txt --subject sub-073_ses-BSL /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 7.3.1 cwd cmdline mri_segstats --seed 1234 --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --supratent --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /home/rosalia/software/freesurfer/ASegStatsLUT.txt --subject sub-073_ses-BSL sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) Computing euler number orig.nofix lheno = -30, rheno = -36 orig.nofix lhholes = 16, rhholes = 19 Loading mri/aseg.mgz Getting Brain Volume Statistics Loading mri/norm.mgz Loading mri/norm.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 50 segmentations Computing statistics for each segmentation Reporting on 45 segmentations Using PrintSegStat mri_segstats done @#@FSTIME 2023:08:15:19:57:23 mri_segstats N 32 e 183.49 S 0.57 U 182.88 P 99% M 265500 F 0 R 756209 W 0 c 1434 w 1 I 0 O 24 L 1.59 1.56 2.06 @#@FSLOADPOST 2023:08:15:20:00:26 mri_segstats N 32 1.03 1.30 1.86 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label #-------------------------------------------- #@# BA_exvivo Labels lh Tue 15 Aug 20:00:26 CEST 2023 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA1_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA1_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA1_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA1_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4129 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4129 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 244 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.label 4373 mri_label2label: Done @#@FSTIME 2023:08:15:20:00:26 mri_label2label N 12 e 4.92 S 0.25 U 4.67 P 99% M 537376 F 0 R 157573 W 0 c 21 w 1 I 0 O 296 L 1.03 1.30 1.86 @#@FSLOADPOST 2023:08:15:20:00:31 mri_label2label N 12 1.02 1.30 1.86 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA2_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA2_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA2_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA2_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 7909 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 7909 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 449 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.label 8358 mri_label2label: Done @#@FSTIME 2023:08:15:20:00:31 mri_label2label N 12 e 5.56 S 0.22 U 5.33 P 99% M 537372 F 0 R 157641 W 0 c 27 w 1 I 0 O 544 L 1.02 1.30 1.86 @#@FSLOADPOST 2023:08:15:20:00:37 mri_label2label N 12 1.02 1.29 1.85 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3a_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA3a_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA3a_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4077 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4077 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 33 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.label 4110 mri_label2label: Done @#@FSTIME 2023:08:15:20:00:37 mri_label2label N 12 e 4.92 S 0.26 U 4.66 P 99% M 537284 F 0 R 157568 W 0 c 20 w 1 I 0 O 232 L 1.02 1.29 1.85 @#@FSLOADPOST 2023:08:15:20:00:42 mri_label2label N 12 1.10 1.30 1.86 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3b_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA3b_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA3b_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 5983 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5983 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 156 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.label 6139 mri_label2label: Done @#@FSTIME 2023:08:15:20:00:42 mri_label2label N 12 e 5.24 S 0.25 U 4.98 P 99% M 537316 F 0 R 157605 W 0 c 20 w 1 I 0 O 376 L 1.10 1.30 1.86 @#@FSLOADPOST 2023:08:15:20:00:47 mri_label2label N 12 1.17 1.32 1.86 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4a_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA4a_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 5784 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5784 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 141 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.label 5925 mri_label2label: Done @#@FSTIME 2023:08:15:20:00:47 mri_label2label N 12 e 5.17 S 0.29 U 4.88 P 99% M 537372 F 0 R 157600 W 0 c 28 w 1 I 0 O 360 L 1.17 1.32 1.86 @#@FSLOADPOST 2023:08:15:20:00:52 mri_label2label N 12 1.24 1.33 1.86 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4p_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA4p_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA4p_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4070 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4070 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 74 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.label 4144 mri_label2label: Done @#@FSTIME 2023:08:15:20:00:52 mri_label2label N 12 e 4.72 S 0.23 U 4.48 P 99% M 537208 F 0 R 157571 W 0 c 22 w 1 I 0 O 248 L 1.24 1.33 1.86 @#@FSLOADPOST 2023:08:15:20:00:57 mri_label2label N 12 1.30 1.34 1.86 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA6_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA6_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA6_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA6_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 13589 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 13589 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 554 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.label 14143 mri_label2label: Done @#@FSTIME 2023:08:15:20:00:57 mri_label2label N 12 e 6.54 S 0.28 U 6.25 P 99% M 537912 F 0 R 157740 W 0 c 36 w 1 I 0 O 880 L 1.30 1.34 1.86 @#@FSLOADPOST 2023:08:15:20:01:04 mri_label2label N 12 1.33 1.34 1.85 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA44_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA44_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA44_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA44_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4181 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4181 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 118 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.label 4299 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:04 mri_label2label N 12 e 4.94 S 0.26 U 4.68 P 99% M 537292 F 0 R 157570 W 0 c 27 w 1 I 0 O 256 L 1.33 1.34 1.85 @#@FSLOADPOST 2023:08:15:20:01:09 mri_label2label N 12 1.30 1.34 1.85 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA45_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA45_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA45_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3422 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3422 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 656 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.label 4078 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:09 mri_label2label N 12 e 4.66 S 0.25 U 4.40 P 99% M 537292 F 0 R 157567 W 0 c 15 w 1 I 0 O 288 L 1.30 1.34 1.85 @#@FSLOADPOST 2023:08:15:20:01:13 mri_label2label N 12 1.28 1.33 1.85 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V1_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.V1_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V1_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.V1_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4641 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4641 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 542 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.label 5183 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:13 mri_label2label N 12 e 4.87 S 0.24 U 4.62 P 99% M 537268 F 0 R 157583 W 0 c 17 w 1 I 0 O 392 L 1.28 1.33 1.85 @#@FSLOADPOST 2023:08:15:20:01:18 mri_label2label N 12 1.25 1.33 1.84 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V2_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.V2_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V2_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.V2_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 8114 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 8114 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 1149 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.label 9263 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:18 mri_label2label N 12 e 5.39 S 0.26 U 5.12 P 100% M 537684 F 0 R 157653 W 0 c 18 w 1 I 0 O 704 L 1.25 1.33 1.84 @#@FSLOADPOST 2023:08:15:20:01:24 mri_label2label N 12 1.23 1.32 1.84 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.MT_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.MT_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.MT_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.MT_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2018 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2018 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 152 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.label 2170 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:24 mri_label2label N 12 e 4.41 S 0.24 U 4.16 P 99% M 537216 F 0 R 157531 W 0 c 19 w 1 I 0 O 152 L 1.23 1.32 1.84 @#@FSLOADPOST 2023:08:15:20:01:28 mri_label2label N 12 1.21 1.31 1.83 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.entorhinal_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.entorhinal_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.entorhinal_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1290 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1290 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 32 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.label 1322 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:28 mri_label2label N 12 e 4.29 S 0.23 U 4.05 P 99% M 537180 F 0 R 157522 W 0 c 26 w 1 I 0 O 88 L 1.21 1.31 1.83 @#@FSLOADPOST 2023:08:15:20:01:32 mri_label2label N 12 1.21 1.31 1.83 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.perirhinal_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.perirhinal_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1199 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1199 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 33 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.label 1232 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:32 mri_label2label N 12 e 4.32 S 0.25 U 4.06 P 99% M 537244 F 0 R 157521 W 0 c 22 w 1 I 0 O 80 L 1.21 1.31 1.83 @#@FSLOADPOST 2023:08:15:20:01:37 mri_label2label N 12 1.28 1.33 1.83 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG1.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.FG1.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG1.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.FG1.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 414 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 414 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 67 Checking for and removing duplicates Writing label file ./lh.FG1.mpm.vpnl.label 481 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:37 mri_label2label N 12 e 4.22 S 0.24 U 3.98 P 99% M 537108 F 0 R 157507 W 0 c 13 w 1 I 0 O 40 L 1.28 1.33 1.83 @#@FSLOADPOST 2023:08:15:20:01:41 mri_label2label N 12 1.34 1.34 1.83 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG2.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.FG2.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG2.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.FG2.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 703 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 703 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 138 Checking for and removing duplicates Writing label file ./lh.FG2.mpm.vpnl.label 841 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:41 mri_label2label N 12 e 4.27 S 0.24 U 4.02 P 99% M 536956 F 0 R 154254 W 0 c 20 w 1 I 0 O 72 L 1.34 1.34 1.83 @#@FSLOADPOST 2023:08:15:20:01:45 mri_label2label N 12 1.31 1.33 1.83 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG3.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.FG3.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG3.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.FG3.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1873 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1873 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 86 Checking for and removing duplicates Writing label file ./lh.FG3.mpm.vpnl.label 1959 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:45 mri_label2label N 12 e 4.41 S 0.22 U 4.19 P 100% M 537248 F 0 R 157533 W 0 c 23 w 1 I 0 O 136 L 1.31 1.33 1.83 @#@FSLOADPOST 2023:08:15:20:01:50 mri_label2label N 12 1.28 1.33 1.82 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG4.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.FG4.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.FG4.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.FG4.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2101 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2101 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 268 Checking for and removing duplicates Writing label file ./lh.FG4.mpm.vpnl.label 2369 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:50 mri_label2label N 12 e 4.55 S 0.25 U 4.30 P 99% M 537300 F 0 R 157542 W 0 c 19 w 1 I 0 O 184 L 1.28 1.33 1.82 @#@FSLOADPOST 2023:08:15:20:01:54 mri_label2label N 12 1.26 1.32 1.82 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc1.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.hOc1.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc1.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.hOc1.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3877 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3877 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 421 Checking for and removing duplicates Writing label file ./lh.hOc1.mpm.vpnl.label 4298 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:54 mri_label2label N 12 e 4.89 S 0.26 U 4.62 P 99% M 537420 F 0 R 157573 W 0 c 18 w 1 I 0 O 320 L 1.26 1.32 1.82 @#@FSLOADPOST 2023:08:15:20:01:59 mri_label2label N 12 1.24 1.31 1.81 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc2.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.hOc2.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc2.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.hOc2.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2919 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2919 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 455 Checking for and removing duplicates Writing label file ./lh.hOc2.mpm.vpnl.label 3374 mri_label2label: Done @#@FSTIME 2023:08:15:20:01:59 mri_label2label N 12 e 4.57 S 0.26 U 4.30 P 99% M 537284 F 0 R 157554 W 0 c 18 w 1 I 0 O 264 L 1.24 1.31 1.81 @#@FSLOADPOST 2023:08:15:20:02:04 mri_label2label N 12 1.22 1.31 1.81 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc3v.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.hOc3v.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc3v.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.hOc3v.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1286 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1286 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 268 Checking for and removing duplicates Writing label file ./lh.hOc3v.mpm.vpnl.label 1554 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:04 mri_label2label N 12 e 4.37 S 0.30 U 4.06 P 99% M 536988 F 0 R 154261 W 0 c 26 w 1 I 0 O 136 L 1.22 1.31 1.81 @#@FSLOADPOST 2023:08:15:20:02:08 mri_label2label N 12 1.20 1.30 1.80 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc4v.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./lh.hOc4v.mpm.vpnl.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.hOc4v.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.hOc4v.mpm.vpnl.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1006 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1006 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 155 Checking for and removing duplicates Writing label file ./lh.hOc4v.mpm.vpnl.label 1161 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:08 mri_label2label N 12 e 4.34 S 0.26 U 4.08 P 100% M 537032 F 0 R 154262 W 0 c 18 w 1 I 0 O 96 L 1.20 1.30 1.80 @#@FSLOADPOST 2023:08:15:20:02:13 mri_label2label N 12 1.20 1.30 1.80 mris_label2annot --s sub-073_ses-BSL --ctab /home/rosalia/software/freesurfer/average/colortable_vpnl.txt --hemi lh --a mpm.vpnl --maxstatwinner --noverbose --l lh.FG1.mpm.vpnl.label --l lh.FG2.mpm.vpnl.label --l lh.FG3.mpm.vpnl.label --l lh.FG4.mpm.vpnl.label --l lh.hOc1.mpm.vpnl.label --l lh.hOc2.mpm.vpnl.label --l lh.hOc3v.mpm.vpnl.label --l lh.hOc4v.mpm.vpnl.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ctab /home/rosalia/software/freesurfer/average/colortable_vpnl.txt Number of ctab entries 9 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label cmdline mris_label2annot --s sub-073_ses-BSL --ctab /home/rosalia/software/freesurfer/average/colortable_vpnl.txt --hemi lh --a mpm.vpnl --maxstatwinner --noverbose --l lh.FG1.mpm.vpnl.label --l lh.FG2.mpm.vpnl.label --l lh.FG3.mpm.vpnl.label --l lh.FG4.mpm.vpnl.label --l lh.hOc1.mpm.vpnl.label --l lh.hOc2.mpm.vpnl.label --l lh.hOc3v.mpm.vpnl.label --l lh.hOc4v.mpm.vpnl.label sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia subject sub-073_ses-BSL hemi lh SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI ColorTable /home/rosalia/software/freesurfer/average/colortable_vpnl.txt AnnotName mpm.vpnl nlables 8 LabelThresh 0 0.000000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig 1 1376057 FG1 2 16711935 FG2 3 16711680 FG3 4 1705837 FG4 5 25600 hOc1 6 255 hOc2 7 16776960 hOc3v 8 65535 hOc4v Mapping unhit to unknown Found 113373 unhit vertices Writing annot to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.mpm.vpnl.annot @#@FSTIME 2023:08:15:20:02:13 mris_label2annot N 26 e 0.69 S 0.07 U 0.61 P 99% M 147704 F 0 R 40407 W 0 c 7 w 1 I 0 O 1992 L 1.20 1.30 1.80 @#@FSLOADPOST 2023:08:15:20:02:13 mris_label2annot N 26 1.27 1.32 1.81 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA1_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA1_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA1_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1014 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1014 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 52 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.thresh.label 1066 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:13 mri_label2label N 12 e 4.25 S 0.29 U 3.96 P 99% M 537180 F 0 R 157514 W 0 c 14 w 1 I 0 O 80 L 1.27 1.32 1.81 @#@FSLOADPOST 2023:08:15:20:02:18 mri_label2label N 12 1.27 1.32 1.81 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA2_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA2_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA2_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2092 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2092 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 277 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.thresh.label 2369 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:18 mri_label2label N 12 e 4.44 S 0.24 U 4.19 P 99% M 537268 F 0 R 157535 W 0 c 15 w 1 I 0 O 176 L 1.27 1.32 1.81 @#@FSLOADPOST 2023:08:15:20:02:22 mri_label2label N 12 1.33 1.33 1.81 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3a_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA3a_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA3a_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1504 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1504 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 7 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.thresh.label 1511 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:22 mri_label2label N 12 e 4.31 S 0.22 U 4.09 P 99% M 537168 F 0 R 157525 W 0 c 30 w 1 I 0 O 88 L 1.33 1.33 1.81 @#@FSLOADPOST 2023:08:15:20:02:26 mri_label2label N 12 1.38 1.34 1.81 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3b_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA3b_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA3b_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1996 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1996 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 42 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.thresh.label 2038 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:26 mri_label2label N 12 e 4.41 S 0.26 U 4.14 P 99% M 537072 F 0 R 154270 W 0 c 15 w 1 I 0 O 128 L 1.38 1.34 1.81 @#@FSLOADPOST 2023:08:15:20:02:31 mri_label2label N 12 1.35 1.33 1.80 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4a_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA4a_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2319 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2319 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 63 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.thresh.label 2382 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:31 mri_label2label N 12 e 4.46 S 0.23 U 4.23 P 99% M 537232 F 0 R 157541 W 0 c 30 w 1 I 0 O 160 L 1.35 1.33 1.80 @#@FSLOADPOST 2023:08:15:20:02:35 mri_label2label N 12 1.32 1.33 1.80 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4p_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA4p_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA4p_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1549 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1549 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 19 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.thresh.label 1568 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:35 mri_label2label N 12 e 4.31 S 0.23 U 4.07 P 99% M 537104 F 0 R 154267 W 0 c 25 w 1 I 0 O 96 L 1.32 1.33 1.80 @#@FSLOADPOST 2023:08:15:20:02:40 mri_label2label N 12 1.29 1.32 1.80 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA6_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA6_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA6_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 7035 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 7035 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 257 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.thresh.label 7292 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:40 mri_label2label N 12 e 5.18 S 0.25 U 4.92 P 99% M 537388 F 0 R 157619 W 0 c 23 w 1 I 0 O 440 L 1.29 1.32 1.80 @#@FSLOADPOST 2023:08:15:20:02:45 mri_label2label N 12 1.27 1.32 1.79 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA44_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA44_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA44_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1912 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1912 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 40 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.thresh.label 1952 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:45 mri_label2label N 12 e 4.37 S 0.22 U 4.14 P 100% M 537020 F 0 R 154269 W 0 c 16 w 1 I 0 O 112 L 1.27 1.32 1.79 @#@FSLOADPOST 2023:08:15:20:02:49 mri_label2label N 12 1.25 1.31 1.79 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA45_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.BA45_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1151 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1151 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 238 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.thresh.label 1389 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:49 mri_label2label N 12 e 4.35 S 0.24 U 4.10 P 100% M 537168 F 0 R 157521 W 0 c 22 w 1 I 0 O 104 L 1.25 1.31 1.79 @#@FSLOADPOST 2023:08:15:20:02:54 mri_label2label N 12 1.23 1.31 1.78 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V1_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.V1_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.V1_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3405 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3405 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 365 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.thresh.label 3770 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:54 mri_label2label N 12 e 4.63 S 0.25 U 4.38 P 99% M 537084 F 0 R 154296 W 0 c 24 w 1 I 0 O 288 L 1.23 1.31 1.78 @#@FSLOADPOST 2023:08:15:20:02:58 mri_label2label N 12 1.21 1.30 1.78 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V2_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.V2_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.V2_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3334 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3334 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 493 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.thresh.label 3827 mri_label2label: Done @#@FSTIME 2023:08:15:20:02:58 mri_label2label N 12 e 4.66 S 0.24 U 4.42 P 100% M 537256 F 0 R 157565 W 0 c 25 w 1 I 0 O 296 L 1.21 1.30 1.78 @#@FSLOADPOST 2023:08:15:20:03:03 mri_label2label N 12 1.19 1.29 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.MT_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.MT_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.MT_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 513 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 513 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 21 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.thresh.label 534 mri_label2label: Done @#@FSTIME 2023:08:15:20:03:03 mri_label2label N 12 e 4.21 S 0.24 U 3.97 P 100% M 537028 F 0 R 154252 W 0 c 15 w 1 I 0 O 40 L 1.19 1.29 1.77 @#@FSLOADPOST 2023:08:15:20:03:07 mri_label2label N 12 1.19 1.29 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.entorhinal_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.entorhinal_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.entorhinal_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 470 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 470 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 11 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.thresh.label 481 mri_label2label: Done @#@FSTIME 2023:08:15:20:03:07 mri_label2label N 12 e 4.20 S 0.26 U 3.94 P 100% M 537004 F 0 R 154248 W 0 c 15 w 1 I 0 O 32 L 1.19 1.29 1.77 @#@FSLOADPOST 2023:08:15:20:03:11 mri_label2label N 12 1.26 1.31 1.78 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.perirhinal_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/lh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./lh.perirhinal_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 450 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 450 nlabel points Performing mapping from target back to the source label 127061 Number of reverse mapping hits = 13 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.thresh.label 463 mri_label2label: Done @#@FSTIME 2023:08:15:20:03:11 mri_label2label N 12 e 4.19 S 0.23 U 3.95 P 99% M 536984 F 0 R 154242 W 0 c 28 w 1 I 0 O 32 L 1.26 1.31 1.78 @#@FSLOADPOST 2023:08:15:20:03:16 mri_label2label N 12 1.24 1.30 1.77 mris_label2annot --s sub-073_ses-BSL --hemi lh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.perirhinal_exvivo.label --l lh.entorhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt Number of ctab entries 15 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label cmdline mris_label2annot --s sub-073_ses-BSL --hemi lh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.perirhinal_exvivo.label --l lh.entorhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia subject sub-073_ses-BSL hemi lh SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI ColorTable /home/rosalia/software/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 88299 unhit vertices Writing annot to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.BA_exvivo.annot @#@FSTIME 2023:08:15:20:03:16 mris_label2annot N 38 e 0.74 S 0.06 U 0.67 P 99% M 148232 F 0 R 40504 W 0 c 6 w 1 I 0 O 1992 L 1.24 1.30 1.77 @#@FSLOADPOST 2023:08:15:20:03:16 mris_label2annot N 38 1.24 1.30 1.77 mris_label2annot --s sub-073_ses-BSL --hemi lh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt Number of ctab entries 15 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label cmdline mris_label2annot --s sub-073_ses-BSL --hemi lh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia subject sub-073_ses-BSL hemi lh SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI ColorTable /home/rosalia/software/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 104279 unhit vertices Writing annot to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.BA_exvivo.thresh.annot @#@FSTIME 2023:08:15:20:03:16 mris_label2annot N 38 e 0.65 S 0.05 U 0.60 P 99% M 147988 F 0 R 40432 W 0 c 6 w 1 I 0 O 1992 L 1.24 1.30 1.77 @#@FSLOADPOST 2023:08:15:20:03:17 mris_label2annot N 38 1.24 1.30 1.77 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.stats -b -a ./lh.BA_exvivo.annot -c ./BA_exvivo.ctab sub-073_ses-BSL lh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ./lh.BA_exvivo.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 190936 Total vertex volume 190714 (mask=0) Saving annotation colortable ./BA_exvivo.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 1206 707 1657 1.907 0.471 0.123 0.035 25 1.4 BA1_exvivo 4391 2949 5723 1.866 0.485 0.108 0.024 41 4.3 BA2_exvivo 1019 732 905 1.476 0.270 0.115 0.021 6 0.9 BA3a_exvivo 2409 1574 3141 1.751 0.504 0.093 0.021 18 1.8 BA3b_exvivo 1737 1045 2717 2.263 0.603 0.103 0.028 14 2.0 BA4a_exvivo 1343 831 1770 2.158 0.629 0.083 0.020 6 1.1 BA4p_exvivo 9052 6236 16678 2.271 0.572 0.114 0.027 85 9.4 BA6_exvivo 2082 1518 3484 2.089 0.444 0.116 0.025 19 2.0 BA44_exvivo 2998 2261 4820 1.876 0.485 0.121 0.027 32 3.2 BA45_exvivo 3006 1958 3506 1.707 0.442 0.118 0.032 29 3.8 V1_exvivo 6711 4357 8911 1.841 0.476 0.124 0.029 76 7.6 V2_exvivo 1617 1008 2513 2.230 0.529 0.112 0.027 16 1.5 MT_exvivo 630 455 1515 2.636 0.556 0.125 0.035 7 0.8 perirhinal_exvivo 561 379 1324 2.594 0.733 0.087 0.022 3 0.4 entorhinal_exvivo @#@FSTIME 2023:08:15:20:03:17 mris_anatomical_stats N 12 e 4.27 S 0.21 U 4.05 P 99% M 447404 F 0 R 129136 W 0 c 21 w 1 I 0 O 32 L 1.24 1.30 1.77 @#@FSLOADPOST 2023:08:15:20:03:21 mris_anatomical_stats N 12 1.30 1.31 1.77 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab sub-073_ses-BSL lh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 190936 Total vertex volume 190714 (mask=0) Saving annotation colortable ./BA_exvivo.thresh.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 817 446 1060 1.916 0.421 0.120 0.037 20 1.0 BA1_exvivo 1950 1251 2614 1.903 0.520 0.095 0.022 18 1.7 BA2_exvivo 844 614 727 1.454 0.250 0.122 0.024 5 0.8 BA3a_exvivo 1449 940 1477 1.514 0.285 0.071 0.013 7 0.7 BA3b_exvivo 1672 1005 2551 2.227 0.621 0.097 0.026 12 1.8 BA4a_exvivo 1091 683 1405 2.157 0.654 0.080 0.016 4 0.8 BA4p_exvivo 4968 3438 9130 2.230 0.614 0.117 0.029 50 5.8 BA6_exvivo 1303 996 2462 2.118 0.458 0.133 0.030 16 1.5 BA44_exvivo 1185 932 2065 1.909 0.494 0.132 0.029 15 1.4 BA45_exvivo 3161 2061 3753 1.715 0.444 0.118 0.033 31 4.0 V1_exvivo 3321 2169 4116 1.729 0.418 0.134 0.031 42 4.2 V2_exvivo 393 264 596 2.146 0.454 0.116 0.022 3 0.4 MT_exvivo 284 199 634 2.578 0.525 0.128 0.038 3 0.4 perirhinal_exvivo 344 246 707 2.452 0.489 0.082 0.015 1 0.2 entorhinal_exvivo @#@FSTIME 2023:08:15:20:03:21 mris_anatomical_stats N 12 e 4.36 S 0.18 U 4.17 P 99% M 447480 F 0 R 129140 W 0 c 23 w 1 I 0 O 32 L 1.30 1.31 1.77 @#@FSLOADPOST 2023:08:15:20:03:26 mris_anatomical_stats N 12 1.27 1.31 1.77 #-------------------------------------------- #@# BA_exvivo Labels rh Tue 15 Aug 20:03:26 CEST 2023 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA1_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA1_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA1_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA1_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3962 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3962 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 69 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.label 4031 mri_label2label: Done @#@FSTIME 2023:08:15:20:03:26 mri_label2label N 12 e 4.60 S 0.21 U 4.39 P 99% M 528252 F 0 R 154979 W 0 c 14 w 1 I 0 O 240 L 1.27 1.31 1.77 @#@FSLOADPOST 2023:08:15:20:03:30 mri_label2label N 12 1.25 1.30 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA2_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA2_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA2_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA2_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 6687 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 6687 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 73 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.label 6760 mri_label2label: Done @#@FSTIME 2023:08:15:20:03:30 mri_label2label N 12 e 5.20 S 0.22 U 4.97 P 99% M 528268 F 0 R 155028 W 0 c 22 w 1 I 0 O 376 L 1.25 1.30 1.76 @#@FSLOADPOST 2023:08:15:20:03:36 mri_label2label N 12 1.31 1.31 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3a_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA3a_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA3a_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3980 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3980 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 20 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.label 4000 mri_label2label: Done @#@FSTIME 2023:08:15:20:03:36 mri_label2label N 12 e 4.58 S 0.23 U 4.34 P 99% M 528296 F 0 R 154984 W 0 c 18 w 1 I 0 O 208 L 1.31 1.31 1.77 @#@FSLOADPOST 2023:08:15:20:03:40 mri_label2label N 12 1.37 1.33 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3b_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA3b_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA3b_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4522 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4522 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 62 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.label 4584 mri_label2label: Done @#@FSTIME 2023:08:15:20:03:40 mri_label2label N 12 e 4.67 S 0.25 U 4.41 P 99% M 528260 F 0 R 154993 W 0 c 19 w 1 I 0 O 256 L 1.37 1.33 1.77 @#@FSLOADPOST 2023:08:15:20:03:45 mri_label2label N 12 1.34 1.32 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4a_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA4a_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 5747 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5747 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 144 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.label 5891 mri_label2label: Done @#@FSTIME 2023:08:15:20:03:45 mri_label2label N 12 e 4.84 S 0.24 U 4.59 P 99% M 528308 F 0 R 155012 W 0 c 19 w 1 I 0 O 352 L 1.34 1.32 1.76 @#@FSLOADPOST 2023:08:15:20:03:50 mri_label2label N 12 1.31 1.31 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4p_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA4p_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA4p_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4473 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4473 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 41 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.label 4514 mri_label2label: Done @#@FSTIME 2023:08:15:20:03:50 mri_label2label N 12 e 4.67 S 0.24 U 4.42 P 100% M 528352 F 0 R 154992 W 0 c 27 w 1 I 0 O 248 L 1.31 1.31 1.76 @#@FSLOADPOST 2023:08:15:20:03:55 mri_label2label N 12 1.29 1.31 1.75 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA6_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA6_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA6_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA6_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 12256 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 12256 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 430 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.label 12686 mri_label2label: Done @#@FSTIME 2023:08:15:20:03:55 mri_label2label N 12 e 5.77 S 0.23 U 5.53 P 99% M 528820 F 0 R 155131 W 0 c 63 w 2 I 8 O 736 L 1.29 1.31 1.75 @#@FSLOADPOST 2023:08:15:20:04:00 mri_label2label N 12 1.42 1.34 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA44_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA44_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA44_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA44_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 6912 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 6912 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 321 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.label 7233 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:00 mri_label2label N 12 e 4.98 S 0.21 U 4.77 P 100% M 528324 F 0 R 155034 W 0 c 26 w 1 I 0 O 416 L 1.42 1.34 1.76 @#@FSLOADPOST 2023:08:15:20:04:05 mri_label2label N 12 1.47 1.35 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA45_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA45_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA45_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 5355 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5355 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 378 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.label 5733 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:05 mri_label2label N 12 e 4.98 S 0.27 U 4.70 P 99% M 528304 F 0 R 155008 W 0 c 25 w 1 I 0 O 368 L 1.47 1.35 1.76 @#@FSLOADPOST 2023:08:15:20:04:10 mri_label2label N 12 1.59 1.38 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V1_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.V1_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V1_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.V1_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 4727 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4727 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 523 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.label 5250 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:10 mri_label2label N 12 e 4.73 S 0.26 U 4.46 P 99% M 528168 F 0 R 154996 W 0 c 29 w 1 I 0 O 384 L 1.59 1.38 1.77 @#@FSLOADPOST 2023:08:15:20:04:15 mri_label2label N 12 1.70 1.40 1.78 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V2_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.V2_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V2_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.V2_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 8016 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 8016 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 1046 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.label 9062 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:15 mri_label2label N 12 e 5.21 S 0.19 U 5.02 P 99% M 528564 F 0 R 155060 W 0 c 20 w 1 I 0 O 664 L 1.70 1.40 1.78 @#@FSLOADPOST 2023:08:15:20:04:20 mri_label2label N 12 1.73 1.41 1.78 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.MT_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.MT_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.MT_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.MT_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1932 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1932 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 195 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.label 2127 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:20 mri_label2label N 12 e 4.26 S 0.23 U 4.02 P 100% M 528228 F 0 R 154946 W 0 c 21 w 1 I 0 O 160 L 1.73 1.41 1.78 @#@FSLOADPOST 2023:08:15:20:04:25 mri_label2label N 12 1.67 1.41 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.entorhinal_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.entorhinal_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.entorhinal_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1038 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1038 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 55 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.label 1093 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:25 mri_label2label N 12 e 4.15 S 0.24 U 3.90 P 99% M 528084 F 0 R 151779 W 0 c 14 w 1 I 0 O 72 L 1.67 1.41 1.77 @#@FSLOADPOST 2023:08:15:20:04:29 mri_label2label N 12 1.62 1.40 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.perirhinal_exvivo.label --trgsubject sub-073_ses-BSL --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.perirhinal_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 752 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 752 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 41 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.label 793 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:29 mri_label2label N 12 e 4.10 S 0.24 U 3.86 P 99% M 528024 F 0 R 151773 W 0 c 20 w 1 I 0 O 56 L 1.62 1.40 1.77 @#@FSLOADPOST 2023:08:15:20:04:33 mri_label2label N 12 1.57 1.39 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG1.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.FG1.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG1.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.FG1.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 541 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 541 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 95 Checking for and removing duplicates Writing label file ./rh.FG1.mpm.vpnl.label 636 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:33 mri_label2label N 12 e 4.05 S 0.21 U 3.83 P 99% M 528068 F 0 R 151766 W 0 c 26 w 1 I 0 O 56 L 1.57 1.39 1.76 @#@FSLOADPOST 2023:08:15:20:04:37 mri_label2label N 12 1.57 1.39 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG2.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.FG2.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG2.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.FG2.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 721 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 721 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 103 Checking for and removing duplicates Writing label file ./rh.FG2.mpm.vpnl.label 824 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:37 mri_label2label N 12 e 4.13 S 0.24 U 3.88 P 99% M 528076 F 0 R 154925 W 0 c 18 w 1 I 0 O 72 L 1.57 1.39 1.76 @#@FSLOADPOST 2023:08:15:20:04:41 mri_label2label N 12 1.68 1.42 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG3.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.FG3.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG3.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.FG3.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1523 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1523 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 84 Checking for and removing duplicates Writing label file ./rh.FG3.mpm.vpnl.label 1607 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:41 mri_label2label N 12 e 4.26 S 0.25 U 4.00 P 99% M 528156 F 0 R 151787 W 0 c 19 w 1 I 0 O 112 L 1.68 1.42 1.77 @#@FSLOADPOST 2023:08:15:20:04:45 mri_label2label N 12 1.63 1.41 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG4.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.FG4.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.FG4.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.FG4.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1586 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1586 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 150 Checking for and removing duplicates Writing label file ./rh.FG4.mpm.vpnl.label 1736 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:45 mri_label2label N 12 e 4.22 S 0.26 U 3.95 P 100% M 528132 F 0 R 154938 W 0 c 22 w 1 I 0 O 128 L 1.63 1.41 1.77 @#@FSLOADPOST 2023:08:15:20:04:50 mri_label2label N 12 1.66 1.42 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc1.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.hOc1.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc1.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.hOc1.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3667 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3667 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 386 Checking for and removing duplicates Writing label file ./rh.hOc1.mpm.vpnl.label 4053 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:50 mri_label2label N 12 e 4.72 S 0.25 U 4.47 P 99% M 528244 F 0 R 154978 W 0 c 24 w 1 I 0 O 296 L 1.66 1.42 1.77 @#@FSLOADPOST 2023:08:15:20:04:54 mri_label2label N 12 1.60 1.41 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc2.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.hOc2.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc2.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.hOc2.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2719 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2719 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 370 Checking for and removing duplicates Writing label file ./rh.hOc2.mpm.vpnl.label 3089 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:54 mri_label2label N 12 e 4.54 S 0.23 U 4.31 P 99% M 528104 F 0 R 151805 W 0 c 25 w 1 I 0 O 232 L 1.60 1.41 1.76 @#@FSLOADPOST 2023:08:15:20:04:59 mri_label2label N 12 1.56 1.41 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc3v.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.hOc3v.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc3v.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.hOc3v.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1228 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1228 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 212 Checking for and removing duplicates Writing label file ./rh.hOc3v.mpm.vpnl.label 1440 mri_label2label: Done @#@FSTIME 2023:08:15:20:04:59 mri_label2label N 12 e 4.19 S 0.23 U 3.96 P 99% M 528076 F 0 R 151781 W 0 c 17 w 1 I 0 O 120 L 1.56 1.41 1.76 @#@FSLOADPOST 2023:08:15:20:05:03 mri_label2label N 12 1.51 1.40 1.75 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc4v.mpm.vpnl.label --trgsubject sub-073_ses-BSL --trglabel ./rh.hOc4v.mpm.vpnl.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.hOc4v.mpm.vpnl.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.hOc4v.mpm.vpnl.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1025 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1025 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 177 Checking for and removing duplicates Writing label file ./rh.hOc4v.mpm.vpnl.label 1202 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:03 mri_label2label N 12 e 4.16 S 0.27 U 3.88 P 99% M 528068 F 0 R 151776 W 0 c 20 w 1 I 0 O 104 L 1.51 1.40 1.75 @#@FSLOADPOST 2023:08:15:20:05:07 mri_label2label N 12 1.51 1.40 1.75 mris_label2annot --s sub-073_ses-BSL --ctab /home/rosalia/software/freesurfer/average/colortable_vpnl.txt --hemi rh --a mpm.vpnl --maxstatwinner --noverbose --l rh.FG1.mpm.vpnl.label --l rh.FG2.mpm.vpnl.label --l rh.FG3.mpm.vpnl.label --l rh.FG4.mpm.vpnl.label --l rh.hOc1.mpm.vpnl.label --l rh.hOc2.mpm.vpnl.label --l rh.hOc3v.mpm.vpnl.label --l rh.hOc4v.mpm.vpnl.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ctab /home/rosalia/software/freesurfer/average/colortable_vpnl.txt Number of ctab entries 9 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label cmdline mris_label2annot --s sub-073_ses-BSL --ctab /home/rosalia/software/freesurfer/average/colortable_vpnl.txt --hemi rh --a mpm.vpnl --maxstatwinner --noverbose --l rh.FG1.mpm.vpnl.label --l rh.FG2.mpm.vpnl.label --l rh.FG3.mpm.vpnl.label --l rh.FG4.mpm.vpnl.label --l rh.hOc1.mpm.vpnl.label --l rh.hOc2.mpm.vpnl.label --l rh.hOc3v.mpm.vpnl.label --l rh.hOc4v.mpm.vpnl.label sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia subject sub-073_ses-BSL hemi rh SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI ColorTable /home/rosalia/software/freesurfer/average/colortable_vpnl.txt AnnotName mpm.vpnl nlables 8 LabelThresh 0 0.000000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig 1 1376057 FG1 2 16711935 FG2 3 16711680 FG3 4 1705837 FG4 5 25600 hOc1 6 255 hOc2 7 16776960 hOc3v 8 65535 hOc4v Mapping unhit to unknown Found 110654 unhit vertices Writing annot to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.mpm.vpnl.annot @#@FSTIME 2023:08:15:20:05:07 mris_label2annot N 26 e 0.61 S 0.05 U 0.56 P 99% M 143288 F 0 R 39082 W 0 c 7 w 1 I 0 O 1928 L 1.51 1.40 1.75 @#@FSLOADPOST 2023:08:15:20:05:08 mris_label2annot N 26 1.55 1.41 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA1_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA1_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA1_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 876 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 876 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 26 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.thresh.label 902 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:08 mri_label2label N 12 e 4.14 S 0.28 U 3.86 P 99% M 528140 F 0 R 154929 W 0 c 21 w 1 I 0 O 64 L 1.55 1.41 1.76 @#@FSLOADPOST 2023:08:15:20:05:12 mri_label2label N 12 1.55 1.41 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA2_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA2_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA2_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2688 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2688 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 12 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.thresh.label 2700 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:12 mri_label2label N 12 e 5.00 S 0.24 U 4.15 P 87% M 528180 F 0 R 151803 W 0 c 21 w 1 I 8 O 144 L 1.55 1.41 1.76 @#@FSLOADPOST 2023:08:15:20:05:17 mri_label2label N 12 1.67 1.44 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3a_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA3a_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA3a_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1698 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1698 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 6 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.thresh.label 1704 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:17 mri_label2label N 12 e 4.32 S 0.23 U 4.08 P 99% M 528188 F 0 R 151787 W 0 c 16 w 1 I 0 O 88 L 1.67 1.44 1.76 @#@FSLOADPOST 2023:08:15:20:05:22 mri_label2label N 12 1.85 1.48 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3b_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA3b_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA3b_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 2183 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2183 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 18 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.thresh.label 2201 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:22 mri_label2label N 12 e 4.41 S 0.21 U 4.19 P 99% M 528176 F 0 R 151802 W 0 c 23 w 1 I 0 O 128 L 1.85 1.48 1.77 @#@FSLOADPOST 2023:08:15:20:05:26 mri_label2label N 12 1.87 1.49 1.78 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4a_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA4a_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1388 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1388 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 22 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.thresh.label 1410 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:26 mri_label2label N 12 e 4.24 S 0.23 U 4.01 P 100% M 528064 F 0 R 151781 W 0 c 16 w 1 I 0 O 88 L 1.87 1.49 1.78 @#@FSLOADPOST 2023:08:15:20:05:30 mri_label2label N 12 1.80 1.48 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4p_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA4p_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA4p_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1489 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1489 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 5 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.thresh.label 1494 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:30 mri_label2label N 12 e 4.30 S 0.26 U 4.04 P 100% M 528056 F 0 R 151778 W 0 c 12 w 1 I 0 O 88 L 1.80 1.48 1.77 @#@FSLOADPOST 2023:08:15:20:05:35 mri_label2label N 12 1.89 1.51 1.78 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA6_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA6_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA6_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 6959 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 6959 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 306 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.thresh.label 7265 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:35 mri_label2label N 12 e 5.05 S 0.24 U 4.80 P 99% M 528536 F 0 R 151882 W 0 c 32 w 1 I 0 O 440 L 1.89 1.51 1.78 @#@FSLOADPOST 2023:08:15:20:05:40 mri_label2label N 12 1.82 1.50 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA44_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA44_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA44_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1012 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1012 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 57 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.thresh.label 1069 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:40 mri_label2label N 12 e 4.22 S 0.24 U 3.97 P 99% M 528124 F 0 R 154930 W 0 c 20 w 1 I 0 O 72 L 1.82 1.50 1.77 @#@FSLOADPOST 2023:08:15:20:05:44 mri_label2label N 12 1.76 1.49 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA45_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.BA45_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 1178 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1178 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 41 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.thresh.label 1219 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:44 mri_label2label N 12 e 4.15 S 0.24 U 3.90 P 99% M 528108 F 0 R 154929 W 0 c 17 w 1 I 0 O 80 L 1.76 1.49 1.77 @#@FSLOADPOST 2023:08:15:20:05:48 mri_label2label N 12 1.69 1.48 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V1_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.V1_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.V1_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3232 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3232 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 320 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.thresh.label 3552 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:48 mri_label2label N 12 e 4.46 S 0.22 U 4.24 P 100% M 528096 F 0 R 151818 W 0 c 18 w 1 I 0 O 256 L 1.69 1.48 1.77 @#@FSLOADPOST 2023:08:15:20:05:53 mri_label2label N 12 1.69 1.48 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V2_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.V2_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.V2_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 3437 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3437 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 520 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.thresh.label 3957 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:53 mri_label2label N 12 e 4.64 S 0.26 U 4.37 P 99% M 528144 F 0 R 151825 W 0 c 17 w 2 I 8 O 304 L 1.69 1.48 1.77 @#@FSLOADPOST 2023:08:15:20:05:57 mri_label2label N 12 1.72 1.49 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.MT_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.MT_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.MT_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 268 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 268 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 17 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.thresh.label 285 mri_label2label: Done @#@FSTIME 2023:08:15:20:05:57 mri_label2label N 12 e 4.07 S 0.29 U 3.77 P 100% M 527836 F 0 R 154914 W 0 c 13 w 1 I 0 O 24 L 1.72 1.49 1.77 @#@FSLOADPOST 2023:08:15:20:06:01 mri_label2label N 12 1.74 1.50 1.77 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.entorhinal_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.entorhinal_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.entorhinal_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 694 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 694 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 20 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.thresh.label 714 mri_label2label: Done @#@FSTIME 2023:08:15:20:06:01 mri_label2label N 12 e 4.07 S 0.27 U 3.79 P 99% M 527872 F 0 R 154917 W 0 c 23 w 1 I 0 O 48 L 1.74 1.50 1.77 @#@FSLOADPOST 2023:08:15:20:06:06 mri_label2label N 12 1.68 1.49 1.76 mri_label2label --srcsubject fsaverage --srclabel /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.perirhinal_exvivo.thresh.label --trgsubject sub-073_ses-BSL --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) srclabel = /home/rosalia/Desktop/CAN_RUTI/fsaverage/label/rh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-073_ses-BSL trglabel = ./rh.perirhinal_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Loading source label. Found 291 points in source label. Starting surface-based mapping Reading source registration /home/rosalia/Desktop/CAN_RUTI/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Reading target registration /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 291 nlabel points Performing mapping from target back to the source label 122963 Number of reverse mapping hits = 12 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.thresh.label 303 mri_label2label: Done @#@FSTIME 2023:08:15:20:06:06 mri_label2label N 12 e 4.06 S 0.31 U 3.74 P 99% M 528100 F 0 R 151761 W 0 c 14 w 1 I 0 O 24 L 1.68 1.49 1.76 @#@FSLOADPOST 2023:08:15:20:06:10 mri_label2label N 12 1.71 1.50 1.77 mris_label2annot --s sub-073_ses-BSL --hemi rh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.perirhinal_exvivo.label --l rh.entorhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt Number of ctab entries 15 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label cmdline mris_label2annot --s sub-073_ses-BSL --hemi rh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.perirhinal_exvivo.label --l rh.entorhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia subject sub-073_ses-BSL hemi rh SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI ColorTable /home/rosalia/software/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 87135 unhit vertices Writing annot to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.BA_exvivo.annot @#@FSTIME 2023:08:15:20:06:10 mris_label2annot N 38 e 0.77 S 0.07 U 0.69 P 99% M 143716 F 0 R 39079 W 0 c 7 w 1 I 0 O 1928 L 1.71 1.50 1.77 @#@FSLOADPOST 2023:08:15:20:06:10 mris_label2annot N 38 1.71 1.50 1.77 mris_label2annot --s sub-073_ses-BSL --hemi rh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.perirhinal_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt Number of ctab entries 15 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label cmdline mris_label2annot --s sub-073_ses-BSL --hemi rh --ctab /home/rosalia/software/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.perirhinal_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia subject sub-073_ses-BSL hemi rh SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI ColorTable /home/rosalia/software/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 102574 unhit vertices Writing annot to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.BA_exvivo.thresh.annot @#@FSTIME 2023:08:15:20:06:10 mris_label2annot N 38 e 0.67 S 0.08 U 0.59 P 99% M 143584 F 0 R 39120 W 0 c 3 w 0 I 0 O 1928 L 1.71 1.50 1.77 @#@FSLOADPOST 2023:08:15:20:06:11 mris_label2annot N 38 1.71 1.50 1.77 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.stats -b -a ./rh.BA_exvivo.annot -c ./BA_exvivo.ctab sub-073_ses-BSL rh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ./rh.BA_exvivo.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 192717 Total vertex volume 192487 (mask=0) Saving annotation colortable ./BA_exvivo.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 915 511 1419 2.114 0.445 0.125 0.031 14 1.1 BA1_exvivo 2971 1969 3467 1.742 0.424 0.084 0.015 16 1.9 BA2_exvivo 984 707 869 1.501 0.377 0.130 0.023 7 1.0 BA3a_exvivo 1837 1163 2138 1.669 0.427 0.085 0.019 12 1.3 BA3b_exvivo 1522 908 2504 2.322 0.510 0.091 0.020 11 1.2 BA4a_exvivo 1217 775 1641 2.130 0.648 0.075 0.015 5 0.7 BA4p_exvivo 7532 5327 14193 2.265 0.602 0.127 0.032 78 10.2 BA6_exvivo 3091 2269 5259 2.137 0.522 0.133 0.035 40 4.7 BA44_exvivo 3584 2724 6159 1.955 0.528 0.124 0.031 39 4.6 BA45_exvivo 3030 2044 3633 1.697 0.415 0.121 0.034 33 3.8 V1_exvivo 6423 4402 8891 1.818 0.461 0.130 0.030 74 7.9 V2_exvivo 1789 1282 3353 2.258 0.594 0.130 0.031 21 2.1 MT_exvivo 372 291 1275 2.972 0.577 0.149 0.050 7 0.7 perirhinal_exvivo 561 414 1451 2.542 0.731 0.105 0.024 4 0.5 entorhinal_exvivo @#@FSTIME 2023:08:15:20:06:11 mris_anatomical_stats N 12 e 4.07 S 0.20 U 3.86 P 100% M 433584 F 0 R 121981 W 0 c 17 w 1 I 0 O 32 L 1.71 1.50 1.77 @#@FSLOADPOST 2023:08:15:20:06:15 mris_anatomical_stats N 12 1.65 1.49 1.76 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab sub-073_ses-BSL rh white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot. reading volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/wm.mgz... reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... reading input pial surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial... reading input white surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 192717 Total vertex volume 192487 (mask=0) Saving annotation colortable ./BA_exvivo.thresh.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1553090 mm^3 (det: 1.254342 ) 633 342 951 2.065 0.448 0.108 0.031 8 0.6 BA1_exvivo 1655 1066 2060 1.820 0.421 0.072 0.013 7 0.9 BA2_exvivo 883 643 736 1.456 0.253 0.131 0.023 6 0.9 BA3a_exvivo 1427 928 1439 1.518 0.292 0.075 0.015 7 0.8 BA3b_exvivo 949 531 1586 2.384 0.544 0.106 0.023 9 0.9 BA4a_exvivo 974 633 1302 2.125 0.679 0.069 0.013 3 0.5 BA4p_exvivo 5064 3558 9738 2.275 0.621 0.125 0.031 51 6.6 BA6_exvivo 782 656 1994 2.381 0.643 0.166 0.047 16 1.6 BA44_exvivo 872 712 1847 2.126 0.478 0.133 0.031 12 0.9 BA45_exvivo 2885 1952 3381 1.676 0.402 0.120 0.033 30 3.6 V1_exvivo 3455 2333 4489 1.737 0.419 0.133 0.032 42 4.5 V2_exvivo 240 183 543 2.455 0.704 0.140 0.031 3 0.3 MT_exvivo 35 31 131 2.976 0.434 0.196 0.048 1 0.1 perirhinal_exvivo 535 403 1362 2.630 0.657 0.105 0.020 4 0.4 entorhinal_exvivo @#@FSTIME 2023:08:15:20:06:15 mris_anatomical_stats N 12 e 4.07 S 0.21 U 3.85 P 99% M 433756 F 0 R 121983 W 0 c 16 w 1 I 0 O 32 L 1.65 1.49 1.76 @#@FSLOADPOST 2023:08:15:20:06:19 mris_anatomical_stats N 12 1.60 1.48 1.76 Started at Tue 15 Aug 18:34:04 CEST 2023 Ended at Tue 15 Aug 20:06:19 CEST 2023 #@#%# recon-all-run-time-hours 1.538 recon-all -s sub-073_ses-BSL finished without error at Tue 15 Aug 20:06:19 CEST 2023 #New# invocation of recon-all Tue 15 Aug 21:01:55 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI /home/rosalia/software/freesurfer/bin/recon-all -autorecon2 -autorecon3 -subjid sub-073_ses-BSL/ subjid sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Actual FREESURFER_HOME /home/rosalia/software/freesurfer build-stamp.txt: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 1024 memorylocked 4091860 kbytes maxproc 127559 maxlocks unlimited maxsignal 127559 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 31Gi 4.0Gi 3.6Gi 786Mi 23Gi 26Gi Swap: 2.0Gi 0B 2.0Gi ######################################## program versions used 7.3.1 (freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466) 7.3.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.3.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/15-19:01:55-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ####################################### GCADIR /home/rosalia/software/freesurfer/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /home/rosalia/software/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### #------------------------------------- #@# EM Registration Tue 15 Aug 21:01:55 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_em_register -uns 3 -mask brainmask.mgz nu.mgz /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca transforms/talairach.lta /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting unknown_nbr_spacing = 3 using MR volume brainmask.mgz to mask input volume... == Number of threads available to mri_em_register for OpenMP = 1 == reading 1 input volumes... logging results to talairach.log reading '/home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca'... GCAread took 0 minutes and 1 seconds. average std = 7.2 using min determinant for regularization = 5.2 0 singular and 884 ill-conditioned covariance matrices regularized reading 'nu.mgz'... MRImask(): AllowDiffGeom = 1 INFO: MRImask() using MRImaskDifferentGeometry() MRImask(): AllowDiffGeom = 1 INFO: MRImask() using MRImaskDifferentGeometry() MRImask(): AllowDiffGeom = 1 INFO: MRImask() using MRImaskDifferentGeometry() MRImask(): AllowDiffGeom = 1 INFO: MRImask() using MRImaskDifferentGeometry() MRImask(): AllowDiffGeom = 1 INFO: MRImask() using MRImaskDifferentGeometry() freeing gibbs priors...done. accounting for voxel sizes in initial transform bounding unknown intensity as < 5.9 or > 519.0 total sample mean = 79.1 (1017 zeros) ************************************************ spacing=8, using 2841 sample points, tol=1.00e-05... ************************************************ register_mri: find_optimal_transform find_optimal_transform: nsamples 2841, passno 0, spacing 8 resetting wm mean[0]: 98 --> 107 resetting gm mean[0]: 61 --> 61 input volume #1 is the most T1-like using real data threshold=7.0 skull bounding box = (56, 70, 39) --> (199, 206, 199) finding center of left hemi white matter using (104, 115, 119) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 107, using box (86,98,99) --> (121, 131,138) to find MRI wm before smoothing, mri peak at 95 robust fit to distribution - 94 +- 7.7 after smoothing, mri peak at 95, scaling input intensities by 1.126 scaling channel 0 by 1.12632 initial log_p = -4.404 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.276960 @ (-10.526, -10.526, -10.526) max log p = -4.165041 @ (5.263, -5.263, -5.263) max log p = -4.147671 @ (2.632, 2.632, 2.632) max log p = -4.115513 @ (-1.316, -1.316, -3.947) max log p = -4.104683 @ (3.289, 3.289, 0.658) max log p = -4.104683 @ (0.000, 0.000, 0.000) max log p = -4.104683 @ (0.000, 0.000, 0.000) max log p = -4.104683 @ (0.000, 0.000, 0.000) Found translation: (-0.7, -11.2, -16.4): log p = -4.105 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-4.034, old_max_log_p =-4.105 (thresh=-4.1) 1.00000 0.00000 0.00000 -0.65790; 0.00000 1.06580 0.14032 -36.86990; 0.00000 -0.13053 0.99144 9.12556; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 25 seconds. **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.956, old_max_log_p =-4.034 (thresh=-4.0) 0.99144 -0.12997 -0.05118 23.37411; 0.14032 1.06122 0.41794 -85.92232; 0.00000 -0.40193 0.92135 52.82397; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 13 seconds. **************************************** Nine parameter search. iteration 2 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.956, old_max_log_p =-3.956 (thresh=-4.0) 0.99144 -0.12997 -0.05118 23.37411; 0.14032 1.06122 0.41794 -85.92232; 0.00000 -0.40193 0.92135 52.82397; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 iteration took 1 minutes and 6 seconds. **************************************** Nine parameter search. iteration 3 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.888, old_max_log_p =-3.956 (thresh=-4.0) 0.97596 -0.08538 -0.06675 21.39714; 0.11436 1.08324 0.43027 -84.79743; 0.03507 -0.41864 0.95439 50.50962; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 3 seconds. **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.888, old_max_log_p =-3.888 (thresh=-3.9) 0.97596 -0.08538 -0.06675 21.39714; 0.11436 1.08324 0.43027 -84.79743; 0.03507 -0.41864 0.95439 50.50962; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 iteration took 1 minutes and 4 seconds. **************************************** Nine parameter search. iteration 5 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.848, old_max_log_p =-3.888 (thresh=-3.9) 0.97842 -0.09465 -0.07040 21.75585; 0.12046 1.10173 0.38240 -83.17392; 0.04086 -0.36454 0.97321 40.58693; 0.00000 0.00000 0.00000 1.00000; iteration took 0 minutes and 59 seconds. **************************************** Nine parameter search. iteration 6 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.837, old_max_log_p =-3.848 (thresh=-3.8) 0.97976 -0.11316 -0.07665 25.19094; 0.13625 1.10974 0.36651 -84.96198; 0.04287 -0.34687 0.98048 36.26688; 0.00000 0.00000 0.00000 1.00000; iteration took 0 minutes and 58 seconds. **************************************** Nine parameter search. iteration 7 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.836, old_max_log_p =-3.837 (thresh=-3.8) 0.98091 -0.11329 -0.07674 25.07187; 0.13641 1.11104 0.36694 -85.20132; 0.04282 -0.34647 0.97933 36.34792; 0.00000 0.00000 0.00000 1.00000; min search scale 0.025000 reached *********************************************** Computing MAP estimate using 2841 samples... *********************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-05 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.98091 -0.11329 -0.07674 25.07187; 0.13641 1.11104 0.36694 -85.20132; 0.04282 -0.34647 0.97933 36.34792; 0.00000 0.00000 0.00000 1.00000; nsamples 2841 Quasinewton: input matrix 0.98091 -0.11329 -0.07674 25.07187; 0.13641 1.11104 0.36694 -85.20132; 0.04282 -0.34647 0.97933 36.34792; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 3 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 010: -log(p) = -0.0 tol 0.000010 Resulting transform: 0.98091 -0.11329 -0.07674 25.07187; 0.13641 1.11104 0.36694 -85.20132; 0.04282 -0.34647 0.97933 36.34792; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -3.836 (old=-4.404) transform before final EM align: 0.98091 -0.11329 -0.07674 25.07187; 0.13641 1.11104 0.36694 -85.20132; 0.04282 -0.34647 0.97933 36.34792; 0.00000 0.00000 0.00000 1.00000; ************************************************** EM alignment process ... Computing final MAP estimate using 315638 samples. ************************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-07 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.98091 -0.11329 -0.07674 25.07187; 0.13641 1.11104 0.36694 -85.20132; 0.04282 -0.34647 0.97933 36.34792; 0.00000 0.00000 0.00000 1.00000; nsamples 315638 Quasinewton: input matrix 0.98091 -0.11329 -0.07674 25.07187; 0.13641 1.11104 0.36694 -85.20132; 0.04282 -0.34647 0.97933 36.34792; 0.00000 0.00000 0.00000 1.00000; IFLAG= -1 LINE SEARCH FAILED. SEE DOCUMENTATION OF ROUTINE MCSRCH ERROR RETURN OF LINE SEARCH: INFO= 6 POSSIBLE CAUSES: FUNCTION OR GRADIENT ARE INCORRECT OR INCORRECT TOLERANCESoutof QuasiNewtonEMA: 012: -log(p) = 4.2 tol 0.000000 final transform: 0.98091 -0.11329 -0.07674 25.07187; 0.13641 1.11104 0.36694 -85.20132; 0.04282 -0.34647 0.97933 36.34792; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach.lta... #VMPC# mri_em_register VmPeak 776416 FSRUNTIME@ mri_em_register 0.1626 hours 1 threads registration took 9 minutes and 45 seconds. @#@FSTIME 2023:08:15:21:01:55 mri_em_register N 7 e 585.35 S 0.99 U 584.20 P 99% M 616512 F 0 R 171487 W 0 c 6453 w 1 I 0 O 24 L 1.08 0.79 0.43 @#@FSLOADPOST 2023:08:15:21:11:40 mri_em_register N 7 2.24 2.00 1.26 #-------------------------------------- #@# CA Normalize Tue 15 Aug 21:11:40 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_ca_normalize -c ctrl_pts.mgz -mask brainmask.mgz nu.mgz /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca transforms/talairach.lta norm.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing control point volume to ctrl_pts.mgz using MR volume brainmask.mgz to mask input volume... reading 1 input volume reading atlas from '/home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca'... reading transform from 'transforms/talairach.lta'... reading input volume from nu.mgz... INFO: MRImask() using MRImaskDifferentGeometry() resetting wm mean[0]: 98 --> 107 resetting gm mean[0]: 61 --> 61 input volume #1 is the most T1-like using real data threshold=7.0 skull bounding box = (56, 70, 39) --> (199, 206, 199) finding center of left hemi white matter using (104, 115, 119) as brain centroid of Right_Cerebral_White_Matter... mean wm in atlas = 107, using box (86,98,99) --> (121, 131,138) to find MRI wm before smoothing, mri peak at 95 robust fit to distribution - 94 +- 7.7 after smoothing, mri peak at 95, scaling input intensities by 1.126 scaling channel 0 by 1.12632 using 246437 sample points... INFO: compute sample coordinates transform 0.98091 -0.11329 -0.07674 25.07187; 0.13641 1.11104 0.36694 -85.20132; 0.04282 -0.34647 0.97933 36.34792; 0.00000 0.00000 0.00000 1.00000; INFO: transform used finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (123, 74, 39) --> (195, 179, 196) Left_Cerebral_White_Matter: limiting intensities to 99.0 --> 132.0 12 of 301 (4.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (60, 75, 41) --> (131, 175, 198) Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 0 of 306 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (130, 152, 68) --> (182, 190, 120) Left_Cerebellum_White_Matter: limiting intensities to 136.0 --> 132.0 10 of 10 (100.0%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (87, 152, 69) --> (130, 194, 123) Right_Cerebellum_White_Matter: limiting intensities to 130.0 --> 132.0 7 of 9 (77.8%) samples deleted finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (113, 141, 102) --> (150, 200, 132) Brain_Stem: limiting intensities to 122.0 --> 132.0 5 of 9 (55.6%) samples deleted using 635 total control points for intensity normalization... bias field = 0.932 +- 0.074 1 of 601 control points discarded finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (123, 74, 39) --> (195, 179, 196) Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 127.0 4 of 594 (0.7%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (60, 75, 41) --> (131, 175, 198) Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 0 of 378 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (130, 152, 68) --> (182, 190, 120) Left_Cerebellum_White_Matter: limiting intensities to 103.0 --> 132.0 6 of 73 (8.2%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (87, 152, 69) --> (130, 194, 123) Right_Cerebellum_White_Matter: limiting intensities to 102.0 --> 132.0 23 of 69 (33.3%) samples deleted finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (113, 141, 102) --> (150, 200, 132) Brain_Stem: limiting intensities to 106.0 --> 132.0 49 of 113 (43.4%) samples deleted using 1227 total control points for intensity normalization... bias field = 0.977 +- 0.105 0 of 1132 control points discarded finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (123, 74, 39) --> (195, 179, 196) Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 1 of 640 (0.2%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (60, 75, 41) --> (131, 175, 198) Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 4 of 395 (1.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (130, 152, 68) --> (182, 190, 120) Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 0 of 72 (0.0%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (87, 152, 69) --> (130, 194, 123) Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 41 of 119 (34.5%) samples deleted finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (113, 141, 102) --> (150, 200, 132) Brain_Stem: limiting intensities to 88.0 --> 132.0 12 of 158 (7.6%) samples deleted using 1384 total control points for intensity normalization... bias field = 0.993 +- 0.082 0 of 1307 control points discarded writing normalized volume to norm.mgz... writing control points to ctrl_pts.mgz freeing GCA...done. normalization took 0 minutes and 59 seconds. @#@FSTIME 2023:08:15:21:11:40 mri_ca_normalize N 8 e 59.39 S 0.53 U 58.84 P 99% M 684712 F 0 R 422043 W 0 c 401 w 2 I 0 O 3424 L 2.24 2.00 1.26 @#@FSLOADPOST 2023:08:15:21:12:40 mri_ca_normalize N 8 2.18 2.03 1.32 #-------------------------------------- #@# SubCort Seg Tue 15 Aug 21:12:40 CEST 2023 mri_seg_diff --seg1 aseg.auto.mgz --seg2 aseg.presurf.mgz --diff aseg.manedit.mgz 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri cmdline mri_seg_diff --seg1 aseg.auto.mgz --seg2 aseg.presurf.mgz --diff aseg.manedit.mgz sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia Seg1 aseg.auto.mgz Seg2 aseg.presurf.mgz Diff aseg.manedit.mgz InDiff (null) Merged (null) ForceDiff 0 Computing difference between segmentations No difference found. mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca aseg.auto_noCCseg.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca aseg.auto_noCCseg.mgz relabeling unlikely voxels with window_size = 9 and prior threshold 0.30 using Gibbs prior factor = 0.500 renormalizing sequences with structure alignment, equivalent to: -renormalize -renormalize_mean 0.500 -regularize 0.500 == Number of threads available to for OpenMP = 1 == reading 1 input volumes reading classifier array from /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca reading input volume from norm.mgz average std[0] = 7.2 reading transform from transforms/talairach.m3z setting orig areas to linear transform determinant scaled 6.82 Atlas used for the 3D morph was /home/rosalia/software/freesurfer/average/RB_all_2020-01-02.gca average std = 7.2 using min determinant for regularization = 5.2 0 singular and 0 ill-conditioned covariance matrices regularized labeling volume... renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.15521 (20) mri peak = 0.14265 (12) Left_Lateral_Ventricle (4): linear fit = 0.55 x + 0.0 (16550 voxels, overlap=0.028) Left_Lateral_Ventricle (4): linear fit = 0.55 x + 0.0 (16550 voxels, peak = 11), gca=10.9 gca peak = 0.20380 (13) mri peak = 0.16127 (12) Right_Lateral_Ventricle (43): linear fit = 0.69 x + 0.0 (17461 voxels, overlap=0.488) Right_Lateral_Ventricle (43): linear fit = 0.69 x + 0.0 (17461 voxels, peak = 9), gca=9.0 gca peak = 0.26283 (96) mri peak = 0.09819 (103) Right_Pallidum (52): linear fit = 1.09 x + 0.0 (574 voxels, overlap=0.027) Right_Pallidum (52): linear fit = 1.09 x + 0.0 (574 voxels, peak = 104), gca=104.2 gca peak = 0.15814 (97) mri peak = 0.11065 (104) Left_Pallidum (13): linear fit = 1.10 x + 0.0 (478 voxels, overlap=0.375) Left_Pallidum (13): linear fit = 1.10 x + 0.0 (478 voxels, peak = 106), gca=106.2 gca peak = 0.27624 (56) mri peak = 0.10714 (62) Right_Hippocampus (53): linear fit = 1.09 x + 0.0 (615 voxels, overlap=0.851) Right_Hippocampus (53): linear fit = 1.09 x + 0.0 (615 voxels, peak = 61), gca=60.8 gca peak = 0.28723 (59) mri peak = 0.07994 (65) Left_Hippocampus (17): linear fit = 1.13 x + 0.0 (665 voxels, overlap=0.796) Left_Hippocampus (17): linear fit = 1.13 x + 0.0 (665 voxels, peak = 67), gca=67.0 gca peak = 0.07623 (103) mri peak = 0.06884 (106) Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (22734 voxels, overlap=0.665) Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (22734 voxels, peak = 107), gca=106.6 gca peak = 0.07837 (105) mri peak = 0.08062 (105) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (22555 voxels, overlap=0.620) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (22555 voxels, peak = 108), gca=107.6 gca peak = 0.10165 (58) mri peak = 0.03778 (68) Left_Cerebral_Cortex (3): linear fit = 1.20 x + 0.0 (14205 voxels, overlap=0.360) Left_Cerebral_Cortex (3): linear fit = 1.20 x + 0.0 (14205 voxels, peak = 69), gca=69.3 gca peak = 0.11113 (58) mri peak = 0.04055 (67) Right_Cerebral_Cortex (42): linear fit = 1.12 x + 0.0 (13588 voxels, overlap=0.812) Right_Cerebral_Cortex (42): linear fit = 1.12 x + 0.0 (13588 voxels, peak = 65), gca=65.2 gca peak = 0.27796 (67) mri peak = 0.09280 (84) Right_Caudate (50): linear fit = 1.21 x + 0.0 (1072 voxels, overlap=0.024) Right_Caudate (50): linear fit = 1.21 x + 0.0 (1072 voxels, peak = 81), gca=80.7 gca peak = 0.14473 (69) mri peak = 0.09055 (73) Left_Caudate (11): linear fit = 1.01 x + 0.0 (728 voxels, overlap=0.938) Left_Caudate (11): linear fit = 1.01 x + 0.0 (728 voxels, peak = 70), gca=70.0 gca peak = 0.14301 (56) mri peak = 0.05236 (63) Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (13171 voxels, overlap=0.922) Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (13171 voxels, peak = 59), gca=58.5 gca peak = 0.14610 (55) mri peak = 0.05296 (56) Right_Cerebellum_Cortex (47): linear fit = 0.96 x + 0.0 (14291 voxels, overlap=0.983) Right_Cerebellum_Cortex (47): linear fit = 0.96 x + 0.0 (14291 voxels, peak = 53), gca=53.1 gca peak = 0.16309 (85) mri peak = 0.12388 (94) Left_Cerebellum_White_Matter (7): linear fit = 1.12 x + 0.0 (5253 voxels, overlap=0.019) Left_Cerebellum_White_Matter (7): linear fit = 1.12 x + 0.0 (5253 voxels, peak = 95), gca=94.8 gca peak = 0.15172 (84) mri peak = 0.09703 (87) Right_Cerebellum_White_Matter (46): linear fit = 1.07 x + 0.0 (5054 voxels, overlap=0.506) Right_Cerebellum_White_Matter (46): linear fit = 1.07 x + 0.0 (5054 voxels, peak = 89), gca=89.5 gca peak = 0.30461 (58) mri peak = 0.08751 (61) Left_Amygdala (18): linear fit = 1.04 x + 0.0 (400 voxels, overlap=0.572) Left_Amygdala (18): linear fit = 1.04 x + 0.0 (400 voxels, peak = 61), gca=60.6 gca peak = 0.32293 (57) mri peak = 0.10353 (64) Right_Amygdala (54): linear fit = 1.12 x + 0.0 (443 voxels, overlap=0.628) Right_Amygdala (54): linear fit = 1.12 x + 0.0 (443 voxels, peak = 64), gca=63.6 gca peak = 0.11083 (90) mri peak = 0.05533 (90) Left_Thalamus (10): linear fit = 1.04 x + 0.0 (3037 voxels, overlap=0.957) Left_Thalamus (10): linear fit = 1.04 x + 0.0 (3037 voxels, peak = 94), gca=94.0 gca peak = 0.11393 (83) mri peak = 0.06784 (86) Right_Thalamus (49): linear fit = 1.04 x + 0.0 (2594 voxels, overlap=0.979) Right_Thalamus (49): linear fit = 1.04 x + 0.0 (2594 voxels, peak = 87), gca=86.7 gca peak = 0.08575 (81) mri peak = 0.06915 (82) Left_Putamen (12): linear fit = 1.02 x + 0.0 (1130 voxels, overlap=0.892) Left_Putamen (12): linear fit = 1.02 x + 0.0 (1130 voxels, peak = 83), gca=83.0 gca peak = 0.08618 (78) mri peak = 0.07888 (83) Right_Putamen (51): linear fit = 1.05 x + 0.0 (1217 voxels, overlap=0.743) Right_Putamen (51): linear fit = 1.05 x + 0.0 (1217 voxels, peak = 82), gca=82.3 gca peak = 0.08005 (78) mri peak = 0.04803 (87) Brain_Stem (16): linear fit = 1.18 x + 0.0 (9792 voxels, overlap=0.368) Brain_Stem (16): linear fit = 1.18 x + 0.0 (9792 voxels, peak = 92), gca=92.4 gca peak = 0.12854 (88) mri peak = 0.08923 (103) Right_VentralDC (60): linear fit = 1.21 x + 0.0 (838 voxels, overlap=0.015) Right_VentralDC (60): linear fit = 1.21 x + 0.0 (838 voxels, peak = 106), gca=106.0 gca peak = 0.15703 (87) mri peak = 0.10324 (104) Left_VentralDC (28): linear fit = 1.20 x + 0.0 (888 voxels, overlap=0.012) Left_VentralDC (28): linear fit = 1.20 x + 0.0 (888 voxels, peak = 104), gca=104.0 gca peak = 0.17522 (25) mri peak = 0.21376 (11) Third_Ventricle (14): linear fit = 0.38 x + 0.0 (203 voxels, overlap=0.054) Third_Ventricle (14): linear fit = 0.38 x + 0.0 (203 voxels, peak = 10), gca=9.6 gca peak = 0.17113 (14) mri peak = 0.22675 ( 9) Fourth_Ventricle (15): linear fit = 0.56 x + 0.0 (322 voxels, overlap=0.339) Fourth_Ventricle (15): linear fit = 0.56 x + 0.0 (322 voxels, peak = 8), gca=7.9 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.16627 (28) gca peak Third_Ventricle = 0.17522 (25) gca peak Fourth_Ventricle = 0.17113 (14) gca peak CSF = 0.20346 (36) gca peak Left_Accumbens_area = 0.70646 (62) gca peak Left_undetermined = 1.00000 (28) gca peak Left_vessel = 0.89917 (53) gca peak Left_choroid_plexus = 0.11689 (35) gca peak Right_Inf_Lat_Vent = 0.25504 (23) gca peak Right_Accumbens_area = 0.31650 (65) gca peak Right_vessel = 0.77268 (52) gca peak Right_choroid_plexus = 0.13275 (38) gca peak Fifth_Ventricle = 0.60973 (33) gca peak WM_hypointensities = 0.11013 (77) gca peak non_WM_hypointensities = 0.11354 (41) gca peak Optic_Chiasm = 0.51646 (76) not using caudate to estimate GM means estimating mean gm scale to be 1.12 x + 0.0 estimating mean wm scale to be 1.03 x + 0.0 estimating mean csf scale to be 0.62 x + 0.0 Left_Pallidum too bright - rescaling by 0.978 (from 1.095) to 103.9 (was 106.2) Right_Pallidum too bright - rescaling by 0.998 (from 1.085) to 103.9 (was 104.2) saving intensity scales to aseg.auto_noCCseg.label_intensities.txt renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.27064 (11) mri peak = 0.14265 (12) Left_Lateral_Ventricle (4): linear fit = 1.04 x + 0.0 (16550 voxels, overlap=0.964) Left_Lateral_Ventricle (4): linear fit = 1.04 x + 0.0 (16550 voxels, peak = 11), gca=11.5 gca peak = 0.27308 ( 9) mri peak = 0.16127 (12) Right_Lateral_Ventricle (43): linear fit = 1.05 x + 0.0 (17461 voxels, overlap=0.821) Right_Lateral_Ventricle (43): linear fit = 1.05 x + 0.0 (17461 voxels, peak = 9), gca=9.5 gca peak = 0.28208 (103) mri peak = 0.09819 (103) Right_Pallidum (52): linear fit = 1.00 x + 0.0 (574 voxels, overlap=1.008) Right_Pallidum (52): linear fit = 1.00 x + 0.0 (574 voxels, peak = 104), gca=103.5 gca peak = 0.15022 (104) mri peak = 0.11065 (104) Left_Pallidum (13): linear fit = 1.01 x + 0.0 (478 voxels, overlap=1.004) Left_Pallidum (13): linear fit = 1.01 x + 0.0 (478 voxels, peak = 106), gca=105.6 gca peak = 0.26797 (60) mri peak = 0.10714 (62) Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (615 voxels, overlap=1.005) Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (615 voxels, peak = 60), gca=60.0 gca peak = 0.29736 (64) mri peak = 0.07994 (65) Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (665 voxels, overlap=1.006) Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (665 voxels, peak = 60), gca=59.8 gca peak = 0.07658 (107) mri peak = 0.06884 (106) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (22734 voxels, overlap=0.800) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (22734 voxels, peak = 107), gca=107.0 gca peak = 0.07734 (107) mri peak = 0.08062 (105) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (22555 voxels, overlap=0.729) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (22555 voxels, peak = 106), gca=106.5 gca peak = 0.08209 (69) mri peak = 0.03778 (68) Left_Cerebral_Cortex (3): linear fit = 0.99 x + 0.0 (14205 voxels, overlap=0.927) Left_Cerebral_Cortex (3): linear fit = 0.99 x + 0.0 (14205 voxels, peak = 68), gca=68.0 gca peak = 0.10004 (66) mri peak = 0.04055 (67) Right_Cerebral_Cortex (42): linear fit = 1.00 x + 0.0 (13588 voxels, overlap=0.976) Right_Cerebral_Cortex (42): linear fit = 1.00 x + 0.0 (13588 voxels, peak = 66), gca=66.0 gca peak = 0.21061 (80) mri peak = 0.09280 (84) Right_Caudate (50): linear fit = 1.00 x + 0.0 (1072 voxels, overlap=1.003) Right_Caudate (50): linear fit = 1.00 x + 0.0 (1072 voxels, peak = 80), gca=80.0 gca peak = 0.14459 (70) mri peak = 0.09055 (73) Left_Caudate (11): linear fit = 1.00 x + 0.0 (728 voxels, overlap=0.997) Left_Caudate (11): linear fit = 1.00 x + 0.0 (728 voxels, peak = 70), gca=70.0 gca peak = 0.13174 (58) mri peak = 0.05236 (63) Left_Cerebellum_Cortex (8): linear fit = 1.02 x + 0.0 (13171 voxels, overlap=0.985) Left_Cerebellum_Cortex (8): linear fit = 1.02 x + 0.0 (13171 voxels, peak = 59), gca=59.4 gca peak = 0.14612 (53) mri peak = 0.05296 (56) Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (14291 voxels, overlap=0.999) Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (14291 voxels, peak = 53), gca=53.0 gca peak = 0.14368 (94) mri peak = 0.12388 (94) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (5253 voxels, overlap=0.913) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (5253 voxels, peak = 94), gca=93.5 gca peak = 0.16700 (90) mri peak = 0.09703 (87) Right_Cerebellum_White_Matter (46): linear fit = 1.01 x + 0.0 (5054 voxels, overlap=0.879) Right_Cerebellum_White_Matter (46): linear fit = 1.01 x + 0.0 (5054 voxels, peak = 91), gca=91.3 gca peak = 0.29331 (61) mri peak = 0.08751 (61) Left_Amygdala (18): linear fit = 1.08 x + 0.0 (400 voxels, overlap=0.850) Left_Amygdala (18): linear fit = 1.08 x + 0.0 (400 voxels, peak = 66), gca=65.6 gca peak = 0.33450 (64) mri peak = 0.10353 (64) Right_Amygdala (54): linear fit = 0.99 x + 0.0 (443 voxels, overlap=1.029) Right_Amygdala (54): linear fit = 0.99 x + 0.0 (443 voxels, peak = 63), gca=63.0 gca peak = 0.10335 (92) mri peak = 0.05533 (90) Left_Thalamus (10): linear fit = 0.99 x + 0.0 (3037 voxels, overlap=0.989) Left_Thalamus (10): linear fit = 0.99 x + 0.0 (3037 voxels, peak = 91), gca=90.6 gca peak = 0.10163 (87) mri peak = 0.06784 (86) Right_Thalamus (49): linear fit = 0.99 x + 0.0 (2594 voxels, overlap=0.973) Right_Thalamus (49): linear fit = 0.99 x + 0.0 (2594 voxels, peak = 86), gca=85.7 gca peak = 0.08550 (83) mri peak = 0.06915 (82) Left_Putamen (12): linear fit = 1.00 x + 0.0 (1130 voxels, overlap=0.934) Left_Putamen (12): linear fit = 1.00 x + 0.0 (1130 voxels, peak = 83), gca=83.0 gca peak = 0.08804 (84) mri peak = 0.07888 (83) Right_Putamen (51): linear fit = 1.01 x + 0.0 (1217 voxels, overlap=0.952) Right_Putamen (51): linear fit = 1.01 x + 0.0 (1217 voxels, peak = 85), gca=85.3 gca peak = 0.07824 (93) mri peak = 0.04803 (87) Brain_Stem (16): linear fit = 1.00 x + 0.0 (9792 voxels, overlap=0.923) Brain_Stem (16): linear fit = 1.00 x + 0.0 (9792 voxels, peak = 93), gca=93.5 gca peak = 0.10455 (107) mri peak = 0.08923 (103) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (838 voxels, overlap=0.772) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (838 voxels, peak = 107), gca=107.0 gca peak = 0.14306 (102) mri peak = 0.10324 (104) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (888 voxels, overlap=0.883) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (888 voxels, peak = 103), gca=102.5 gca peak = 0.29997 (16) mri peak = 0.21376 (11) Third_Ventricle (14): linear fit = 0.62 x + 0.0 (203 voxels, overlap=0.684) Third_Ventricle (14): linear fit = 0.62 x + 0.0 (203 voxels, peak = 10), gca=9.8 gca peak = 0.29319 ( 9) mri peak = 0.22675 ( 9) Fourth_Ventricle (15): linear fit = 0.85 x + 0.0 (322 voxels, overlap=0.782) Fourth_Ventricle (15): linear fit = 0.85 x + 0.0 (322 voxels, peak = 8), gca=7.6 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.19610 (32) gca peak Third_Ventricle = 0.29997 (16) gca peak CSF = 0.24849 (22) gca peak Left_Accumbens_area = 0.57590 (63) gca peak Left_undetermined = 1.00000 (28) gca peak Left_vessel = 0.89837 (53) gca peak Left_choroid_plexus = 0.11689 (35) gca peak Right_Inf_Lat_Vent = 0.23585 (25) gca peak Right_Accumbens_area = 0.29049 (78) gca peak Right_vessel = 0.77268 (52) gca peak Right_choroid_plexus = 0.13275 (38) gca peak Fifth_Ventricle = 0.91795 (20) gca peak WM_hypointensities = 0.10985 (79) gca peak non_WM_hypointensities = 0.14635 (42) gca peak Optic_Chiasm = 0.54523 (76) not using caudate to estimate GM means estimating mean gm scale to be 1.00 x + 0.0 estimating mean wm scale to be 1.00 x + 0.0 estimating mean csf scale to be 0.98 x + 0.0 Left_Pallidum too bright - rescaling by 0.981 (from 1.015) to 103.5 (was 105.6) Right_Pallidum too bright - rescaling by 1.000 (from 1.005) to 103.5 (was 103.5) saving intensity scales to aseg.auto_noCCseg.label_intensities.txt saving sequentially combined intensity scales to aseg.auto_noCCseg.label_intensities.txt 43075 voxels changed in iteration 0 of unlikely voxel relabeling 83 voxels changed in iteration 1 of unlikely voxel relabeling 0 voxels changed in iteration 2 of unlikely voxel relabeling 35560 gm and wm labels changed (%27 to gray, %73 to white out of all changed labels) 378 hippocampal voxels changed. 0 amygdala voxels changed. Reclassifying using Gibbs Priors pass 1: 60166 changed. image ll: -2.177, PF=0.500 pass 2: 13091 changed. image ll: -2.177, PF=0.500 pass 3: 3690 changed. 28397 voxels changed in iteration 0 of unlikely voxel relabeling 146 voxels changed in iteration 1 of unlikely voxel relabeling 2 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 5030 voxels changed in iteration 0 of unlikely voxel relabeling 44 voxels changed in iteration 1 of unlikely voxel relabeling 0 voxels changed in iteration 2 of unlikely voxel relabeling 5075 voxels changed in iteration 0 of unlikely voxel relabeling 67 voxels changed in iteration 1 of unlikely voxel relabeling 4 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 4755 voxels changed in iteration 0 of unlikely voxel relabeling 19 voxels changed in iteration 1 of unlikely voxel relabeling 0 voxels changed in iteration 2 of unlikely voxel relabeling !!!!!!!!! ventricle segment 0 with volume 40392 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 0 with volume 2106 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 3 with volume 41822 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 0 with volume 1577 above threshold 100 - not erasing !!!!!!!!!! writing labeled volume to aseg.auto_noCCseg.mgz mri_ca_label utimesec 1902.944016 mri_ca_label stimesec 1.503819 mri_ca_label ru_maxrss 2107116 mri_ca_label ru_ixrss 0 mri_ca_label ru_idrss 0 mri_ca_label ru_isrss 0 mri_ca_label ru_minflt 1123226 mri_ca_label ru_majflt 0 mri_ca_label ru_nswap 0 mri_ca_label ru_inblock 8 mri_ca_label ru_oublock 696 mri_ca_label ru_msgsnd 0 mri_ca_label ru_msgrcv 0 mri_ca_label ru_nsignals 0 mri_ca_label ru_nvcsw 1 mri_ca_label ru_nivcsw 11364 auto-labeling took 31 minutes and 45 seconds. @#@FSTIME 2023:08:15:21:12:42 mri_ca_label N 10 e 1904.85 S 1.63 U 1902.94 P 99% M 2107116 F 0 R 1123229 W 0 c 11364 w 2 I 8 O 696 L 2.17 2.03 1.32 @#@FSLOADPOST 2023:08:15:21:44:27 mri_ca_label N 10 1.10 1.03 1.06 #-------------------------------------- #@# CC Seg Tue 15 Aug 21:44:27 CEST 2023 mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/cc_up.lta sub-073_ses-BSL /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) will read input aseg from aseg.auto_noCCseg.mgz writing aseg with cc labels to aseg.auto.mgz will write lta as /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/transforms/cc_up.lta reading aseg from /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/aseg.auto_noCCseg.mgz reading norm from /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/norm.mgz 42424 voxels in left wm, 25725 in right wm, xrange [121, 134] searching rotation angles z=[-2 12], y=[-12 2] searching scale 1 Z rot -1.5 searching scale 1 Z rot -1.3 searching scale 1 Z rot -1.0 searching scale 1 Z rot -0.8 searching scale 1 Z rot -0.5 searching scale 1 Z rot -0.3 searching scale 1 Z rot -0.0 searching scale 1 Z rot 0.2 searching scale 1 Z rot 0.5 searching scale 1 Z rot 0.7 searching scale 1 Z rot 1.0 searching scale 1 Z rot 1.2 searching scale 1 Z rot 1.5 searching scale 1 Z rot 1.7 searching scale 1 Z rot 2.0 searching scale 1 Z rot 2.2 searching scale 1 Z rot 2.5 searching scale 1 Z rot 2.7 searching scale 1 Z rot 3.0 searching scale 1 Z rot 3.2 searching scale 1 Z rot 3.5 searching scale 1 Z rot 3.7 searching scale 1 Z rot 4.0 searching scale 1 Z rot 4.2 searching scale 1 Z rot 4.5 searching scale 1 Z rot 4.7 searching scale 1 Z rot 5.0 searching scale 1 Z rot 5.2 searching scale 1 Z rot 5.5 searching scale 1 Z rot 5.7 searching scale 1 Z rot 6.0 searching scale 1 Z rot 6.2 searching scale 1 Z rot 6.5 searching scale 1 Z rot 6.7 searching scale 1 Z rot 7.0 searching scale 1 Z rot 7.2 searching scale 1 Z rot 7.5 searching scale 1 Z rot 7.7 searching scale 1 Z rot 8.0 searching scale 1 Z rot 8.2 searching scale 1 Z rot 8.5 searching scale 1 Z rot 8.7 searching scale 1 Z rot 9.0 searching scale 1 Z rot 9.2 searching scale 1 Z rot 9.5 searching scale 1 Z rot 9.7 searching scale 1 Z rot 10.0 searching scale 1 Z rot 10.2 searching scale 1 Z rot 10.5 searching scale 1 Z rot 10.7 searching scale 1 Z rot 11.0 searching scale 1 Z rot 11.2 searching scale 1 Z rot 11.5 global minimum found at slice 125.0, rotations (-4.36, 4.71) final transformation (x=125.0, yr=-4.360, zr=4.712): 0.99374 -0.08214 -0.07577 21.26715; 0.08190 0.99662 -0.00624 -9.23066; 0.07602 0.00000 0.99711 26.76343; 0.00000 0.00000 0.00000 1.00000; updating x range to be [125, 131] in xformed coordinates best xformed slice 127 min_x_fornix = 137 min_x_fornix = 138 min_x_fornix = 139 min_x_fornix = 139 min_x_fornix = 138 cc center is found at 127 128 92 eigenvectors: -0.00187 0.00428 0.99999; -0.18347 -0.98302 0.00386; 0.98302 -0.18346 0.00262; error in mid anterior detected - correcting... error in mid anterior detected - correcting... writing aseg with callosum to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/aseg.auto.mgz... corpus callosum segmentation took 0.5 minutes #VMPC# mri_cc VmPeak 439284 mri_cc done @#@FSTIME 2023:08:15:21:44:27 mri_cc N 7 e 29.54 S 0.30 U 29.23 P 99% M 344884 F 0 R 277434 W 0 c 149 w 1 I 0 O 680 L 1.10 1.03 1.06 @#@FSLOADPOST 2023:08:15:21:44:56 mri_cc N 7 1.19 1.06 1.06 #-------------------------------------- #@# Merge ASeg Tue 15 Aug 21:44:56 CEST 2023 cp aseg.auto.mgz aseg.presurf.mgz #-------------------------------------------- #@# Intensity Normalization2 Tue 15 Aug 21:44:56 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_normalize -seed 1234 -f /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/tmp/control.dat -mprage -aseg aseg.presurf.mgz -mask brainmask.mgz norm.mgz brain.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 using control points from file /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/tmp/control.dat... assuming input volume is MGH (Van der Kouwe) MP-RAGE using segmentation for initial intensity normalization using MR volume brainmask.mgz to mask input volume... reading mri_src from norm.mgz... INFO: MRImask() using MRImaskDifferentGeometry() Reading aseg aseg.presurf.mgz normalizing image... Reading 17 control points... only using 17 control points from file, mean 76.2, scaling by 1.44... Doing gentle normalization with control points/label building Voronoi diagram... performing soap bubble smoothing, sigma = 8... processing with aseg removing outliers in the aseg WM... 2721 control points removed Building bias image building Voronoi diagram... performing soap bubble smoothing, sigma = 0... Smoothing with sigma 8 Applying bias correction building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Iterating 2 times --------------------------------- 3d normalization pass 1 of 2 white matter peak found at 110 white matter peak found at 108 gm peak at 69 (69), valley at 40 (40) csf peak at 10, setting threshold to 49 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... --------------------------------- 3d normalization pass 2 of 2 white matter peak found at 110 white matter peak found at 110 gm peak at 70 (70), valley at 38 (38) csf peak at 35, setting threshold to 58 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to brain.mgz 3D bias adjustment took 2 minutes and 43 seconds. @#@FSTIME 2023:08:15:21:44:56 mri_normalize N 11 e 165.55 S 1.19 U 164.33 P 99% M 1210240 F 0 R 737991 W 0 c 1037 w 2 I 0 O 2464 L 1.19 1.06 1.06 @#@FSLOADPOST 2023:08:15:21:47:42 mri_normalize N 11 1.03 1.06 1.06 #-------------------------------------------- #@# Mask BFS Tue 15 Aug 21:47:42 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) threshold mask volume at 5 DoAbs = 0 Found 1371935 voxels in mask (pct= 15.06) INFO: MRImask() using MRImaskDifferentGeometry() Writing masked volume to brain.finalsurfs.mgz...done. @#@FSTIME 2023:08:15:21:47:42 mri_mask N 5 e 2.32 S 0.04 U 2.27 P 99% M 112536 F 0 R 26813 W 0 c 10 w 1 I 0 O 2456 L 1.03 1.06 1.06 @#@FSLOADPOST 2023:08:15:21:47:44 mri_mask N 5 1.11 1.07 1.07 #-------------------------------------------- #@# WM Segmentation Tue 15 Aug 21:47:44 CEST 2023 mri_binarize --i wm.mgz --min 255 --max 255 --o wm255.mgz --count wm255.txt 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri cmdline mri_binarize --i wm.mgz --min 255 --max 255 --o wm255.mgz --count wm255.txt sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia input wm.mgz frame 0 nErode3d 0 nErode2d 0 output wm255.mgz Binarizing based on threshold min 255 max 255 binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Starting parallel 1 Found 0 values in range Counting number of voxels in first frame Found -1 voxels in final mask Writing output to wm255.mgz Count: -1 -1.000000 16777216 -0.000006 mri_binarize done mri_binarize --i wm.mgz --min 1 --max 1 --o wm1.mgz --count wm1.txt 7.3.1 cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri cmdline mri_binarize --i wm.mgz --min 1 --max 1 --o wm1.mgz --count wm1.txt sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia input wm.mgz frame 0 nErode3d 0 nErode2d 0 output wm1.mgz Binarizing based on threshold min 1 max 1 binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Starting parallel 1 Found 0 values in range Counting number of voxels in first frame Found -1 voxels in final mask Writing output to wm1.mgz Count: -1 -1.000000 16777216 -0.000006 mri_binarize done rm wm1.mgz wm255.mgz Found wm edits: -1 deletes, -1 fills cp wm.mgz wm.seg.mgz AntsDenoiseImageFs -i brain.mgz -o antsdn.brain.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) @#@FSTIME 2023:08:15:21:47:49 AntsDenoiseImageFs N 4 e 35.31 S 0.12 U 35.17 P 99% M 350968 F 0 R 86508 W 0 c 188 w 2 I 0 O 2544 L 1.10 1.07 1.07 @#@FSLOADPOST 2023:08:15:21:48:24 AntsDenoiseImageFs N 4 1.13 1.08 1.07 mri_segment -wsizemm 13 -keep -mprage antsdn.brain.mgz wm.seg.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) preserving editing changes in output volume... wsizemm = 13, voxres = 1, wsize = 13 Widening wm low from 89 to 79 assuming input volume is MGH (Van der Kouwe) MP-RAGE wm mean: 110 wsize: 13 wm low: 79 wm hi: 125 gray low: 30 gray hi: 99 Doing initial trinary intensity segmentation Using local statistics to label ambiguous voxels Autodetecting stats Computing class statistics for intensity windows... CCS WM (104.0): 104.4 +- 6.5 [79.0 --> 125.0] CCS GM (70.0) : 67.8 +- 11.9 [30.0 --> 95.0] white_mean 104.402 white_sigma 6.45498 gray_mean 67.7815 gray_sigma 11.8984 setting bottom of white matter range wm_low to 79.7 setting top of gray matter range gray_hi to 91.6 wm_low 79.68 wm_hi 125 gray_low 30 gray_hi 91.5784 Redoing initial intensity segmentation... Recomputing local statistics to label ambiguous voxels... wm_low 79.68 wm_hi 125 gray_low 30 gray_hi 91.5784 using local geometry to label remaining ambiguous voxels... polvwsize = 5, polvlen = 3, gray_hi = 91.5784, wm_low = 79.68 MRIcpolvMedianCurveSegment(): wsize=5, len=3, gmhi=91.5784, wmlow=79.68 140100 voxels processed (0.84%) 69669 voxels white (0.42%) 70431 voxels non-white (0.42%) Reclassifying voxels using Gaussian border classifier niter=1 MRIreclassify(): wm_low=74.68, gray_hi=91.5784, wsize=13 218534 voxels tested (1.30%) 48476 voxels changed (0.29%) 41233 multi-scale searches (0.25%) Recovering bright white MRIrecoverBrightWhite() wm_low 79.68 wm_hi 125 slack 6.45498 pct_thresh 0.33 intensity_thresh 131.455 nvox_thresh 8.58 1769 voxels tested (0.01%) 1181 voxels changed (0.01%) removing voxels with positive offset direction... MRIremoveWrongDirection() wsize=3, lowthr=74.68, hithr=91.5784 smoothing input volume with sigma = 0.250 104159 voxels tested (0.62%) 15572 voxels changed (0.09%) thicken = 1 removing 1-dimensional structures... MRIremove1dStructures(): max_iter=10000, thresh=2, WM_MIN_VAL=5 2846 sparsely connected voxels removed in 1 iterations thickening thin strands.... thickness 4 nsegments 20 wm_hi 125 1762 diagonally connected voxels added... MRIthickenThinWMStrands(): thickness=4, nsegments=20 20 segments, 3002 filled MRIfindBrightNonWM(): 6932 bright non-wm voxels segmented. MRIfilterMorphology() WM_MIN_VAL=5, DIAGONAL_FILL=230 white matter segmentation took 1.0 minutes writing output to wm.seg.mgz... @#@FSTIME 2023:08:15:21:48:25 mri_segment N 6 e 58.56 S 0.31 U 58.24 P 99% M 131272 F 0 R 301641 W 0 c 211 w 1 I 0 O 840 L 1.13 1.08 1.07 @#@FSLOADPOST 2023:08:15:21:49:23 mri_segment N 6 1.13 1.08 1.07 mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) preserving editing changes in input volume... auto filling took 0.44 minutes reading wm segmentation from wm.seg.mgz... 0 voxels added to wm to prevent paths from MTL structures to cortex 6859 additional wm voxels added 0 additional wm voxels added SEG EDIT: 148477 voxels turned on, 27582 voxels turned off. propagating editing to output volume from wm.seg.mgz writing edited volume to wm.asegedit.mgz.... @#@FSTIME 2023:08:15:21:49:23 mri_edit_wm_with_aseg N 5 e 26.34 S 0.30 U 26.03 P 99% M 462164 F 0 R 317126 W 0 c 139 w 1 I 0 O 800 L 1.13 1.08 1.07 @#@FSLOADPOST 2023:08:15:21:49:49 mri_edit_wm_with_aseg N 5 1.16 1.09 1.08 mri_pretess -keep wm.asegedit.mgz wm norm.mgz wm.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Iteration Number : 1 pass 1 (xy+): 19 found - 19 modified | TOTAL: 19 pass 2 (xy+): 0 found - 19 modified | TOTAL: 19 pass 1 (xy-): 25 found - 25 modified | TOTAL: 44 pass 2 (xy-): 0 found - 25 modified | TOTAL: 44 pass 1 (yz+): 22 found - 22 modified | TOTAL: 66 pass 2 (yz+): 0 found - 22 modified | TOTAL: 66 pass 1 (yz-): 29 found - 29 modified | TOTAL: 95 pass 2 (yz-): 0 found - 29 modified | TOTAL: 95 pass 1 (xz+): 18 found - 18 modified | TOTAL: 113 pass 2 (xz+): 0 found - 18 modified | TOTAL: 113 pass 1 (xz-): 15 found - 15 modified | TOTAL: 128 pass 2 (xz-): 0 found - 15 modified | TOTAL: 128 Iteration Number : 1 pass 1 (+++): 6 found - 6 modified | TOTAL: 6 pass 2 (+++): 0 found - 6 modified | TOTAL: 6 pass 1 (+++): 12 found - 12 modified | TOTAL: 18 pass 2 (+++): 0 found - 12 modified | TOTAL: 18 pass 1 (+++): 16 found - 16 modified | TOTAL: 34 pass 2 (+++): 0 found - 16 modified | TOTAL: 34 pass 1 (+++): 6 found - 6 modified | TOTAL: 40 pass 2 (+++): 0 found - 6 modified | TOTAL: 40 Iteration Number : 1 pass 1 (++): 68 found - 68 modified | TOTAL: 68 pass 2 (++): 0 found - 68 modified | TOTAL: 68 pass 1 (+-): 48 found - 48 modified | TOTAL: 116 pass 2 (+-): 1 found - 49 modified | TOTAL: 117 pass 3 (+-): 0 found - 49 modified | TOTAL: 117 pass 1 (--): 62 found - 62 modified | TOTAL: 179 pass 2 (--): 2 found - 64 modified | TOTAL: 181 pass 3 (--): 0 found - 64 modified | TOTAL: 181 pass 1 (-+): 47 found - 47 modified | TOTAL: 228 pass 2 (-+): 0 found - 47 modified | TOTAL: 228 Iteration Number : 2 pass 1 (xy+): 3 found - 3 modified | TOTAL: 3 pass 2 (xy+): 0 found - 3 modified | TOTAL: 3 pass 1 (xy-): 4 found - 4 modified | TOTAL: 7 pass 2 (xy-): 0 found - 4 modified | TOTAL: 7 pass 1 (yz+): 4 found - 4 modified | TOTAL: 11 pass 2 (yz+): 0 found - 4 modified | TOTAL: 11 pass 1 (yz-): 4 found - 4 modified | TOTAL: 15 pass 2 (yz-): 0 found - 4 modified | TOTAL: 15 pass 1 (xz+): 2 found - 2 modified | TOTAL: 17 pass 2 (xz+): 0 found - 2 modified | TOTAL: 17 pass 1 (xz-): 2 found - 2 modified | TOTAL: 19 pass 2 (xz-): 0 found - 2 modified | TOTAL: 19 Iteration Number : 2 pass 1 (+++): 2 found - 2 modified | TOTAL: 2 pass 2 (+++): 0 found - 2 modified | TOTAL: 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 2 Iteration Number : 2 pass 1 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 0 found - 0 modified | TOTAL: 1 pass 1 (--): 2 found - 2 modified | TOTAL: 3 pass 2 (--): 0 found - 2 modified | TOTAL: 3 pass 1 (-+): 2 found - 2 modified | TOTAL: 5 pass 2 (-+): 0 found - 2 modified | TOTAL: 5 Iteration Number : 3 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 1 found - 1 modified | TOTAL: 1 pass 2 (xy-): 0 found - 1 modified | TOTAL: 1 pass 1 (yz+): 0 found - 0 modified | TOTAL: 1 pass 1 (yz-): 0 found - 0 modified | TOTAL: 1 pass 1 (xz+): 0 found - 0 modified | TOTAL: 1 pass 1 (xz-): 0 found - 0 modified | TOTAL: 1 Iteration Number : 3 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Iteration Number : 4 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 4 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 4 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 423 (out of 552140: 0.076611) keeping edits binarizing input wm segmentation... Ambiguous edge configurations... Searching for edits to keep ... kept 0 WM ON voxels kept 0 WM OFF voxels mri_pretess done @#@FSTIME 2023:08:15:21:49:49 mri_pretess N 5 e 4.64 S 0.02 U 4.62 P 99% M 57280 F 0 R 17083 W 0 c 16 w 1 I 0 O 800 L 1.16 1.09 1.08 @#@FSLOADPOST 2023:08:15:21:49:54 mri_pretess N 5 1.15 1.09 1.08 #-------------------------------------------- #@# Fill Tue 15 Aug 21:49:54 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.presurf.mgz -ctab /home/rosalia/software/freesurfer/SubCorticalMassLUT.txt -auto-man filled.auto.mgz filled.mgz ../tmp/filled.edits.txt wm.mgz filled.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) logging cutting plane coordinates to ../scripts/ponscc.cut.log... INFO: Using transforms/talairach.lta and its offset for Talairach volume ... using segmentation aseg.presurf.mgz... reading input volume...done. searching for cutting planes...voxel to talairach voxel transform 0.98091 -0.11329 -0.07674 25.07188; 0.13641 1.11104 0.36694 -85.20131; 0.04282 -0.34647 0.97933 36.34793; 0.00000 0.00000 0.00000 1.00000; Using auto-man filled.auto.mgz filled.mgz ../tmp/filled.edits.txt ndiff 0 voxel to talairach voxel transform 0.98091 -0.11329 -0.07674 25.07188; 0.13641 1.11104 0.36694 -85.20131; 0.04282 -0.34647 0.97933 36.34793; 0.00000 0.00000 0.00000 1.00000; reading segmented volume aseg.presurf.mgz removing CC from segmentation Looking for area (min, max) = (350, 1400) area[0] = 1656 (min = 350, max = 1400), aspect = 0.55 (min = 0.10, max = 0.75) need search nearby using seed (125, 113, 91), TAL = (3.0, -37.0, 15.0) talairach voxel to voxel transform 1.00211 0.11342 0.03603 -16.77097; -0.09721 0.79490 -0.30545 81.26587; -0.07821 0.27626 0.91147 -7.63162; 0.00000 0.00000 0.00000 1.00000; segmentation indicates cc at (125, 113, 91) --> (3.0, -37.0, 15.0) done. filling took 1.0 minutes talairach cc position changed to (3.00, -37.00, 15.00) Erasing brainstem...done. seed_search_size = 9, min_neighbors = 5 search rh wm seed point around talairach space:(21.00, -37.00, 15.00) SRC: (106.55, 132.89, 98.16) search lh wm seed point around talairach space (-15.00, -37.00, 15.00), SRC: (142.63, 129.39, 95.35) compute mri_fill using aseg Erasing Brain Stem and Cerebellum ... Define left and right masks using aseg: Building Voronoi diagram ... Using the Voronoi diagram for separating WM into two hemispheres ... Find the largest connected component for each hemisphere ... DoAutoMan 1 No edits to apply Writing edits to ../tmp/filled.edits.txt Embedding colortable mri_fill done, writing output to filled.mgz... @#@FSTIME 2023:08:15:21:49:54 mri_fill N 14 e 59.20 S 0.95 U 58.24 P 99% M 979168 F 0 R 502252 W 0 c 285 w 1 I 0 O 248 L 1.15 1.09 1.08 @#@FSLOADPOST 2023:08:15:21:50:53 mri_fill N 14 1.24 1.13 1.09 #-------------------------------------------- #@# Tessellate lh Tue 15 Aug 21:50:53 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Iteration Number : 1 pass 1 (xy+): 2 found - 2 modified | TOTAL: 2 pass 2 (xy+): 0 found - 2 modified | TOTAL: 2 pass 1 (xy-): 3 found - 3 modified | TOTAL: 5 pass 2 (xy-): 0 found - 3 modified | TOTAL: 5 pass 1 (yz+): 5 found - 5 modified | TOTAL: 10 pass 2 (yz+): 0 found - 5 modified | TOTAL: 10 pass 1 (yz-): 9 found - 9 modified | TOTAL: 19 pass 2 (yz-): 0 found - 9 modified | TOTAL: 19 pass 1 (xz+): 1 found - 1 modified | TOTAL: 20 pass 2 (xz+): 0 found - 1 modified | TOTAL: 20 pass 1 (xz-): 0 found - 0 modified | TOTAL: 20 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 1 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 1 found - 1 modified | TOTAL: 1 pass 2 (+-): 0 found - 1 modified | TOTAL: 1 pass 1 (--): 1 found - 1 modified | TOTAL: 2 pass 2 (--): 0 found - 1 modified | TOTAL: 2 pass 1 (-+): 0 found - 0 modified | TOTAL: 2 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 22 (out of 270767: 0.008125) Ambiguous edge configurations... mri_pretess done @#@FSTIME 2023:08:15:21:50:53 mri_pretess N 4 e 2.11 S 0.01 U 2.09 P 99% M 40536 F 0 R 8815 W 0 c 9 w 1 I 0 O 240 L 1.24 1.13 1.09 @#@FSLOADPOST 2023:08:15:21:50:56 mri_pretess N 4 1.24 1.13 1.09 mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 slice 50: 3690 vertices, 3923 faces slice 60: 13151 vertices, 13554 faces slice 70: 23822 vertices, 24196 faces slice 80: 34780 vertices, 35159 faces slice 90: 44581 vertices, 44929 faces slice 100: 54956 vertices, 55344 faces slice 110: 65320 vertices, 65701 faces slice 120: 75567 vertices, 75969 faces slice 130: 85367 vertices, 85743 faces slice 140: 94804 vertices, 95155 faces slice 150: 102690 vertices, 102959 faces slice 160: 109282 vertices, 109561 faces slice 170: 115294 vertices, 115529 faces slice 180: 120053 vertices, 120233 faces slice 190: 123345 vertices, 123459 faces slice 200: 124054 vertices, 124096 faces slice 210: 124054 vertices, 124096 faces slice 220: 124054 vertices, 124096 faces slice 230: 124054 vertices, 124096 faces slice 240: 124054 vertices, 124096 faces slice 250: 124054 vertices, 124096 faces using the conformed surface RAS to save vertex points... writing ../surf/lh.orig.nofix using vox2ras matrix: -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; @#@FSTIME 2023:08:15:21:50:56 mri_tessellate N 3 e 1.43 S 0.02 U 1.41 P 99% M 36632 F 0 R 8126 W 0 c 9 w 2 I 0 O 5824 L 1.24 1.13 1.09 @#@FSLOADPOST 2023:08:15:21:50:57 mri_tessellate N 3 1.24 1.13 1.09 rm -f ../mri/filled-pretess255.mgz mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) counting number of connected components... 124038 voxel in cpt #1: X=-44 [v=124038,e=372246,f=248164] located at (-27.793362, -19.977015, 3.632468) 16 voxel in cpt #2: X=2 [v=16,e=42,f=28] located at (1.000000, -5.625000, 21.625000) For the whole surface: X=-42 [v=124054,e=372288,f=248192] 2 components have been found keeping component #1 with 124038 vertices done @#@FSTIME 2023:08:15:21:50:57 mris_extract_main_component N 2 e 0.78 S 0.09 U 0.68 P 99% M 246948 F 0 R 65153 W 0 c 8 w 2 I 0 O 8728 L 1.24 1.13 1.09 @#@FSLOADPOST 2023:08:15:21:50:58 mris_extract_main_component N 2 1.24 1.13 1.09 #-------------------------------------------- #@# Tessellate rh Tue 15 Aug 21:50:58 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Iteration Number : 1 pass 1 (xy+): 2 found - 2 modified | TOTAL: 2 pass 2 (xy+): 0 found - 2 modified | TOTAL: 2 pass 1 (xy-): 0 found - 0 modified | TOTAL: 2 pass 1 (yz+): 8 found - 8 modified | TOTAL: 10 pass 2 (yz+): 0 found - 8 modified | TOTAL: 10 pass 1 (yz-): 8 found - 8 modified | TOTAL: 18 pass 2 (yz-): 0 found - 8 modified | TOTAL: 18 pass 1 (xz+): 2 found - 2 modified | TOTAL: 20 pass 2 (xz+): 0 found - 2 modified | TOTAL: 20 pass 1 (xz-): 1 found - 1 modified | TOTAL: 21 pass 2 (xz-): 0 found - 1 modified | TOTAL: 21 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 2 found - 2 modified | TOTAL: 2 pass 2 (+++): 0 found - 2 modified | TOTAL: 2 Iteration Number : 1 pass 1 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 0 found - 0 modified | TOTAL: 1 pass 1 (--): 0 found - 0 modified | TOTAL: 1 pass 1 (-+): 2 found - 2 modified | TOTAL: 3 pass 2 (-+): 0 found - 2 modified | TOTAL: 3 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 1 found - 1 modified | TOTAL: 1 pass 2 (yz-): 0 found - 1 modified | TOTAL: 1 pass 1 (xz+): 0 found - 0 modified | TOTAL: 1 pass 1 (xz-): 0 found - 0 modified | TOTAL: 1 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 1 found - 1 modified | TOTAL: 1 pass 2 (++): 0 found - 1 modified | TOTAL: 1 pass 1 (+-): 0 found - 0 modified | TOTAL: 1 pass 1 (--): 0 found - 0 modified | TOTAL: 1 pass 1 (-+): 0 found - 0 modified | TOTAL: 1 Iteration Number : 3 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 3 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 28 (out of 264719: 0.010577) Ambiguous edge configurations... mri_pretess done @#@FSTIME 2023:08:15:21:50:58 mri_pretess N 4 e 2.67 S 0.01 U 2.66 P 99% M 40344 F 0 R 8810 W 0 c 13 w 1 I 0 O 240 L 1.24 1.13 1.09 @#@FSLOADPOST 2023:08:15:21:51:00 mri_pretess N 4 1.30 1.14 1.10 mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 slice 50: 1239 vertices, 1345 faces slice 60: 7791 vertices, 8077 faces slice 70: 16399 vertices, 16739 faces slice 80: 26223 vertices, 26530 faces slice 90: 35815 vertices, 36155 faces slice 100: 45332 vertices, 45677 faces slice 110: 55186 vertices, 55544 faces slice 120: 65584 vertices, 65962 faces slice 130: 75552 vertices, 75945 faces slice 140: 85358 vertices, 85680 faces slice 150: 93905 vertices, 94217 faces slice 160: 101306 vertices, 101558 faces slice 170: 108952 vertices, 109208 faces slice 180: 115071 vertices, 115288 faces slice 190: 120592 vertices, 120791 faces slice 200: 122742 vertices, 122790 faces slice 210: 122742 vertices, 122790 faces slice 220: 122742 vertices, 122790 faces slice 230: 122742 vertices, 122790 faces slice 240: 122742 vertices, 122790 faces slice 250: 122742 vertices, 122790 faces using the conformed surface RAS to save vertex points... writing ../surf/rh.orig.nofix using vox2ras matrix: -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; @#@FSTIME 2023:08:15:21:51:01 mri_tessellate N 3 e 1.45 S 0.01 U 1.43 P 99% M 36484 F 0 R 8094 W 0 c 6 w 1 I 0 O 5760 L 1.30 1.14 1.10 @#@FSLOADPOST 2023:08:15:21:51:02 mri_tessellate N 3 1.30 1.14 1.10 rm -f ../mri/filled-pretess127.mgz mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) counting number of connected components... 122742 voxel in cpt #1: X=-48 [v=122742,e=368370,f=245580] located at (30.958204, -11.741107, 2.018959) For the whole surface: X=-48 [v=122742,e=368370,f=245580] One single component has been found nothing to do done @#@FSTIME 2023:08:15:21:51:02 mris_extract_main_component N 2 e 0.82 S 0.10 U 0.72 P 100% M 244700 F 0 R 64506 W 0 c 4 w 1 I 0 O 8640 L 1.30 1.14 1.10 @#@FSLOADPOST 2023:08:15:21:51:03 mris_extract_main_component N 2 1.30 1.14 1.10 #-------------------------------------------- #@# Smooth1 lh Tue 15 Aug 21:51:03 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:08:15:21:51:03 mris_smooth N 5 e 2.22 S 0.11 U 2.09 P 99% M 196956 F 0 R 58895 W 0 c 10 w 3 I 0 O 8728 L 1.30 1.14 1.10 @#@FSLOADPOST 2023:08:15:21:51:05 mris_smooth N 5 1.36 1.16 1.10 #-------------------------------------------- #@# Smooth1 rh Tue 15 Aug 21:51:05 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:08:15:21:51:05 mris_smooth N 5 e 2.31 S 0.11 U 2.19 P 99% M 194980 F 0 R 58321 W 0 c 16 w 5 I 0 O 8640 L 1.36 1.16 1.10 @#@FSLOADPOST 2023:08:15:21:51:07 mris_smooth N 5 1.36 1.16 1.10 #-------------------------------------------- #@# Inflation1 lh Tue 15 Aug 21:51:07 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Not saving sulc Reading ../surf/lh.smoothwm.nofix avg radius = 47.8 mm, total surface area = 67417 mm^2 step 000: RMS=0.150 (target=0.015) step 005: RMS=0.115 (target=0.015) step 010: RMS=0.086 (target=0.015) step 015: RMS=0.072 (target=0.015) step 020: RMS=0.062 (target=0.015) step 025: RMS=0.054 (target=0.015) step 030: RMS=0.050 (target=0.015) step 035: RMS=0.045 (target=0.015) step 040: RMS=0.042 (target=0.015) step 045: RMS=0.040 (target=0.015) step 050: RMS=0.038 (target=0.015) step 055: RMS=0.039 (target=0.015) step 060: RMS=0.039 (target=0.015) writing inflated surface to ../surf/lh.inflated.nofix inflation took 0.2 minutes inflation complete. Not saving sulc mris_inflate utimesec 14.131583 mris_inflate stimesec 0.675980 mris_inflate ru_maxrss 197208 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 518654 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 8728 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 4 mris_inflate ru_nivcsw 71 @#@FSTIME 2023:08:15:21:51:07 mris_inflate N 3 e 14.82 S 0.68 U 14.13 P 99% M 197208 F 0 R 518657 W 0 c 71 w 5 I 0 O 8728 L 1.36 1.16 1.10 @#@FSLOADPOST 2023:08:15:21:51:22 mris_inflate N 3 1.34 1.17 1.10 #-------------------------------------------- #@# Inflation1 rh Tue 15 Aug 21:51:22 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Not saving sulc Reading ../surf/rh.smoothwm.nofix avg radius = 47.3 mm, total surface area = 66246 mm^2 step 000: RMS=0.152 (target=0.015) step 005: RMS=0.117 (target=0.015) step 010: RMS=0.088 (target=0.015) step 015: RMS=0.076 (target=0.015) step 020: RMS=0.066 (target=0.015) step 025: RMS=0.059 (target=0.015) step 030: RMS=0.054 (target=0.015) step 035: RMS=0.051 (target=0.015) step 040: RMS=0.048 (target=0.015) step 045: RMS=0.046 (target=0.015) step 050: RMS=0.045 (target=0.015) step 055: RMS=0.044 (target=0.015) step 060: RMS=0.043 (target=0.015) writing inflated surface to ../surf/rh.inflated.nofix inflation took 0.2 minutes inflation complete. Not saving sulc mris_inflate utimesec 13.838056 mris_inflate stimesec 0.820121 mris_inflate ru_maxrss 195260 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 513099 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 8640 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 2 mris_inflate ru_nivcsw 47 @#@FSTIME 2023:08:15:21:51:22 mris_inflate N 3 e 14.67 S 0.83 U 13.83 P 99% M 195260 F 0 R 513102 W 0 c 47 w 3 I 0 O 8640 L 1.34 1.17 1.10 @#@FSLOADPOST 2023:08:15:21:51:37 mris_inflate N 3 1.34 1.17 1.11 #-------------------------------------------- #@# QSphere lh Tue 15 Aug 21:51:37 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_sphere -q -p 6 -a 128 -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) doing quick spherical unfolding. limitting unfolding to 6 passes using n_averages = 128 setting seed for random number genererator to 1234 version: 7.3.1 available threads: 1 scaling brain by 0.342... inflating... projecting onto sphere... surface projected - minimizing metric distortion... vertex spacing 1.03 +- 0.58 (0.00-->7.26) (max @ vno 95395 --> 95403) face area 0.03 +- 0.04 (-0.06-->0.86) Entering MRISinflateToSphere() inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=174.911, avgs=0 005/300: dt: 0.9000, rms radial error=174.658, avgs=0 010/300: dt: 0.9000, rms radial error=174.113, avgs=0 015/300: dt: 0.9000, rms radial error=173.397, avgs=0 020/300: dt: 0.9000, rms radial error=172.580, avgs=0 025/300: dt: 0.9000, rms radial error=171.705, avgs=0 030/300: dt: 0.9000, rms radial error=170.798, avgs=0 035/300: dt: 0.9000, rms radial error=169.873, avgs=0 040/300: dt: 0.9000, rms radial error=168.939, avgs=0 045/300: dt: 0.9000, rms radial error=168.001, avgs=0 050/300: dt: 0.9000, rms radial error=167.063, avgs=0 055/300: dt: 0.9000, rms radial error=166.126, avgs=0 060/300: dt: 0.9000, rms radial error=165.193, avgs=0 065/300: dt: 0.9000, rms radial error=164.263, avgs=0 070/300: dt: 0.9000, rms radial error=163.337, avgs=0 075/300: dt: 0.9000, rms radial error=162.414, avgs=0 080/300: dt: 0.9000, rms radial error=161.495, avgs=0 085/300: dt: 0.9000, rms radial error=160.582, avgs=0 090/300: dt: 0.9000, rms radial error=159.675, avgs=0 095/300: dt: 0.9000, rms radial error=158.773, avgs=0 100/300: dt: 0.9000, rms radial error=157.875, avgs=0 105/300: dt: 0.9000, rms radial error=156.982, avgs=0 110/300: dt: 0.9000, rms radial error=156.094, avgs=0 115/300: dt: 0.9000, rms radial error=155.210, avgs=0 120/300: dt: 0.9000, rms radial error=154.331, avgs=0 125/300: dt: 0.9000, rms radial error=153.457, avgs=0 130/300: dt: 0.9000, rms radial error=152.588, avgs=0 135/300: dt: 0.9000, rms radial error=151.724, avgs=0 140/300: dt: 0.9000, rms radial error=150.865, avgs=0 145/300: dt: 0.9000, rms radial error=150.010, avgs=0 150/300: dt: 0.9000, rms radial error=149.161, avgs=0 155/300: dt: 0.9000, rms radial error=148.316, avgs=0 160/300: dt: 0.9000, rms radial error=147.477, avgs=0 165/300: dt: 0.9000, rms radial error=146.642, avgs=0 170/300: dt: 0.9000, rms radial error=145.812, avgs=0 175/300: dt: 0.9000, rms radial error=144.986, avgs=0 180/300: dt: 0.9000, rms radial error=144.166, avgs=0 185/300: dt: 0.9000, rms radial error=143.351, avgs=0 190/300: dt: 0.9000, rms radial error=142.542, avgs=0 195/300: dt: 0.9000, rms radial error=141.738, avgs=0 200/300: dt: 0.9000, rms radial error=140.939, avgs=0 205/300: dt: 0.9000, rms radial error=140.143, avgs=0 210/300: dt: 0.9000, rms radial error=139.352, avgs=0 215/300: dt: 0.9000, rms radial error=138.566, avgs=0 220/300: dt: 0.9000, rms radial error=137.784, avgs=0 225/300: dt: 0.9000, rms radial error=137.006, avgs=0 230/300: dt: 0.9000, rms radial error=136.232, avgs=0 235/300: dt: 0.9000, rms radial error=135.463, avgs=0 240/300: dt: 0.9000, rms radial error=134.698, avgs=0 245/300: dt: 0.9000, rms radial error=133.938, avgs=0 250/300: dt: 0.9000, rms radial error=133.182, avgs=0 255/300: dt: 0.9000, rms radial error=132.429, avgs=0 260/300: dt: 0.9000, rms radial error=131.682, avgs=0 265/300: dt: 0.9000, rms radial error=130.938, avgs=0 270/300: dt: 0.9000, rms radial error=130.199, avgs=0 275/300: dt: 0.9000, rms radial error=129.464, avgs=0 280/300: dt: 0.9000, rms radial error=128.733, avgs=0 285/300: dt: 0.9000, rms radial error=128.005, avgs=0 290/300: dt: 0.9000, rms radial error=127.282, avgs=0 295/300: dt: 0.9000, rms radial error=126.564, avgs=0 300/300: dt: 0.9000, rms radial error=125.849, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 13963.35 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00049 epoch 2 (K=40.0), pass 1, starting sse = 2120.50 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00109 epoch 3 (K=160.0), pass 1, starting sse = 178.50 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.21/19 = 0.01129 epoch 4 (K=640.0), pass 1, starting sse = 7.35 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.19/26 = 0.00724 final distance error %100000.00 writing spherical brain to ../surf/lh.qsphere.nofix spherical transformation took 0.0320 hours FSRUNTIME@ mris_sphere 0.0320 hours 1 threads #VMPC# mris_sphere VmPeak 460548 mris_sphere done @#@FSTIME 2023:08:15:21:51:37 mris_sphere N 9 e 115.11 S 4.95 U 110.13 P 99% M 201708 F 0 R 3494958 W 0 c 490 w 5 I 0 O 8728 L 1.34 1.17 1.11 @#@FSLOADPOST 2023:08:15:21:53:32 mris_sphere N 9 1.27 1.19 1.11 #-------------------------------------------- #@# QSphere rh Tue 15 Aug 21:53:32 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_sphere -q -p 6 -a 128 -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) doing quick spherical unfolding. limitting unfolding to 6 passes using n_averages = 128 setting seed for random number genererator to 1234 version: 7.3.1 available threads: 1 scaling brain by 0.345... inflating... projecting onto sphere... surface projected - minimizing metric distortion... vertex spacing 1.03 +- 0.59 (0.00-->7.31) (max @ vno 91189 --> 91217) face area 0.03 +- 0.04 (-0.07-->0.93) Entering MRISinflateToSphere() inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=174.837, avgs=0 005/300: dt: 0.9000, rms radial error=174.582, avgs=0 010/300: dt: 0.9000, rms radial error=174.031, avgs=0 015/300: dt: 0.9000, rms radial error=173.308, avgs=0 020/300: dt: 0.9000, rms radial error=172.484, avgs=0 025/300: dt: 0.9000, rms radial error=171.603, avgs=0 030/300: dt: 0.9000, rms radial error=170.689, avgs=0 035/300: dt: 0.9000, rms radial error=169.759, avgs=0 040/300: dt: 0.9000, rms radial error=168.820, avgs=0 045/300: dt: 0.9000, rms radial error=167.882, avgs=0 050/300: dt: 0.9000, rms radial error=166.946, avgs=0 055/300: dt: 0.9000, rms radial error=166.013, avgs=0 060/300: dt: 0.9000, rms radial error=165.084, avgs=0 065/300: dt: 0.9000, rms radial error=164.159, avgs=0 070/300: dt: 0.9000, rms radial error=163.239, avgs=0 075/300: dt: 0.9000, rms radial error=162.324, avgs=0 080/300: dt: 0.9000, rms radial error=161.413, avgs=0 085/300: dt: 0.9000, rms radial error=160.507, avgs=0 090/300: dt: 0.9000, rms radial error=159.605, avgs=0 095/300: dt: 0.9000, rms radial error=158.709, avgs=0 100/300: dt: 0.9000, rms radial error=157.817, avgs=0 105/300: dt: 0.9000, rms radial error=156.930, avgs=0 110/300: dt: 0.9000, rms radial error=156.048, avgs=0 115/300: dt: 0.9000, rms radial error=155.170, avgs=0 120/300: dt: 0.9000, rms radial error=154.298, avgs=0 125/300: dt: 0.9000, rms radial error=153.430, avgs=0 130/300: dt: 0.9000, rms radial error=152.567, avgs=0 135/300: dt: 0.9000, rms radial error=151.708, avgs=0 140/300: dt: 0.9000, rms radial error=150.854, avgs=0 145/300: dt: 0.9000, rms radial error=150.005, avgs=0 150/300: dt: 0.9000, rms radial error=149.160, avgs=0 155/300: dt: 0.9000, rms radial error=148.320, avgs=0 160/300: dt: 0.9000, rms radial error=147.484, avgs=0 165/300: dt: 0.9000, rms radial error=146.653, avgs=0 170/300: dt: 0.9000, rms radial error=145.826, avgs=0 175/300: dt: 0.9000, rms radial error=145.004, avgs=0 180/300: dt: 0.9000, rms radial error=144.186, avgs=0 185/300: dt: 0.9000, rms radial error=143.373, avgs=0 190/300: dt: 0.9000, rms radial error=142.564, avgs=0 195/300: dt: 0.9000, rms radial error=141.760, avgs=0 200/300: dt: 0.9000, rms radial error=140.961, avgs=0 205/300: dt: 0.9000, rms radial error=140.165, avgs=0 210/300: dt: 0.9000, rms radial error=139.374, avgs=0 215/300: dt: 0.9000, rms radial error=138.588, avgs=0 220/300: dt: 0.9000, rms radial error=137.806, avgs=0 225/300: dt: 0.9000, rms radial error=137.028, avgs=0 230/300: dt: 0.9000, rms radial error=136.254, avgs=0 235/300: dt: 0.9000, rms radial error=135.485, avgs=0 240/300: dt: 0.9000, rms radial error=134.720, avgs=0 245/300: dt: 0.9000, rms radial error=133.960, avgs=0 250/300: dt: 0.9000, rms radial error=133.203, avgs=0 255/300: dt: 0.9000, rms radial error=132.451, avgs=0 260/300: dt: 0.9000, rms radial error=131.703, avgs=0 265/300: dt: 0.9000, rms radial error=130.960, avgs=0 270/300: dt: 0.9000, rms radial error=130.220, avgs=0 275/300: dt: 0.9000, rms radial error=129.485, avgs=0 280/300: dt: 0.9000, rms radial error=128.753, avgs=0 285/300: dt: 0.9000, rms radial error=128.026, avgs=0 290/300: dt: 0.9000, rms radial error=127.303, avgs=0 295/300: dt: 0.9000, rms radial error=126.584, avgs=0 300/300: dt: 0.9000, rms radial error=125.869, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 13782.14 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00057 epoch 2 (K=40.0), pass 1, starting sse = 2067.03 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00059 epoch 3 (K=160.0), pass 1, starting sse = 185.03 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.21/19 = 0.01122 epoch 4 (K=640.0), pass 1, starting sse = 12.24 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.19/23 = 0.00805 final distance error %100000.00 writing spherical brain to ../surf/rh.qsphere.nofix spherical transformation took 0.0307 hours FSRUNTIME@ mris_sphere 0.0307 hours 1 threads #VMPC# mris_sphere VmPeak 458728 mris_sphere done @#@FSTIME 2023:08:15:21:53:32 mris_sphere N 9 e 110.71 S 4.70 U 105.99 P 99% M 200036 F 0 R 3358557 W 0 c 623 w 5 I 0 O 8640 L 1.27 1.19 1.11 @#@FSLOADPOST 2023:08:15:21:55:23 mris_sphere N 9 1.34 1.21 1.13 #@# Fix Topology lh Tue 15 Aug 21:55:23 CEST 2023 mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 sub-073_ses-BSL lh /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading spherical homeomorphism from 'qsphere.nofix' reading inflated coordinates from 'inflated.nofix' reading original coordinates from 'orig.nofix' using genetic algorithm with optimized parameters setting seed for random number genererator to 1234 ************************************************************* Topology Correction Parameters retessellation mode: genetic search number of patches/generation : 10 number of generations : 10 surface mri loglikelihood coefficient : 1.0 volume mri loglikelihood coefficient : 10.0 normal dot loglikelihood coefficient : 1.0 quadratic curvature loglikelihood coefficient : 1.0 volume resolution : 2 eliminate vertices during search : 1 initial patch selection : 1 select all defect vertices : 0 ordering dependant retessellation: 0 use precomputed edge table : 0 smooth retessellated patch : 2 match retessellated patch : 1 verbose mode : 0 ************************************************************* INFO: assuming .mgz format writing corrected surface to 'orig.premesh' 7.3.1 7.3.1 before topology correction, eno=-44 (nv=124038, nf=248164, ne=372246, g=23) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 8 iterations marking ambiguous vertices... 2677 ambiguous faces found in tessellation segmenting defects... 34 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 8 into 7 -merging segment 15 into 14 32 defects to be corrected 0 vertices coincident reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Reading original properties of orig.nofix Reading vertex positions of inflated.nofix Computing Initial Surface Statistics -face loglikelihood: -9.5769 (-4.7884) -vertex loglikelihood: -7.0953 (-3.5476) -normal dot loglikelihood: -3.5589 (-3.5589) -quad curv loglikelihood: -5.9230 (-2.9615) Total Loglikelihood : -26.1541 CORRECTING DEFECT 0 (vertices=166, convex hull=179, v0=1944) After retessellation of defect 0 (v0=1944), euler #=-31 (122420,366493,244042) : difference with theory (-29) = 2 CORRECTING DEFECT 1 (vertices=56, convex hull=97, v0=3079) After retessellation of defect 1 (v0=3079), euler #=-30 (122451,366629,244148) : difference with theory (-28) = 2 CORRECTING DEFECT 2 (vertices=48, convex hull=20, v0=9990) After retessellation of defect 2 (v0=9990), euler #=-29 (122455,366647,244163) : difference with theory (-27) = 2 CORRECTING DEFECT 3 (vertices=6, convex hull=13, v0=11049) After retessellation of defect 3 (v0=11049), euler #=-28 (122456,366654,244170) : difference with theory (-26) = 2 CORRECTING DEFECT 4 (vertices=43, convex hull=93, v0=14561) After retessellation of defect 4 (v0=14561), euler #=-27 (122486,366788,244275) : difference with theory (-25) = 2 CORRECTING DEFECT 5 (vertices=44, convex hull=75, v0=17605) After retessellation of defect 5 (v0=17605), euler #=-26 (122517,366913,244370) : difference with theory (-24) = 2 CORRECTING DEFECT 6 (vertices=35, convex hull=27, v0=19770) After retessellation of defect 6 (v0=19770), euler #=-25 (122520,366930,244385) : difference with theory (-23) = 2 CORRECTING DEFECT 7 (vertices=123, convex hull=170, v0=23387) After retessellation of defect 7 (v0=23387), euler #=-23 (122592,367232,244617) : difference with theory (-22) = 1 CORRECTING DEFECT 8 (vertices=26, convex hull=56, v0=30660) After retessellation of defect 8 (v0=30660), euler #=-22 (122612,367314,244680) : difference with theory (-21) = 1 CORRECTING DEFECT 9 (vertices=51, convex hull=46, v0=44597) After retessellation of defect 9 (v0=44597), euler #=-21 (122623,367363,244719) : difference with theory (-20) = 1 CORRECTING DEFECT 10 (vertices=69, convex hull=36, v0=51668) After retessellation of defect 10 (v0=51668), euler #=-20 (122629,367394,244745) : difference with theory (-19) = 1 CORRECTING DEFECT 11 (vertices=42, convex hull=72, v0=53817) After retessellation of defect 11 (v0=53817), euler #=-19 (122654,367500,244827) : difference with theory (-18) = 1 CORRECTING DEFECT 12 (vertices=8, convex hull=28, v0=54634) After retessellation of defect 12 (v0=54634), euler #=-18 (122656,367515,244841) : difference with theory (-17) = 1 CORRECTING DEFECT 13 (vertices=135, convex hull=79, v0=55741) After retessellation of defect 13 (v0=55741), euler #=-16 (122669,367585,244900) : difference with theory (-16) = 0 CORRECTING DEFECT 14 (vertices=37, convex hull=28, v0=63436) After retessellation of defect 14 (v0=63436), euler #=-15 (122672,367601,244914) : difference with theory (-15) = 0 CORRECTING DEFECT 15 (vertices=113, convex hull=140, v0=66312) After retessellation of defect 15 (v0=66312), euler #=-14 (122736,367858,245108) : difference with theory (-14) = 0 CORRECTING DEFECT 16 (vertices=34, convex hull=22, v0=79012) After retessellation of defect 16 (v0=79012), euler #=-13 (122741,367879,245125) : difference with theory (-13) = 0 CORRECTING DEFECT 17 (vertices=69, convex hull=42, v0=84474) After retessellation of defect 17 (v0=84474), euler #=-12 (122749,367923,245162) : difference with theory (-12) = 0 CORRECTING DEFECT 18 (vertices=94, convex hull=120, v0=91849) After retessellation of defect 18 (v0=91849), euler #=-11 (122798,368116,245307) : difference with theory (-11) = 0 CORRECTING DEFECT 19 (vertices=54, convex hull=94, v0=94337) After retessellation of defect 19 (v0=94337), euler #=-10 (122831,368253,245412) : difference with theory (-10) = 0 CORRECTING DEFECT 20 (vertices=16, convex hull=42, v0=97641) After retessellation of defect 20 (v0=97641), euler #=-9 (122837,368284,245438) : difference with theory (-9) = 0 CORRECTING DEFECT 21 (vertices=49, convex hull=83, v0=98074) After retessellation of defect 21 (v0=98074), euler #=-8 (122864,368402,245530) : difference with theory (-8) = 0 CORRECTING DEFECT 22 (vertices=7, convex hull=21, v0=99915) After retessellation of defect 22 (v0=99915), euler #=-7 (122866,368415,245542) : difference with theory (-7) = 0 CORRECTING DEFECT 23 (vertices=30, convex hull=24, v0=104924) After retessellation of defect 23 (v0=104924), euler #=-6 (122872,368441,245563) : difference with theory (-6) = 0 CORRECTING DEFECT 24 (vertices=99, convex hull=116, v0=105141) After retessellation of defect 24 (v0=105141), euler #=-5 (122882,368529,245642) : difference with theory (-5) = 0 CORRECTING DEFECT 25 (vertices=23, convex hull=49, v0=105302) After retessellation of defect 25 (v0=105302), euler #=-4 (122893,368578,245681) : difference with theory (-4) = 0 CORRECTING DEFECT 26 (vertices=27, convex hull=66, v0=106428) After retessellation of defect 26 (v0=106428), euler #=-3 (122912,368658,245743) : difference with theory (-3) = 0 CORRECTING DEFECT 27 (vertices=15, convex hull=18, v0=111521) After retessellation of defect 27 (v0=111521), euler #=-2 (122915,368671,245754) : difference with theory (-2) = 0 CORRECTING DEFECT 28 (vertices=47, convex hull=83, v0=115679) After retessellation of defect 28 (v0=115679), euler #=-1 (122944,368796,245851) : difference with theory (-1) = 0 CORRECTING DEFECT 29 (vertices=100, convex hull=40, v0=116020) After retessellation of defect 29 (v0=116020), euler #=0 (122951,368830,245879) : difference with theory (0) = 0 CORRECTING DEFECT 30 (vertices=18, convex hull=25, v0=121988) After retessellation of defect 30 (v0=121988), euler #=1 (122952,368842,245891) : difference with theory (1) = 0 CORRECTING DEFECT 31 (vertices=33, convex hull=27, v0=123496) After retessellation of defect 31 (v0=123496), euler #=2 (122953,368853,245902) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.89 +- 0.22 (0.10-->8.03) (max @ vno 103196 --> 108419) face area -nan +- -nan (1000.00-->-1.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.89 +- 0.22 (0.10-->8.03) (max @ vno 103196 --> 108419) face area -nan +- -nan (1000.00-->-1.00) tessellation finished, orienting corrected surface... 95 mutations (32.5%), 197 crossovers (67.5%), 41 vertices were eliminated building final representation... 1085 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=122953, nf=245902, ne=368853, g=0) writing corrected surface to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig.premesh... 0.000 % of the vertices (0 vertices) exhibit an orientation change removing intersecting faces 000: 165 intersecting 001: 12 intersecting terminating search with 0 intersecting topology fixing took 1.7 minutes FSRUNTIME@ mris_fix_topology lh 0.0285 hours 1 threads #VMPC# mris_fix_topology VmPeak 745680 @#@FSTIME 2023:08:15:21:55:23 mris_fix_topology N 14 e 102.80 S 0.39 U 102.39 P 99% M 725744 F 0 R 215268 W 0 c 527 w 1 I 0 O 11576 L 1.34 1.21 1.13 @#@FSLOADPOST 2023:08:15:21:57:06 mris_fix_topology N 14 1.17 1.20 1.13 #@# Fix Topology rh Tue 15 Aug 21:57:06 CEST 2023 mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 sub-073_ses-BSL rh /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading spherical homeomorphism from 'qsphere.nofix' reading inflated coordinates from 'inflated.nofix' reading original coordinates from 'orig.nofix' using genetic algorithm with optimized parameters setting seed for random number genererator to 1234 ************************************************************* Topology Correction Parameters retessellation mode: genetic search number of patches/generation : 10 number of generations : 10 surface mri loglikelihood coefficient : 1.0 volume mri loglikelihood coefficient : 10.0 normal dot loglikelihood coefficient : 1.0 quadratic curvature loglikelihood coefficient : 1.0 volume resolution : 2 eliminate vertices during search : 1 initial patch selection : 1 select all defect vertices : 0 ordering dependant retessellation: 0 use precomputed edge table : 0 smooth retessellated patch : 2 match retessellated patch : 1 verbose mode : 0 ************************************************************* INFO: assuming .mgz format writing corrected surface to 'orig.premesh' 7.3.1 7.3.1 before topology correction, eno=-48 (nv=122742, nf=245580, ne=368370, g=25) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 9 iterations marking ambiguous vertices... 6172 ambiguous faces found in tessellation segmenting defects... 31 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 30 into 27 30 defects to be corrected 0 vertices coincident reading input surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Reading original properties of orig.nofix Reading vertex positions of inflated.nofix Computing Initial Surface Statistics -face loglikelihood: -9.6245 (-4.8122) -vertex loglikelihood: -7.1091 (-3.5545) -normal dot loglikelihood: -3.6032 (-3.6032) -quad curv loglikelihood: -6.1600 (-3.0800) Total Loglikelihood : -26.4968 CORRECTING DEFECT 0 (vertices=37, convex hull=72, v0=6382) After retessellation of defect 0 (v0=6382), euler #=-27 (119237,356826,237562) : difference with theory (-27) = 0 CORRECTING DEFECT 1 (vertices=250, convex hull=130, v0=13408) After retessellation of defect 1 (v0=13408), euler #=-26 (119290,357044,237728) : difference with theory (-26) = 0 CORRECTING DEFECT 2 (vertices=39, convex hull=77, v0=14748) After retessellation of defect 2 (v0=14748), euler #=-25 (119308,357129,237796) : difference with theory (-25) = 0 CORRECTING DEFECT 3 (vertices=33, convex hull=69, v0=36667) After retessellation of defect 3 (v0=36667), euler #=-24 (119324,357204,237856) : difference with theory (-24) = 0 CORRECTING DEFECT 4 (vertices=46, convex hull=76, v0=43329) After retessellation of defect 4 (v0=43329), euler #=-23 (119355,357329,237951) : difference with theory (-23) = 0 CORRECTING DEFECT 5 (vertices=98, convex hull=67, v0=50350) After retessellation of defect 5 (v0=50350), euler #=-22 (119378,357430,238030) : difference with theory (-22) = 0 CORRECTING DEFECT 6 (vertices=29, convex hull=19, v0=58375) After retessellation of defect 6 (v0=58375), euler #=-21 (119382,357449,238046) : difference with theory (-21) = 0 CORRECTING DEFECT 7 (vertices=63, convex hull=57, v0=61453) After retessellation of defect 7 (v0=61453), euler #=-20 (119402,357535,238113) : difference with theory (-20) = 0 CORRECTING DEFECT 8 (vertices=34, convex hull=35, v0=67133) After retessellation of defect 8 (v0=67133), euler #=-19 (119408,357563,238136) : difference with theory (-19) = 0 CORRECTING DEFECT 9 (vertices=14, convex hull=26, v0=67923) After retessellation of defect 9 (v0=67923), euler #=-18 (119411,357582,238153) : difference with theory (-18) = 0 CORRECTING DEFECT 10 (vertices=125, convex hull=133, v0=68627) After retessellation of defect 10 (v0=68627), euler #=-17 (119471,357826,238338) : difference with theory (-17) = 0 CORRECTING DEFECT 11 (vertices=6, convex hull=21, v0=70762) After retessellation of defect 11 (v0=70762), euler #=-16 (119472,357837,238349) : difference with theory (-16) = 0 CORRECTING DEFECT 12 (vertices=280, convex hull=122, v0=72804) After retessellation of defect 12 (v0=72804), euler #=-15 (119540,358101,238546) : difference with theory (-15) = 0 CORRECTING DEFECT 13 (vertices=6, convex hull=19, v0=81427) After retessellation of defect 13 (v0=81427), euler #=-14 (119541,358109,238554) : difference with theory (-14) = 0 CORRECTING DEFECT 14 (vertices=6, convex hull=19, v0=83131) After retessellation of defect 14 (v0=83131), euler #=-13 (119542,358117,238562) : difference with theory (-13) = 0 CORRECTING DEFECT 15 (vertices=19, convex hull=33, v0=83686) After retessellation of defect 15 (v0=83686), euler #=-12 (119547,358140,238581) : difference with theory (-12) = 0 CORRECTING DEFECT 16 (vertices=14, convex hull=19, v0=88424) After retessellation of defect 16 (v0=88424), euler #=-11 (119549,358152,238592) : difference with theory (-11) = 0 CORRECTING DEFECT 17 (vertices=20, convex hull=22, v0=90920) After retessellation of defect 17 (v0=90920), euler #=-10 (119552,358170,238608) : difference with theory (-10) = 0 CORRECTING DEFECT 18 (vertices=25, convex hull=24, v0=91570) After retessellation of defect 18 (v0=91570), euler #=-9 (119558,358197,238630) : difference with theory (-9) = 0 CORRECTING DEFECT 19 (vertices=23, convex hull=72, v0=91895) After retessellation of defect 19 (v0=91895), euler #=-8 (119568,358252,238676) : difference with theory (-8) = 0 CORRECTING DEFECT 20 (vertices=50, convex hull=35, v0=95075) After retessellation of defect 20 (v0=95075), euler #=-7 (119580,358301,238714) : difference with theory (-7) = 0 CORRECTING DEFECT 21 (vertices=25, convex hull=20, v0=96290) After retessellation of defect 21 (v0=96290), euler #=-6 (119584,358322,238732) : difference with theory (-6) = 0 CORRECTING DEFECT 22 (vertices=5, convex hull=13, v0=97931) After retessellation of defect 22 (v0=97931), euler #=-5 (119586,358331,238740) : difference with theory (-5) = 0 CORRECTING DEFECT 23 (vertices=40, convex hull=53, v0=101066) After retessellation of defect 23 (v0=101066), euler #=-4 (119607,358413,238802) : difference with theory (-4) = 0 CORRECTING DEFECT 24 (vertices=14, convex hull=26, v0=104246) After retessellation of defect 24 (v0=104246), euler #=-3 (119609,358431,238819) : difference with theory (-3) = 0 CORRECTING DEFECT 25 (vertices=245, convex hull=170, v0=104452) After retessellation of defect 25 (v0=104452), euler #=-2 (119637,358597,238958) : difference with theory (-2) = 0 CORRECTING DEFECT 26 (vertices=6, convex hull=22, v0=106430) After retessellation of defect 26 (v0=106430), euler #=-1 (119640,358612,238971) : difference with theory (-1) = 0 CORRECTING DEFECT 27 (vertices=1892, convex hull=537, v0=115712) An extra large defect has been detected... This often happens because cerebellum or dura has not been removed from wm.mgz. This may cause recon-all to run very slowly or crash. if so, see https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/TopologicalDefect_freeview After retessellation of defect 27 (v0=115712), euler #=0 (119994,359953,239959) : difference with theory (0) = 0 CORRECTING DEFECT 28 (vertices=56, convex hull=36, v0=116749) After retessellation of defect 28 (v0=116749), euler #=1 (120002,359989,239988) : difference with theory (1) = 0 CORRECTING DEFECT 29 (vertices=18, convex hull=27, v0=120111) After retessellation of defect 29 (v0=120111), euler #=2 (120004,360006,240004) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.89 +- 0.22 (0.05-->9.40) (max @ vno 117549 --> 119217) face area -nan +- -nan (1000.00-->-1.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.89 +- 0.22 (0.05-->9.40) (max @ vno 117549 --> 119217) face area -nan +- -nan (1000.00-->-1.00) tessellation finished, orienting corrected surface... 137 mutations (38.4%), 220 crossovers (61.6%), 163 vertices were eliminated building final representation... 2738 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=120004, nf=240004, ne=360006, g=0) writing corrected surface to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig.premesh... 0.000 % of the vertices (0 vertices) exhibit an orientation change removing intersecting faces 000: 465 intersecting 001: 60 intersecting 002: 22 intersecting step 1 with no progress (num=22, old_num=22) 003: 22 intersecting step 2 with no progress (num=22, old_num=22) 004: 22 intersecting step 3 with no progress (num=22, old_num=22) 005: 22 intersecting step 4 with no progress (num=22, old_num=22) 006: 22 intersecting step 5 with no progress (num=22, old_num=22) 007: 22 intersecting step 6 with no progress (num=22, old_num=22) 008: 22 intersecting step 7 with no progress (num=22, old_num=22) 009: 22 intersecting step 8 with no progress (num=22, old_num=22) 010: 22 intersecting step 9 with no progress (num=22, old_num=22) 011: 22 intersecting step 10 with no progress (num=22, old_num=22) 012: 22 intersecting step 11 with no progress (num=22, old_num=22) 013: 22 intersecting step 12 with no progress (num=22, old_num=22) 014: 22 intersecting step 13 with no progress (num=22, old_num=22) 015: 22 intersecting step 14 with no progress (num=22, old_num=22) 016: 22 intersecting step 15 with no progress (num=22, old_num=22) 017: 22 intersecting step 16 with no progress (num=22, old_num=22) terminating search with 22 intersecting topology fixing took 2.1 minutes FSRUNTIME@ mris_fix_topology rh 0.0352 hours 1 threads #VMPC# mris_fix_topology VmPeak 744672 @#@FSTIME 2023:08:15:21:57:06 mris_fix_topology N 14 e 126.60 S 0.39 U 126.19 P 99% M 724832 F 0 R 214901 W 0 c 642 w 6 I 8 O 11320 L 1.17 1.20 1.13 @#@FSLOADPOST 2023:08:15:21:59:12 mris_fix_topology N 14 1.10 1.18 1.13 mris_euler_number ../surf/lh.orig.premesh euler # = v-e+f = 2g-2: 122953 - 368853 + 245902 = 2 --> 0 holes F =2V-4: 245902 = 245906-4 (0) 2E=3F: 737706 = 737706 (0) total defect index = 0 mris_euler_number ../surf/rh.orig.premesh euler # = v-e+f = 2g-2: 120004 - 360006 + 240004 = 2 --> 0 holes F =2V-4: 240004 = 240008-4 (0) 2E=3F: 720012 = 720012 (0) total defect index = 0 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Tue 15 Aug 21:59:13 CEST 2023 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts /home/rosalia/software/freesurfer/bin/defect2seg --s sub-073_ses-BSL --cortex freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 defect2seg 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux pid 647618 mri_label2label --label-cortex /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig.nofix /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/aseg.presurf.mgz 0 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.nofix.cortex.label Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 12 non-cortical segments detected only using segment with 8791 vertices erasing segment 0 (vno[0] = 30952) erasing segment 2 (vno[0] = 61028) erasing segment 3 (vno[0] = 85925) erasing segment 4 (vno[0] = 87971) erasing segment 5 (vno[0] = 88002) erasing segment 6 (vno[0] = 88861) erasing segment 7 (vno[0] = 89717) erasing segment 8 (vno[0] = 89754) erasing segment 9 (vno[0] = 90790) erasing segment 10 (vno[0] = 106906) erasing segment 11 (vno[0] = 108885) mri_label2vol --defects /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig.nofix /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.defect_labels /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz 1000 0 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/surface.defects.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.nofix.cortex.label mri_label2vol supposed to be reproducible but seed not set Contraining to label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.nofix.cortex.label Changing input type 0 to MRI_INT Converting defects to volume: offset=1000, merge=0 Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/surface.defects.mgz mris_defects_pointset -s /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig.nofix -d /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.defect_labels -o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.defects.pointset --label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.nofix.cortex.label Reading in surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig.nofix Reading in defect segmentation /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.defect_labels Reading in label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.nofix.cortex.label #VMPC# mris_defects_pointset 164452 mris_defects_pointset done mri_label2label --label-cortex /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig.nofix /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/aseg.presurf.mgz 0 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.nofix.cortex.label Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 20 non-cortical segments detected only using segment with 8304 vertices erasing segment 0 (vno[0] = 18948) erasing segment 1 (vno[0] = 22156) erasing segment 3 (vno[0] = 48120) erasing segment 4 (vno[0] = 58006) erasing segment 5 (vno[0] = 75254) erasing segment 6 (vno[0] = 77397) erasing segment 7 (vno[0] = 80460) erasing segment 8 (vno[0] = 80486) erasing segment 9 (vno[0] = 81375) erasing segment 10 (vno[0] = 81388) erasing segment 11 (vno[0] = 84166) erasing segment 12 (vno[0] = 85064) erasing segment 13 (vno[0] = 85935) erasing segment 14 (vno[0] = 87546) erasing segment 15 (vno[0] = 88425) erasing segment 16 (vno[0] = 89294) erasing segment 17 (vno[0] = 93559) erasing segment 18 (vno[0] = 101754) erasing segment 19 (vno[0] = 104486) mri_label2vol --defects /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig.nofix /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.defect_labels /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/surface.defects.mgz 2000 1 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/surface.defects.mgz /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.nofix.cortex.label mri_label2vol supposed to be reproducible but seed not set Contraining to label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.nofix.cortex.label Converting defects to volume: offset=2000, merge=1 Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/surface.defects.mgz mris_defects_pointset -s /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig.nofix -d /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.defect_labels -o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.defects.pointset --label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.nofix.cortex.label Reading in surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig.nofix Reading in defect segmentation /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.defect_labels Reading in label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.nofix.cortex.label #VMPC# mris_defects_pointset 163088 mris_defects_pointset done Started at Tue 15 Aug 21:59:13 CEST 2023 Ended at Tue 15 Aug 21:59:40 CEST 2023 Defect2seg-Run-Time-Sec 27 Defect2seg-Run-Time-Min 0.54 Defect2seg-Run-Time-Hours 0.01 tkmeditfv sub-073_ses-BSL brain.finalsurfs.mgz -defect defect2seg Done @#@FSTIME 2023:08:15:21:59:13 defect2seg N 3 e 27.16 S 0.68 U 26.48 P 100% M 371112 F 0 R 420213 W 0 c 128 w 216 I 0 O 20160 L 1.10 1.18 1.13 @#@FSLOADPOST 2023:08:15:21:59:40 defect2seg N 3 1.30 1.22 1.14 mris_remesh --remesh --iters 3 --input /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig.premesh --output /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.orig /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) iters = 3 standard remeshing without target adjusted l: 0.710884 remeshing to edge length 0.710884 with 3 iterations avg qual before : 0.892465 after: 0.971101 Removing intersections Remeshed surface quality stats nv0 = 122953 nv = 128566 1.04565 Area 257128 0.30285 0.03368 0.081901 0.4828 Corner 771384 60.00000 8.80512 18.534955 142.4502 Edge 385692 0.84430 0.08253 0.451001 1.2819 Hinge 385692 9.50869 10.19618 0.000036 141.5520 mris_remesh done @#@FSTIME 2023:08:15:21:59:41 mris_remesh N 7 e 24.31 S 0.43 U 23.86 P 99% M 693656 F 0 R 274728 W 0 c 228 w 3 I 0 O 9048 L 1.30 1.22 1.14 @#@FSLOADPOST 2023:08:15:22:00:05 mris_remesh N 7 1.25 1.22 1.14 mris_remesh --remesh --iters 3 --input /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig.premesh --output /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.orig /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) iters = 3 standard remeshing without target adjusted l: 0.710975 remeshing to edge length 0.710975 with 3 iterations avg qual before : 0.89079 after: 0.971232 Removing intersections removing intersecting faces 000: 8 intersecting step 1 with no progress (num=8, old_num=8) 001: 8 intersecting step 2 with no progress (num=9, old_num=8) 002: 9 intersecting step 3 with no progress (num=9, old_num=9) 003: 9 intersecting step 4 with no progress (num=9, old_num=9) 004: 9 intersecting step 5 with no progress (num=9, old_num=9) 005: 9 intersecting step 6 with no progress (num=9, old_num=9) 006: 9 intersecting step 7 with no progress (num=9, old_num=9) 007: 9 intersecting step 8 with no progress (num=9, old_num=9) 008: 9 intersecting step 9 with no progress (num=9, old_num=9) 009: 9 intersecting step 10 with no progress (num=9, old_num=9) 010: 9 intersecting step 11 with no progress (num=9, old_num=9) 011: 9 intersecting step 12 with no progress (num=9, old_num=9) 012: 9 intersecting step 13 with no progress (num=9, old_num=9) 013: 9 intersecting step 14 with no progress (num=9, old_num=9) 014: 9 intersecting step 15 with no progress (num=9, old_num=9) 015: 9 intersecting step 16 with no progress (num=9, old_num=9) terminating search with 8 intersecting Remeshed surface quality stats nv0 = 120004 nv = 125360 1.04463 Area 250716 0.30233 0.03362 0.072452 0.4536 Corner 752148 60.00000 8.78906 16.087379 147.2124 Edge 376074 0.84353 0.08230 0.410855 1.2395 Hinge 376074 9.69584 10.66074 0.000015 161.3562 mris_remesh done @#@FSTIME 2023:08:15:22:00:05 mris_remesh N 7 e 50.17 S 0.56 U 49.60 P 99% M 887704 F 0 R 363742 W 0 c 239 w 3 I 0 O 8816 L 1.25 1.22 1.14 @#@FSLOADPOST 2023:08:15:22:00:55 mris_remesh N 7 1.11 1.18 1.13 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_remove_intersection ../surf/lh.orig ../surf/lh.orig /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) intersection removal took 0.00 hours writing corrected surface to ../surf/lh.orig @#@FSTIME 2023:08:15:22:00:55 mris_remove_intersection N 2 e 2.54 S 0.15 U 2.38 P 99% M 325320 F 0 R 85958 W 0 c 14 w 2 I 0 O 9048 L 1.11 1.18 1.13 @#@FSLOADPOST 2023:08:15:22:00:58 mris_remove_intersection N 2 1.11 1.18 1.13 rm -f ../surf/lh.inflated /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_remove_intersection ../surf/rh.orig ../surf/rh.orig /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) intersection removal took 0.01 hours removing intersecting faces 000: 8 intersecting step 1 with no progress (num=8, old_num=8) 001: 8 intersecting step 2 with no progress (num=9, old_num=8) 002: 9 intersecting step 3 with no progress (num=9, old_num=9) 003: 9 intersecting step 4 with no progress (num=9, old_num=9) 004: 9 intersecting step 5 with no progress (num=9, old_num=9) 005: 9 intersecting step 6 with no progress (num=9, old_num=9) 006: 9 intersecting step 7 with no progress (num=9, old_num=9) 007: 9 intersecting step 8 with no progress (num=9, old_num=9) 008: 9 intersecting step 9 with no progress (num=9, old_num=9) 009: 9 intersecting step 10 with no progress (num=9, old_num=9) 010: 9 intersecting step 11 with no progress (num=9, old_num=9) 011: 9 intersecting step 12 with no progress (num=9, old_num=9) 012: 9 intersecting step 13 with no progress (num=9, old_num=9) 013: 9 intersecting step 14 with no progress (num=9, old_num=9) 014: 9 intersecting step 15 with no progress (num=9, old_num=9) 015: 9 intersecting step 16 with no progress (num=9, old_num=9) terminating search with 8 intersecting writing corrected surface to ../surf/rh.orig @#@FSTIME 2023:08:15:22:00:58 mris_remove_intersection N 2 e 27.88 S 0.22 U 27.65 P 99% M 373224 F 0 R 105605 W 0 c 149 w 5 I 0 O 8824 L 1.11 1.18 1.13 @#@FSLOADPOST 2023:08:15:22:01:26 mris_remove_intersection N 2 1.17 1.20 1.14 rm -f ../surf/rh.inflated #-------------------------------------------- #@# AutoDetGWStats lh Tue 15 Aug 22:01:26 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh border white: 231825 voxels (1.38%) border gray 253183 voxels (1.51%) Reading in intensity volume brain.finalsurfs.mgz Reading in wm volume wm.mgz Reading in surf ../surf/lh.orig.premesh Auto detecting stats MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (96.0): 96.1 +- 9.1 [70.0 --> 110.0] CCS GM (70.0) : 68.7 +- 12.6 [30.0 --> 110.0] white_mean = 96.1173 +/- 9.07395, gray_mean = 68.7391 +/- 12.6237 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=255 nbins=256 intensity peaks found at WM=99+-7.8, GM=64+-13.0 white_mode = 99, gray_mode = 64 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 51.4 (was 70.000000) setting MAX_BORDER_WHITE to 108.1 (was 105.000000) setting MIN_BORDER_WHITE to 64.0 (was 85.000000) setting MAX_CSF to 38.8 (was 40.000000) setting MAX_GRAY to 89.9 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 51.4 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 26.1 (was 40.000000) When placing the white surface white_border_hi = 108.074; white_border_low = 64; white_outside_low = 51.3763; white_inside_hi = 120; white_outside_hi = 108.074; When placing the pial surface pial_border_hi = 51.3763; pial_border_low = 26.1288; pial_outside_low = 10; pial_inside_hi = 89.9261; pial_outside_hi = 45.0644; #VMPC# mris_autodet_gwstats VmPeak 244492 mris_autodet_gwstats done @#@FSTIME 2023:08:15:22:01:26 mris_autodet_gwstats N 8 e 4.26 S 0.10 U 4.16 P 99% M 224456 F 0 R 66454 W 0 c 19 w 0 I 0 O 8 L 1.17 1.20 1.14 @#@FSLOADPOST 2023:08:15:22:01:30 mris_autodet_gwstats N 8 1.24 1.21 1.14 #-------------------------------------------- #@# AutoDetGWStats rh Tue 15 Aug 22:01:30 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh border white: 231825 voxels (1.38%) border gray 253183 voxels (1.51%) Reading in intensity volume brain.finalsurfs.mgz Reading in wm volume wm.mgz Reading in surf ../surf/rh.orig.premesh Auto detecting stats MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (96.0): 96.1 +- 9.1 [70.0 --> 110.0] CCS GM (70.0) : 68.7 +- 12.6 [30.0 --> 110.0] white_mean = 96.1173 +/- 9.07395, gray_mean = 68.7391 +/- 12.6237 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=255 nbins=256 intensity peaks found at WM=100+-8.7, GM=63+-13.0 white_mode = 100, gray_mode = 63 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 50.4 (was 70.000000) setting MAX_BORDER_WHITE to 109.1 (was 105.000000) setting MIN_BORDER_WHITE to 63.0 (was 85.000000) setting MAX_CSF to 37.8 (was 40.000000) setting MAX_GRAY to 90.9 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 50.4 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 25.1 (was 40.000000) When placing the white surface white_border_hi = 109.074; white_border_low = 63; white_outside_low = 50.3763; white_inside_hi = 120; white_outside_hi = 109.074; When placing the pial surface pial_border_hi = 50.3763; pial_border_low = 25.1288; pial_outside_low = 10; pial_inside_hi = 90.9261; pial_outside_hi = 44.0644; #VMPC# mris_autodet_gwstats VmPeak 240700 mris_autodet_gwstats done @#@FSTIME 2023:08:15:22:01:30 mris_autodet_gwstats N 8 e 4.28 S 0.09 U 4.18 P 100% M 220476 F 0 R 62333 W 0 c 22 w 1 I 0 O 8 L 1.24 1.21 1.14 @#@FSLOADPOST 2023:08:15:22:01:34 mris_autodet_gwstats N 8 1.22 1.21 1.14 #-------------------------------------------- #@# WhitePreAparc lh Tue 15 Aug 22:01:34 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --lh --i ../surf/lh.orig --o ../surf/lh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --lh --i ../surf/lh.orig --o ../surf/lh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 Reading in input surface ../surf/lh.orig Smoothing surface before ripping with 5 iterations Area 257128 0.26849 0.06397 0.005624 0.5879 Corner 771384 60.00000 9.49037 11.091671 141.7306 Edge 385692 0.79102 0.11565 0.092196 1.2540 Hinge 385692 6.27339 6.45318 0.000011 134.6678 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 MRIfindBrightNonWM(): 8146 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=0 #FML# MRISripMidline(): nmarked=7707, nmarked2=0, nripped=7707 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 64283: xyz = (-41.7095,-8.77936,35.6601) oxyz = (-41.7095,-8.77936,35.6601) wxzy = (-41.7095,-8.77936,35.6601) pxyz = (0,0,0) CBVO Creating mask 128566 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7707 #FML# MRISripMidline(): nmarked=7707, nmarked2=0, nripped=7707 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=2 had to be increased for 102 vertices, nripped=7707 mean border=77.7, 478 (478) missing vertices, mean dist 0.2 [1.0 (%39.4)->1.0 (%60.6))] %21 local maxima, %73 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1437 min Finding expansion regions mean absolute distance = 1.00 +- 1.24 4889 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=4653050.5, rms=13.688 001: dt: 0.5000, sse=2478592.8, rms=9.864 (27.942%) 002: dt: 0.5000, sse=1491433.4, rms=7.503 (23.936%) 003: dt: 0.5000, sse=1019018.1, rms=6.050 (19.366%) 004: dt: 0.5000, sse=760430.6, rms=5.068 (16.235%) 005: dt: 0.5000, sse=607508.1, rms=4.388 (13.409%) 006: dt: 0.5000, sse=528658.9, rms=3.971 (9.509%) 007: dt: 0.5000, sse=486340.6, rms=3.749 (5.595%) 008: dt: 0.5000, sse=472688.7, rms=3.634 (3.053%) 009: dt: 0.5000, sse=465968.2, rms=3.569 (1.799%) rms = 3.5417/3.5688, sse=452459.0/465968.2, time step reduction 1 of 3 to 0.250 0 0 1 010: dt: 0.5000, sse=452459.0, rms=3.542 (0.761%) 011: dt: 0.2500, sse=267674.0, rms=2.182 (38.377%) 012: dt: 0.2500, sse=238684.6, rms=1.858 (14.855%) rms = 1.7889/1.8583, sse=239135.0/238684.6, time step reduction 2 of 3 to 0.125 0 1 0 013: dt: 0.2500, sse=239135.0, rms=1.789 (3.733%) 014: dt: 0.1250, sse=214302.5, rms=1.593 (10.935%) rms = 1.5542/1.5933, sse=212046.6/214302.5, time step reduction 3 of 3 to 0.062 0 0 1 015: dt: 0.1250, sse=212046.6, rms=1.554 (2.457%) maximum number of reductions reached, breaking from loop positioning took 1.3 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7707 removing 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8068, nmarked2=26, nripped=8068 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=1 had to be increased for 233 vertices, nripped=8068 mean border=80.2, 444 (275) missing vertices, mean dist -0.3 [0.6 (%63.5)->0.3 (%36.5))] %34 local maxima, %59 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1050 min Finding expansion regions mean absolute distance = 0.47 +- 0.88 4858 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=702128.8, rms=4.549 016: dt: 0.5000, sse=477640.2, rms=3.309 (27.267%) rms = 3.2707/3.3089, sse=467092.9/477640.2, time step reduction 1 of 3 to 0.250 0 0 1 017: dt: 0.5000, sse=467092.9, rms=3.271 (1.153%) 018: dt: 0.2500, sse=302203.5, rms=1.985 (39.320%) 019: dt: 0.2500, sse=286352.3, rms=1.691 (14.779%) 020: dt: 0.2500, sse=277582.7, rms=1.591 (5.918%) 021: dt: 0.2500, sse=267931.7, rms=1.503 (5.556%) rms = 1.4833/1.5029, sse=260922.1/267931.7, time step reduction 2 of 3 to 0.125 0 0 1 022: dt: 0.2500, sse=260922.1, rms=1.483 (1.304%) 023: dt: 0.1250, sse=250308.5, rms=1.316 (11.273%) rms = 1.2776/1.3161, sse=249933.5/250308.5, time step reduction 3 of 3 to 0.062 0 0 1 024: dt: 0.1250, sse=249933.5, rms=1.278 (2.919%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=8068 removing 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8121, nmarked2=28, nripped=8121 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 280 vertices, nripped=8121 mean border=83.2, 425 (223) missing vertices, mean dist -0.2 [0.4 (%69.0)->0.2 (%31.0))] %58 local maxima, %35 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0612 min Finding expansion regions mean absolute distance = 0.36 +- 0.53 3554 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=634427.3, rms=4.230 025: dt: 0.5000, sse=411880.3, rms=2.902 (31.392%) rms = 3.0317/2.9019, sse=437393.0/411880.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 026: dt: 0.2500, sse=303815.1, rms=2.030 (30.059%) 027: dt: 0.2500, sse=267453.5, rms=1.548 (23.713%) 028: dt: 0.2500, sse=255919.9, rms=1.433 (7.470%) 029: dt: 0.2500, sse=253087.6, rms=1.373 (4.172%) rms = 1.3943/1.3729, sse=255623.4/253087.6, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step 030: dt: 0.1250, sse=241502.3, rms=1.292 (5.904%) 031: dt: 0.1250, sse=235213.5, rms=1.172 (9.251%) rms = 1.1423/1.1723, sse=237849.1/235213.6, time step reduction 3 of 3 to 0.062 0 1 1 032: dt: 0.1250, sse=237849.1, rms=1.142 (2.566%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=8121 removing 2 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 1 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8167, nmarked2=28, nripped=8167 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 309 vertices, nripped=8167 mean border=84.6, 428 (190) missing vertices, mean dist -0.1 [0.3 (%60.0)->0.2 (%40.0))] %69 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0396 min Finding expansion regions mean absolute distance = 0.27 +- 0.40 2893 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=313111.0, rms=2.157 rms = 2.4025/2.1575, sse=345006.7/313111.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 033: dt: 0.2500, sse=245542.4, rms=1.428 (33.830%) 034: dt: 0.2500, sse=227785.2, rms=1.059 (25.827%) rms = 1.1447/1.0589, sse=233882.9/227785.2, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step 035: dt: 0.1250, sse=222887.3, rms=0.984 (7.078%) 036: dt: 0.1250, sse=219336.3, rms=0.898 (8.717%) rms = 0.8797/0.8982, sse=218778.9/219336.3, time step reduction 3 of 3 to 0.062 0 0 1 037: dt: 0.1250, sse=218778.9, rms=0.880 (2.059%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Writing output to ../surf/lh.white.preaparc #ET# mris_place_surface 3.78 minutes #VMPC# mris_place_surfaces VmPeak 2151432 mris_place_surface done @#@FSTIME 2023:08:15:22:01:34 mris_place_surface N 18 e 233.93 S 0.74 U 233.14 P 99% M 1892820 F 0 R 496748 W 0 c 1277 w 5 I 0 O 9048 L 1.22 1.21 1.14 @#@FSLOADPOST 2023:08:15:22:05:28 mris_place_surface N 18 1.66 1.31 1.19 #-------------------------------------------- #@# WhitePreAparc rh Tue 15 Aug 22:05:28 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --rh --i ../surf/rh.orig --o ../surf/rh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --rh --i ../surf/rh.orig --o ../surf/rh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 Reading in input surface ../surf/rh.orig Smoothing surface before ripping with 5 iterations removing intersecting faces 000: 10 intersecting 001: 4 intersecting terminating search with 0 intersecting Area 250716 0.26697 0.06497 0.000136 0.5689 Corner 752148 60.00000 9.66427 1.189177 172.9192 Edge 376074 0.78859 0.11805 0.026305 1.4586 Hinge 376074 6.40553 6.89662 0.000013 170.6265 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 MRIfindBrightNonWM(): 8146 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=0 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7611, nmarked2=14, nripped=7611 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 62680: xyz = (59.5931,-1.08427,5.133) oxyz = (59.5931,-1.08427,5.133) wxzy = (59.5931,-1.08427,5.133) pxyz = (0,0,0) CBVO Creating mask 125360 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7611 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7611, nmarked2=14, nripped=7611 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=2 had to be increased for 597 vertices, nripped=7611 mean border=76.7, 823 (823) missing vertices, mean dist 0.2 [1.1 (%37.2)->1.0 (%62.8))] %22 local maxima, %71 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1456 min Finding expansion regions mean absolute distance = 1.02 +- 1.27 4665 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=5286545.5, rms=14.822 001: dt: 0.5000, sse=3125379.0, rms=11.312 (23.682%) 002: dt: 0.5000, sse=2092211.2, rms=9.152 (19.098%) 003: dt: 0.5000, sse=1564728.1, rms=7.808 (14.679%) 004: dt: 0.5000, sse=1251731.6, rms=6.880 (11.889%) 005: dt: 0.5000, sse=1038394.8, rms=6.173 (10.281%) 006: dt: 0.5000, sse=913885.6, rms=5.669 (8.166%) 007: dt: 0.5000, sse=860523.5, rms=5.358 (5.482%) 008: dt: 0.5000, sse=800606.9, rms=5.195 (3.037%) 009: dt: 0.5000, sse=777541.3, rms=5.082 (2.170%) 010: dt: 0.5000, sse=774645.1, rms=5.008 (1.456%) 011: dt: 0.5000, sse=731335.7, rms=4.929 (1.586%) 012: dt: 0.5000, sse=711677.9, rms=4.860 (1.396%) rms = 4.8261/4.8602, sse=709043.6/711677.9, time step reduction 1 of 3 to 0.250 0 0 1 013: dt: 0.5000, sse=709043.6, rms=4.826 (0.703%) 014: dt: 0.2500, sse=515649.9, rms=3.879 (19.617%) 015: dt: 0.2500, sse=478831.0, rms=3.674 (5.280%) 016: dt: 0.2500, sse=462466.0, rms=3.608 (1.810%) 017: dt: 0.2500, sse=460329.3, rms=3.536 (2.003%) 018: dt: 0.2500, sse=455434.9, rms=3.482 (1.509%) rms = 3.4644/3.4823, sse=450722.8/455434.9, time step reduction 2 of 3 to 0.125 0 0 1 019: dt: 0.2500, sse=450722.8, rms=3.464 (0.515%) 020: dt: 0.1250, sse=436815.6, rms=3.395 (2.013%) rms = 3.3571/3.3947, sse=424594.7/436815.6, time step reduction 3 of 3 to 0.062 0 0 1 021: dt: 0.1250, sse=424594.7, rms=3.357 (1.106%) maximum number of reductions reached, breaking from loop positioning took 1.7 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7611 removing 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8033, nmarked2=86, nripped=8033 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=1 had to be increased for 389 vertices, nripped=8033 mean border=79.4, 633 (291) missing vertices, mean dist -0.3 [0.6 (%64.7)->0.3 (%35.3))] %35 local maxima, %58 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1036 min Finding expansion regions mean absolute distance = 0.47 +- 0.90 4558 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=1031771.1, rms=5.902 022: dt: 0.5000, sse=774311.8, rms=4.829 (18.174%) 023: dt: 0.5000, sse=749475.1, rms=4.703 (2.620%) 024: dt: 0.5000, sse=734222.1, rms=4.645 (1.232%) rms = 4.6242/4.6446, sse=728673.2/734222.1, time step reduction 1 of 3 to 0.250 0 0 1 025: dt: 0.5000, sse=728673.2, rms=4.624 (0.440%) 026: dt: 0.2500, sse=529433.2, rms=3.528 (23.704%) 027: dt: 0.2500, sse=480997.9, rms=3.290 (6.743%) rms = 3.2082/3.2902, sse=482811.6/480997.9, time step reduction 2 of 3 to 0.125 0 1 0 028: dt: 0.2500, sse=482811.6, rms=3.208 (2.490%) 029: dt: 0.1250, sse=448349.9, rms=3.063 (4.515%) 030: dt: 0.1250, sse=434824.3, rms=2.979 (2.758%) 031: dt: 0.1250, sse=427490.0, rms=2.916 (2.126%) rms = 2.8733/2.9156, sse=418720.8/427490.0, time step reduction 3 of 3 to 0.062 0 0 1 032: dt: 0.1250, sse=418720.8, rms=2.873 (1.451%) maximum number of reductions reached, breaking from loop positioning took 0.9 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=8033 removing 2 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 1 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8103, nmarked2=91, nripped=8103 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 358 vertices, nripped=8103 mean border=82.3, 563 (172) missing vertices, mean dist -0.2 [0.4 (%69.1)->0.2 (%30.9))] %58 local maxima, %35 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0604 min Finding expansion regions mean absolute distance = 0.34 +- 0.53 3250 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=778390.5, rms=4.891 033: dt: 0.5000, sse=603816.2, rms=3.924 (19.768%) rms = 3.9940/3.9243, sse=634525.1/603816.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 034: dt: 0.2500, sse=464522.7, rms=3.231 (17.659%) 035: dt: 0.2500, sse=425282.4, rms=2.893 (10.465%) 036: dt: 0.2500, sse=408885.6, rms=2.805 (3.061%) 037: dt: 0.2500, sse=396873.1, rms=2.726 (2.796%) rms = 2.6938/2.7262, sse=390537.8/396873.1, time step reduction 2 of 3 to 0.125 0 0 1 038: dt: 0.2500, sse=390537.8, rms=2.694 (1.190%) 039: dt: 0.1250, sse=380031.7, rms=2.529 (6.104%) rms = 2.4838/2.5293, sse=366038.1/380031.6, time step reduction 3 of 3 to 0.062 0 0 1 040: dt: 0.1250, sse=366038.1, rms=2.484 (1.800%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=8103 #FML# MRISripMidline(): nmarked=8188, nmarked2=92, nripped=8188 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 330 vertices, nripped=8188 mean border=83.7, 546 (100) missing vertices, mean dist -0.1 [0.3 (%59.8)->0.2 (%40.2))] %69 local maxima, %23 large gradients and % 1 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0395 min Finding expansion regions mean absolute distance = 0.27 +- 0.41 2942 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=435356.4, rms=3.057 rms = 3.3268/3.0572, sse=487530.1/435356.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 041: dt: 0.2500, sse=362917.5, rms=2.530 (17.236%) 042: dt: 0.2500, sse=346110.6, rms=2.382 (5.871%) rms = 2.4441/2.3817, sse=353203.9/346110.6, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step 043: dt: 0.1250, sse=340381.3, rms=2.329 (2.221%) 044: dt: 0.1250, sse=331812.4, rms=2.265 (2.761%) rms = 2.2272/2.2645, sse=330201.9/331812.5, time step reduction 3 of 3 to 0.062 0 0 1 045: dt: 0.1250, sse=330201.9, rms=2.227 (1.648%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Writing output to ../surf/rh.white.preaparc #ET# mris_place_surface 4.24 minutes #VMPC# mris_place_surfaces VmPeak 2223356 mris_place_surface done @#@FSTIME 2023:08:15:22:05:28 mris_place_surface N 18 e 265.75 S 0.87 U 264.82 P 99% M 1964808 F 0 R 514300 W 0 c 1924 w 4 I 0 O 8824 L 1.66 1.31 1.19 @#@FSLOADPOST 2023:08:15:22:09:54 mris_place_surface N 18 1.11 1.19 1.17 #-------------------------------------------- #@# CortexLabel lh Tue 15 Aug 22:09:54 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 0 ../label/lh.cortex.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 7 non-cortical segments detected only using segment with 9729 vertices erasing segment 0 (vno[0] = 26984) erasing segment 1 (vno[0] = 35917) erasing segment 3 (vno[0] = 40376) erasing segment 4 (vno[0] = 92249) erasing segment 5 (vno[0] = 92797) erasing segment 6 (vno[0] = 92872) @#@FSTIME 2023:08:15:22:09:54 mri_label2label N 5 e 12.57 S 0.17 U 12.39 P 99% M 319096 F 0 R 94480 W 0 c 48 w 3 I 0 O 10352 L 1.11 1.19 1.17 @#@FSLOADPOST 2023:08:15:22:10:07 mri_label2label N 5 1.09 1.19 1.16 #-------------------------------------------- #@# CortexLabel+HipAmyg lh Tue 15 Aug 22:10:07 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 1 ../label/lh.cortex+hipamyg.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=1 NucAccIsMedialWall=0 mris->useRealRAS=0 8 non-cortical segments detected only using segment with 8217 vertices erasing segment 0 (vno[0] = 26984) erasing segment 1 (vno[0] = 35917) erasing segment 3 (vno[0] = 40376) erasing segment 4 (vno[0] = 76207) erasing segment 5 (vno[0] = 92249) erasing segment 6 (vno[0] = 92797) erasing segment 7 (vno[0] = 92872) @#@FSTIME 2023:08:15:22:10:07 mri_label2label N 5 e 12.53 S 0.19 U 12.33 P 99% M 323472 F 0 R 95630 W 0 c 53 w 2 I 0 O 10488 L 1.09 1.19 1.16 @#@FSLOADPOST 2023:08:15:22:10:19 mri_label2label N 5 1.14 1.19 1.17 #-------------------------------------------- #@# CortexLabel rh Tue 15 Aug 22:10:19 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 0 ../label/rh.cortex.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 13 non-cortical segments detected only using segment with 8994 vertices erasing segment 1 (vno[0] = 32649) erasing segment 2 (vno[0] = 40103) erasing segment 3 (vno[0] = 43612) erasing segment 4 (vno[0] = 44379) erasing segment 5 (vno[0] = 72052) erasing segment 6 (vno[0] = 74207) erasing segment 7 (vno[0] = 85398) erasing segment 8 (vno[0] = 86019) erasing segment 9 (vno[0] = 87197) erasing segment 10 (vno[0] = 87794) erasing segment 11 (vno[0] = 111257) erasing segment 12 (vno[0] = 117580) @#@FSTIME 2023:08:15:22:10:19 mri_label2label N 5 e 12.62 S 0.17 U 12.45 P 99% M 341140 F 0 R 99455 W 0 c 55 w 5 I 0 O 9920 L 1.14 1.19 1.17 @#@FSLOADPOST 2023:08:15:22:10:32 mri_label2label N 5 1.12 1.19 1.17 #-------------------------------------------- #@# CortexLabel+HipAmyg rh Tue 15 Aug 22:10:32 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 1 ../label/rh.cortex+hipamyg.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=1 NucAccIsMedialWall=0 mris->useRealRAS=0 13 non-cortical segments detected only using segment with 7654 vertices erasing segment 1 (vno[0] = 32649) erasing segment 2 (vno[0] = 40103) erasing segment 3 (vno[0] = 43612) erasing segment 4 (vno[0] = 44379) erasing segment 5 (vno[0] = 72052) erasing segment 6 (vno[0] = 74207) erasing segment 7 (vno[0] = 85398) erasing segment 8 (vno[0] = 86019) erasing segment 9 (vno[0] = 87197) erasing segment 10 (vno[0] = 87794) erasing segment 11 (vno[0] = 111257) erasing segment 12 (vno[0] = 117580) @#@FSTIME 2023:08:15:22:10:32 mri_label2label N 5 e 12.63 S 0.17 U 12.44 P 99% M 341072 F 0 R 99469 W 0 c 52 w 6 I 0 O 10032 L 1.12 1.19 1.17 @#@FSLOADPOST 2023:08:15:22:10:44 mri_label2label N 5 1.16 1.19 1.17 #-------------------------------------------- #@# Smooth2 lh Tue 15 Aug 22:10:44 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:08:15:22:10:44 mris_smooth N 7 e 2.65 S 0.12 U 2.52 P 99% M 197772 F 0 R 59540 W 0 c 15 w 3 I 0 O 9048 L 1.16 1.19 1.17 @#@FSLOADPOST 2023:08:15:22:10:47 mris_smooth N 7 1.16 1.19 1.17 #-------------------------------------------- #@# Smooth2 rh Tue 15 Aug 22:10:47 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:08:15:22:10:47 mris_smooth N 7 e 2.58 S 0.10 U 2.47 P 99% M 193192 F 0 R 58080 W 0 c 7 w 3 I 0 O 8824 L 1.16 1.19 1.17 @#@FSLOADPOST 2023:08:15:22:10:50 mris_smooth N 7 1.15 1.19 1.17 #-------------------------------------------- #@# Inflation2 lh Tue 15 Aug 22:10:50 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_inflate ../surf/lh.smoothwm ../surf/lh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ../surf/lh.smoothwm avg radius = 47.7 mm, total surface area = 79443 mm^2 step 000: RMS=0.168 (target=0.015) step 005: RMS=0.114 (target=0.015) step 010: RMS=0.085 (target=0.015) step 015: RMS=0.071 (target=0.015) step 020: RMS=0.057 (target=0.015) step 025: RMS=0.048 (target=0.015) step 030: RMS=0.040 (target=0.015) step 035: RMS=0.033 (target=0.015) step 040: RMS=0.028 (target=0.015) step 045: RMS=0.024 (target=0.015) step 050: RMS=0.022 (target=0.015) step 055: RMS=0.020 (target=0.015) step 060: RMS=0.019 (target=0.015) writing inflated surface to ../surf/lh.inflated writing sulcal depths to ../surf/lh.sulc inflation complete. inflation took 0.3 minutes mris_inflate utimesec 17.461493 mris_inflate stimesec 0.764065 mris_inflate ru_maxrss 198164 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 506170 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 10056 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 1 mris_inflate ru_nivcsw 65 @#@FSTIME 2023:08:15:22:10:50 mris_inflate N 2 e 18.23 S 0.77 U 17.46 P 99% M 198164 F 0 R 506173 W 0 c 65 w 2 I 0 O 10056 L 1.15 1.19 1.17 @#@FSLOADPOST 2023:08:15:22:11:08 mris_inflate N 2 1.11 1.18 1.16 #-------------------------------------------- #@# Inflation2 rh Tue 15 Aug 22:11:08 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_inflate ../surf/rh.smoothwm ../surf/rh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ../surf/rh.smoothwm avg radius = 47.0 mm, total surface area = 78775 mm^2 step 000: RMS=0.171 (target=0.015) step 005: RMS=0.118 (target=0.015) step 010: RMS=0.089 (target=0.015) step 015: RMS=0.074 (target=0.015) step 020: RMS=0.060 (target=0.015) step 025: RMS=0.050 (target=0.015) step 030: RMS=0.042 (target=0.015) step 035: RMS=0.036 (target=0.015) step 040: RMS=0.031 (target=0.015) step 045: RMS=0.027 (target=0.015) step 050: RMS=0.024 (target=0.015) step 055: RMS=0.022 (target=0.015) step 060: RMS=0.021 (target=0.015) writing inflated surface to ../surf/rh.inflated writing sulcal depths to ../surf/rh.sulc inflation complete. inflation took 0.3 minutes mris_inflate utimesec 16.783815 mris_inflate stimesec 0.099998 mris_inflate ru_maxrss 194264 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 51872 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 8 mris_inflate ru_oublock 9808 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 1 mris_inflate ru_nivcsw 140 @#@FSTIME 2023:08:15:22:11:08 mris_inflate N 2 e 16.91 S 0.12 U 16.78 P 99% M 194644 F 0 R 51875 W 0 c 140 w 2 I 8 O 9808 L 1.11 1.18 1.16 @#@FSLOADPOST 2023:08:15:22:11:25 mris_inflate N 2 1.14 1.18 1.17 #-------------------------------------------- #@# Curv .H and .K lh Tue 15 Aug 22:11:25 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature -w -seed 1234 lh.white.preaparc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 total integrated curvature = 14.497*4pi (182.172) --> -13 handles ICI = 150.2, FI = 1373.2, variation=22123.535 writing Gaussian curvature to ./lh.white.preaparc.K...done. writing mean curvature to ./lh.white.preaparc.H...done. @#@FSTIME 2023:08:15:22:11:25 mris_curvature N 4 e 1.51 S 0.06 U 1.45 P 99% M 147736 F 0 R 40236 W 0 c 10 w 1 I 0 O 2016 L 1.14 1.18 1.17 @#@FSLOADPOST 2023:08:15:22:11:27 mris_curvature N 4 1.14 1.18 1.17 rm -f lh.white.H ln -s lh.white.preaparc.H lh.white.H rm -f lh.white.K ln -s lh.white.preaparc.K lh.white.K mris_curvature -seed 1234 -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 148 vertices thresholded to be in k1 ~ [-0.77 0.47], k2 ~ [-0.11 0.09] total integrated curvature = 0.585*4pi (7.346) --> 0 handles ICI = 1.5, FI = 8.4, variation=148.121 105 vertices thresholded to be in [-0.03 0.02] writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 106 vertices thresholded to be in [-0.22 0.20] done. writing mean curvature to ./lh.inflated.H...curvature mean = -0.017, std = 0.022 done. @#@FSTIME 2023:08:15:22:11:27 mris_curvature N 12 e 40.05 S 0.14 U 39.89 P 99% M 348528 F 0 R 90605 W 0 c 292 w 0 I 0 O 2016 L 1.14 1.18 1.17 @#@FSLOADPOST 2023:08:15:22:12:07 mris_curvature N 12 1.16 1.19 1.17 #-------------------------------------------- #@# Curv .H and .K rh Tue 15 Aug 22:12:07 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature -w -seed 1234 rh.white.preaparc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 total integrated curvature = 4.586*4pi (57.625) --> -4 handles ICI = 149.9, FI = 1433.6, variation=23059.026 writing Gaussian curvature to ./rh.white.preaparc.K...done. writing mean curvature to ./rh.white.preaparc.H...done. @#@FSTIME 2023:08:15:22:12:07 mris_curvature N 4 e 1.37 S 0.07 U 1.29 P 99% M 144172 F 0 R 39253 W 0 c 27 w 1 I 0 O 1968 L 1.16 1.19 1.17 @#@FSLOADPOST 2023:08:15:22:12:08 mris_curvature N 4 1.16 1.19 1.17 rm -f rh.white.H ln -s rh.white.preaparc.H rh.white.H rm -f rh.white.K ln -s rh.white.preaparc.K rh.white.K mris_curvature -seed 1234 -thresh .999 -n -a 5 -w -distances 10 10 rh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 190 vertices thresholded to be in k1 ~ [-0.20 0.96], k2 ~ [-0.11 0.08] total integrated curvature = 0.547*4pi (6.879) --> 0 handles ICI = 1.5, FI = 8.2, variation=145.548 90 vertices thresholded to be in [-0.01 0.01] writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 101 vertices thresholded to be in [-0.12 0.30] done. writing mean curvature to ./rh.inflated.H...curvature mean = -0.017, std = 0.022 done. @#@FSTIME 2023:08:15:22:12:08 mris_curvature N 12 e 39.22 S 0.17 U 39.05 P 99% M 340000 F 0 R 88356 W 0 c 339 w 0 I 0 O 1968 L 1.16 1.19 1.17 @#@FSLOADPOST 2023:08:15:22:12:47 mris_curvature N 12 1.13 1.18 1.17 #-------------------------------------------- #@# Sphere lh Tue 15 Aug 22:12:47 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_sphere -seed 1234 ../surf/lh.inflated ../surf/lh.sphere /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 version: 7.3.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.313... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 1234 singular matrix in quadratic form -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %19.78 pass 1: epoch 2 of 3 starting distance error %19.75 unfolding complete - removing small folds... starting distance error %19.71 removing remaining folds... final distance error %19.71 MRISunfold() return, current seed 1234 -01: dt=0.0000, 203 negative triangles VmPeak 523688 107: dt=0.9900, 203 negative triangles 108: dt=0.9900, 107 negative triangles 109: dt=0.9900, 78 negative triangles 110: dt=0.9900, 75 negative triangles 111: dt=0.9900, 80 negative triangles 112: dt=0.9900, 69 negative triangles 113: dt=0.9900, 74 negative triangles 114: dt=0.9900, 72 negative triangles 115: dt=0.9900, 70 negative triangles 116: dt=0.9900, 68 negative triangles 117: dt=0.9900, 62 negative triangles 118: dt=0.9900, 65 negative triangles 119: dt=0.9900, 57 negative triangles 120: dt=0.9900, 61 negative triangles 121: dt=0.9900, 60 negative triangles 122: dt=0.9900, 55 negative triangles 123: dt=0.9900, 58 negative triangles 124: dt=0.9900, 52 negative triangles 125: dt=0.9900, 47 negative triangles 126: dt=0.9900, 46 negative triangles 127: dt=0.9900, 45 negative triangles 128: dt=0.9900, 43 negative triangles 129: dt=0.9900, 40 negative triangles 130: dt=0.9900, 44 negative triangles 131: dt=0.9900, 39 negative triangles 132: dt=0.9900, 40 negative triangles 133: dt=0.9900, 38 negative triangles 134: dt=0.9900, 39 negative triangles 135: dt=0.9900, 35 negative triangles 136: dt=0.9900, 34 negative triangles 137: dt=0.9900, 35 negative triangles 138: dt=0.9900, 35 negative triangles 139: dt=0.9900, 36 negative triangles 140: dt=0.9900, 34 negative triangles 141: dt=0.9900, 34 negative triangles 142: dt=0.9900, 31 negative triangles 143: dt=0.9900, 30 negative triangles 144: dt=0.9900, 25 negative triangles 145: dt=0.9900, 28 negative triangles 146: dt=0.9900, 26 negative triangles 147: dt=0.9900, 31 negative triangles 148: dt=0.9900, 20 negative triangles 149: dt=0.9900, 20 negative triangles 150: dt=0.9900, 20 negative triangles 151: dt=0.9900, 18 negative triangles 152: dt=0.9900, 17 negative triangles 153: dt=0.9900, 12 negative triangles 154: dt=0.9900, 11 negative triangles 155: dt=0.9900, 10 negative triangles 156: dt=0.9900, 14 negative triangles 157: dt=0.9900, 11 negative triangles 158: dt=0.9900, 11 negative triangles 159: dt=0.9900, 13 negative triangles 160: dt=0.9900, 11 negative triangles 161: dt=0.9900, 10 negative triangles 162: dt=0.9900, 12 negative triangles 163: dt=0.9900, 8 negative triangles 164: dt=0.9900, 9 negative triangles 165: dt=0.9900, 12 negative triangles 166: dt=0.9900, 9 negative triangles 167: dt=0.9900, 10 negative triangles 168: dt=0.9900, 4 negative triangles 169: dt=0.9900, 9 negative triangles 170: dt=0.9900, 5 negative triangles 171: dt=0.9900, 6 negative triangles 172: dt=0.9900, 6 negative triangles 173: dt=0.9900, 4 negative triangles 174: dt=0.9900, 4 negative triangles 175: dt=0.9900, 3 negative triangles 176: dt=0.9900, 3 negative triangles 177: dt=0.9900, 3 negative triangles writing spherical brain to ../surf/lh.sphere spherical transformation took 0.1160 hours FSRUNTIME@ mris_sphere 0.1160 hours 1 threads #VMPC# mris_sphere VmPeak 523688 mris_sphere done @#@FSTIME 2023:08:15:22:12:47 mris_sphere N 4 e 417.55 S 13.21 U 404.26 P 99% M 264636 F 0 R 8710075 W 0 c 3328 w 5 I 8 O 9048 L 1.13 1.18 1.17 @#@FSLOADPOST 2023:08:15:22:19:45 mris_sphere N 4 1.09 1.10 1.12 #-------------------------------------------- #@# Sphere rh Tue 15 Aug 22:19:45 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_sphere -seed 1234 ../surf/rh.inflated ../surf/rh.sphere /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 version: 7.3.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.315... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 1234 singular matrix in quadratic form -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %20.86 pass 1: epoch 2 of 3 starting distance error %20.83 unfolding complete - removing small folds... starting distance error %20.75 removing remaining folds... final distance error %20.79 MRISunfold() return, current seed 1234 -01: dt=0.0000, 58 negative triangles VmPeak 517284 184: dt=0.9900, 58 negative triangles 185: dt=0.9900, 38 negative triangles 186: dt=0.9900, 23 negative triangles 187: dt=0.9900, 22 negative triangles 188: dt=0.9900, 29 negative triangles 189: dt=0.9900, 20 negative triangles 190: dt=0.9900, 19 negative triangles 191: dt=0.9900, 18 negative triangles 192: dt=0.9900, 14 negative triangles 193: dt=0.9900, 13 negative triangles 194: dt=0.9900, 18 negative triangles 195: dt=0.9900, 13 negative triangles 196: dt=0.9900, 12 negative triangles 197: dt=0.9900, 15 negative triangles 198: dt=0.9900, 11 negative triangles 199: dt=0.9900, 11 negative triangles 200: dt=0.9900, 15 negative triangles 201: dt=0.9900, 11 negative triangles 202: dt=0.9900, 11 negative triangles 203: dt=0.9900, 15 negative triangles 204: dt=0.9900, 10 negative triangles 205: dt=0.9900, 12 negative triangles 206: dt=0.9900, 10 negative triangles 207: dt=0.9900, 16 negative triangles 208: dt=0.9900, 10 negative triangles 209: dt=0.9900, 8 negative triangles 210: dt=0.9900, 6 negative triangles 211: dt=0.9900, 5 negative triangles 212: dt=0.9900, 5 negative triangles 213: dt=0.9900, 6 negative triangles 214: dt=0.9900, 7 negative triangles 215: dt=0.9900, 4 negative triangles 216: dt=0.9900, 1 negative triangles 217: dt=0.9900, 2 negative triangles 218: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 0.1453 hours FSRUNTIME@ mris_sphere 0.1453 hours 1 threads #VMPC# mris_sphere VmPeak 517284 mris_sphere done @#@FSTIME 2023:08:15:22:19:45 mris_sphere N 4 e 523.08 S 20.38 U 502.63 P 99% M 258396 F 0 R 13253252 W 0 c 2814 w 5 I 0 O 8824 L 1.09 1.10 1.12 @#@FSLOADPOST 2023:08:15:22:28:28 mris_sphere N 4 1.02 1.04 1.08 #-------------------------------------------- #@# Surf Reg lh Tue 15 Aug 22:28:28 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_register -curv ../surf/lh.sphere /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) using smoothwm curvature for final alignment cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts cmdline mris_register -curv ../surf/lh.sphere /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.3.1 7.3.1 reading surface from ../surf/lh.sphere... reading template parameterization from /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height -1.000000 momentum 0.950000 nbhd_size -10 max_nbrs 10 niterations 25 nsurfaces 0 SURFACES 3 flags 16 (10) use curv 16 no sulc 0 no rigid align 0 mris->nsize 1 mris->hemisphere 0 randomSeed 0 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization -------------------- 1 Reading lh.sulc tol=1.0e+00, sigma=0.5, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000 using quadratic fit line minimization curvature mean = -0.000, std = 5.458 curvature mean = 0.035, std = 0.822 curvature mean = 0.017, std = 0.868 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (8.50, 0.50, -9.00) sse = 162899.9, elapsed since starting=0.3317 min MRISrigidBodyAlignGlobal() done 0.33 min curvature mean = 0.007, std = 0.846 curvature mean = 0.008, std = 0.952 curvature mean = 0.005, std = 0.857 curvature mean = 0.003, std = 0.981 curvature mean = 0.004, std = 0.860 curvature mean = 0.001, std = 0.993 2 Reading smoothwm curvature mean = -0.022, std = 0.266 curvature mean = 0.039, std = 0.251 curvature mean = 0.071, std = 0.359 curvature mean = 0.035, std = 0.309 curvature mean = 0.034, std = 0.564 curvature mean = 0.033, std = 0.337 curvature mean = 0.017, std = 0.707 curvature mean = 0.033, std = 0.350 curvature mean = 0.005, std = 0.816 MRISregister() return, current seed 0 writing registered surface to ../surf/lh.sphere.reg... -01: dt=0.0000, 0 negative triangles VmPeak 509200 registration took 0.09 hours #VMPC# mris_register VmPeak 509200 FSRUNTIME@ mris_register 0.0947 hours 1 threads @#@FSTIME 2023:08:15:22:28:28 mris_register N 4 e 340.85 S 9.07 U 331.74 P 99% M 250648 F 0 R 5959218 W 0 c 1630 w 3 I 0 O 9048 L 1.02 1.04 1.08 @#@FSLOADPOST 2023:08:15:22:34:09 mris_register N 4 1.00 1.01 1.05 ln -sf lh.sphere.reg lh.fsaverage.sphere.reg #-------------------------------------------- #@# Surf Reg rh Tue 15 Aug 22:34:09 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_register -curv ../surf/rh.sphere /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) using smoothwm curvature for final alignment cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts cmdline mris_register -curv ../surf/rh.sphere /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.3.1 7.3.1 reading surface from ../surf/rh.sphere... reading template parameterization from /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height -1.000000 momentum 0.950000 nbhd_size -10 max_nbrs 10 niterations 25 nsurfaces 0 SURFACES 3 flags 16 (10) use curv 16 no sulc 0 no rigid align 0 mris->nsize 1 mris->hemisphere 1 randomSeed 0 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization -------------------- 1 Reading rh.sulc tol=1.0e+00, sigma=0.5, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000 using quadratic fit line minimization curvature mean = 0.000, std = 5.399 curvature mean = 0.024, std = 0.806 curvature mean = 0.012, std = 0.868 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (12.00, -2.50, -3.50) sse = 187732.1, elapsed since starting=0.3334 min MRISrigidBodyAlignGlobal() done 0.33 min curvature mean = 0.008, std = 0.822 curvature mean = 0.006, std = 0.950 curvature mean = 0.005, std = 0.833 curvature mean = 0.002, std = 0.980 curvature mean = 0.003, std = 0.836 curvature mean = 0.000, std = 0.992 2 Reading smoothwm curvature mean = -0.022, std = 0.275 curvature mean = 0.034, std = 0.241 curvature mean = 0.060, std = 0.361 curvature mean = 0.032, std = 0.301 curvature mean = 0.035, std = 0.550 curvature mean = 0.031, std = 0.329 curvature mean = 0.018, std = 0.688 curvature mean = 0.030, std = 0.342 curvature mean = 0.005, std = 0.796 MRISregister() return, current seed 0 -01: dt=0.0000, 47 negative triangles VmPeak 504432 112: dt=0.9900, 47 negative triangles expanding nbhd size to 1 113: dt=0.9900, 47 negative triangles 114: dt=0.9900, 37 negative triangles 115: dt=0.9900, 30 negative triangles 116: dt=0.9900, 28 negative triangles 117: dt=0.9900, 26 negative triangles 118: dt=0.9900, 26 negative triangles 119: dt=0.9900, 25 negative triangles 120: dt=0.9900, 25 negative triangles 121: dt=0.9900, 23 negative triangles 122: dt=0.9900, 19 negative triangles 123: dt=0.9900, 18 negative triangles 124: dt=0.9900, 18 negative triangles 125: dt=0.9900, 14 negative triangles 126: dt=0.9900, 12 negative triangles 127: dt=0.9900, 13 negative triangles 128: dt=0.9900, 12 negative triangles 129: dt=0.9900, 12 negative triangles 130: dt=0.9900, 10 negative triangles 131: dt=0.9900, 10 negative triangles 132: dt=0.9900, 10 negative triangles 133: dt=0.9900, 9 negative triangles 134: dt=0.9900, 9 negative triangles 135: dt=0.9900, 9 negative triangles 136: dt=0.9900, 9 negative triangles 137: dt=0.9900, 9 negative triangles 138: dt=0.9900, 9 negative triangles 139: dt=0.9900, 9 negative triangles 140: dt=0.9900, 9 negative triangles 141: dt=0.9900, 9 negative triangles 142: dt=0.9900, 9 negative triangles 143: dt=0.9405, 9 negative triangles 144: dt=0.9405, 9 negative triangles 145: dt=0.9405, 9 negative triangles 146: dt=0.9405, 8 negative triangles 147: dt=0.9405, 8 negative triangles 148: dt=0.9405, 8 negative triangles 149: dt=0.9405, 7 negative triangles 150: dt=0.9405, 7 negative triangles 151: dt=0.9405, 7 negative triangles 152: dt=0.9405, 6 negative triangles 153: dt=0.9405, 6 negative triangles 154: dt=0.9405, 6 negative triangles 155: dt=0.9405, 6 negative triangles 156: dt=0.9405, 5 negative triangles 157: dt=0.9405, 5 negative triangles 158: dt=0.9405, 5 negative triangles 159: dt=0.9405, 4 negative triangles 160: dt=0.9405, 4 negative triangles 161: dt=0.9405, 4 negative triangles 162: dt=0.9405, 4 negative triangles 163: dt=0.9405, 4 negative triangles 164: dt=0.9405, 3 negative triangles 165: dt=0.9405, 3 negative triangles 166: dt=0.9405, 3 negative triangles 167: dt=0.9405, 3 negative triangles 168: dt=0.9405, 3 negative triangles 169: dt=0.9405, 3 negative triangles 170: dt=0.9405, 2 negative triangles 171: dt=0.9405, 1 negative triangles 172: dt=0.9405, 1 negative triangles writing registered surface to ../surf/rh.sphere.reg... registration took 0.11 hours #VMPC# mris_register VmPeak 504432 FSRUNTIME@ mris_register 0.1086 hours 1 threads @#@FSTIME 2023:08:15:22:34:09 mris_register N 4 e 390.94 S 12.09 U 378.79 P 99% M 245960 F 0 R 8017838 W 0 c 2141 w 3 I 0 O 8824 L 1.00 1.01 1.05 @#@FSLOADPOST 2023:08:15:22:40:40 mris_register N 4 1.14 1.06 1.05 ln -sf rh.sphere.reg rh.fsaverage.sphere.reg #-------------------------------------------- #@# Jacobian white lh Tue 15 Aug 22:40:40 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading surface from ../surf/lh.white.preaparc... writing curvature file ../surf/lh.jacobian_white @#@FSTIME 2023:08:15:22:40:40 mris_jacobian N 3 e 1.03 S 0.08 U 0.95 P 100% M 197588 F 0 R 59530 W 0 c 5 w 1 I 0 O 1008 L 1.14 1.06 1.05 @#@FSLOADPOST 2023:08:15:22:40:41 mris_jacobian N 3 1.21 1.08 1.06 #-------------------------------------------- #@# Jacobian white rh Tue 15 Aug 22:40:41 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading surface from ../surf/rh.white.preaparc... writing curvature file ../surf/rh.jacobian_white @#@FSTIME 2023:08:15:22:40:41 mris_jacobian N 3 e 0.99 S 0.10 U 0.89 P 99% M 192556 F 0 R 58048 W 0 c 7 w 1 I 0 O 984 L 1.21 1.08 1.06 @#@FSLOADPOST 2023:08:15:22:40:42 mris_jacobian N 3 1.21 1.08 1.06 #-------------------------------------------- #@# AvgCurv lh Tue 15 Aug 22:40:42 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mrisp_paint -a 5 /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) averaging curvature patterns 5 times... reading surface from ../surf/lh.sphere.reg... reading template parameterization from /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/lh.avg_curv... @#@FSTIME 2023:08:15:22:40:42 mrisp_paint N 5 e 0.81 S 0.05 U 0.75 P 99% M 152452 F 0 R 41514 W 0 c 10 w 1 I 0 O 1008 L 1.21 1.08 1.06 @#@FSLOADPOST 2023:08:15:22:40:43 mrisp_paint N 5 1.21 1.08 1.06 #-------------------------------------------- #@# AvgCurv rh Tue 15 Aug 22:40:43 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mrisp_paint -a 5 /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) averaging curvature patterns 5 times... reading surface from ../surf/rh.sphere.reg... reading template parameterization from /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/rh.avg_curv... @#@FSTIME 2023:08:15:22:40:43 mrisp_paint N 5 e 0.74 S 0.07 U 0.67 P 100% M 148964 F 0 R 40511 W 0 c 2 w 1 I 0 O 984 L 1.21 1.08 1.06 @#@FSLOADPOST 2023:08:15:22:40:44 mrisp_paint N 5 1.21 1.08 1.06 #----------------------------------------- #@# Cortical Parc lh Tue 15 Aug 22:40:44 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL lh ../surf/lh.sphere.reg /home/rosalia/software/freesurfer/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.8 using min determinant for regularization = 0.006 0 singular and 342 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1430 labels changed using aseg relabeling using gibbs priors... 000: 2996 changed, 128566 examined... 001: 685 changed, 12497 examined... 002: 185 changed, 3797 examined... 003: 52 changed, 1142 examined... 004: 23 changed, 345 examined... 005: 10 changed, 148 examined... 006: 4 changed, 54 examined... 007: 3 changed, 23 examined... 008: 0 changed, 15 examined... 294 labels changed using aseg 000: 122 total segments, 82 labels (293 vertices) changed 001: 41 total segments, 2 labels (3 vertices) changed 002: 39 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 3 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1686 vertices marked for relabeling... 1686 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 9 seconds. @#@FSTIME 2023:08:15:22:40:44 mris_ca_label N 11 e 9.08 S 0.68 U 8.40 P 99% M 1211380 F 0 R 418485 W 0 c 50 w 1 I 0 O 2016 L 1.21 1.08 1.06 @#@FSLOADPOST 2023:08:15:22:40:53 mris_ca_label N 11 1.40 1.13 1.07 #----------------------------------------- #@# Cortical Parc rh Tue 15 Aug 22:40:53 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL rh ../surf/rh.sphere.reg /home/rosalia/software/freesurfer/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.7 using min determinant for regularization = 0.004 0 singular and 309 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1383 labels changed using aseg relabeling using gibbs priors... 000: 2675 changed, 125360 examined... 001: 585 changed, 11611 examined... 002: 123 changed, 3312 examined... 003: 39 changed, 749 examined... 004: 12 changed, 245 examined... 005: 3 changed, 71 examined... 006: 2 changed, 19 examined... 007: 0 changed, 15 examined... 231 labels changed using aseg 000: 100 total segments, 57 labels (196 vertices) changed 001: 46 total segments, 6 labels (16 vertices) changed 002: 40 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 1 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1621 vertices marked for relabeling... 1621 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 9 seconds. @#@FSTIME 2023:08:15:22:40:53 mris_ca_label N 11 e 8.59 S 0.56 U 8.02 P 99% M 1095220 F 0 R 390464 W 0 c 38 w 1 I 0 O 1968 L 1.40 1.13 1.07 @#@FSLOADPOST 2023:08:15:22:41:01 mris_ca_label N 11 1.34 1.12 1.07 #-------------------------------------------- #@# WhiteSurfs lh Tue 15 Aug 22:41:01 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white.preaparc --o ../surf/lh.white --white --nsmooth 0 --rip-label ../label/lh.cortex.label --rip-bg --rip-surf ../surf/lh.white.preaparc --aparc ../label/lh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white.preaparc --o ../surf/lh.white --white --nsmooth 0 --rip-label ../label/lh.cortex.label --rip-bg --rip-surf ../surf/lh.white.preaparc --aparc ../label/lh.aparc.annot Reading in input surface ../surf/lh.white.preaparc Not smoothing input surface Area 257128 0.34032 0.13148 0.000464 1.7070 Corner 771384 60.00000 15.68085 0.522054 177.4071 Edge 385692 0.90018 0.21742 0.007876 3.1990 Hinge 385692 11.18123 12.98158 0.000016 179.9673 Reading in aparc ../label/lh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 MRIfindBrightNonWM(): 8146 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex.label MRISripNotLabel() ripped 10011/128566 vertices (118555 unripped) Reading in ripping surface ../surf/lh.white.preaparc Reading in aparc ../label/lh.aparc.annot for ripsurf Ripping BG MRISripBasalGanglia(): 1 -2 2 0.5 ripped 500 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 64283: xyz = (-41.7201,-8.80207,35.746) oxyz = (-41.7201,-8.80207,35.746) wxzy = (-41.7201,-8.80207,35.746) pxyz = (0,0,0) CBVO Creating mask 128566 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=2 had to be increased for 157 vertices, nripped=10511 mean border=77.9, 403 (403) missing vertices, mean dist 0.3 [1.9 (%16.1)->0.7 (%83.9))] %19 local maxima, %72 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1358 min Finding expansion regions mean absolute distance = 0.86 +- 1.18 4587 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=1803980.6, rms=8.279 001: dt: 0.5000, sse=801377.7, rms=5.127 (38.069%) 002: dt: 0.5000, sse=523908.4, rms=3.810 (25.687%) 003: dt: 0.5000, sse=474559.8, rms=3.530 (7.361%) 004: dt: 0.5000, sse=437097.4, rms=3.282 (7.013%) rms = 3.3894/3.2822, sse=453488.4/437097.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 005: dt: 0.2500, sse=303950.7, rms=2.256 (31.258%) 006: dt: 0.2500, sse=259279.7, rms=1.776 (21.294%) 007: dt: 0.2500, sse=250411.9, rms=1.655 (6.822%) 008: dt: 0.2500, sse=246365.2, rms=1.599 (3.385%) rms = 1.5695/1.5986, sse=244421.3/246365.2, time step reduction 2 of 3 to 0.125 0 0 1 009: dt: 0.2500, sse=244421.3, rms=1.570 (1.821%) 010: dt: 0.1250, sse=235161.4, rms=1.437 (8.464%) rms = 1.4061/1.4367, sse=233346.6/235161.4, time step reduction 3 of 3 to 0.062 0 0 1 011: dt: 0.1250, sse=233346.6, rms=1.406 (2.131%) maximum number of reductions reached, breaking from loop positioning took 1.0 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=1 had to be increased for 137 vertices, nripped=10511 mean border=80.1, 312 (234) missing vertices, mean dist -0.3 [0.6 (%58.5)->0.3 (%41.5))] %33 local maxima, %58 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1029 min Finding expansion regions mean absolute distance = 0.46 +- 0.87 4423 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=569649.2, rms=3.962 012: dt: 0.5000, sse=404742.1, rms=2.941 (25.758%) rms = 2.9538/2.9414, sse=404363.4/404742.1, time step reduction 1 of 3 to 0.250 0 0 1 RMS increased, rejecting step 013: dt: 0.2500, sse=320062.1, rms=2.254 (23.356%) 014: dt: 0.2500, sse=271369.2, rms=1.734 (23.097%) 015: dt: 0.2500, sse=254266.8, rms=1.508 (13.011%) 016: dt: 0.2500, sse=248200.5, rms=1.411 (6.446%) rms = 1.3659/1.4109, sse=245575.2/248200.5, time step reduction 2 of 3 to 0.125 0 0 1 017: dt: 0.2500, sse=245575.2, rms=1.366 (3.190%) 018: dt: 0.1250, sse=235077.4, rms=1.199 (12.240%) rms = 1.1594/1.1987, sse=232981.3/235077.4, time step reduction 3 of 3 to 0.062 0 0 1 019: dt: 0.1250, sse=232981.3, rms=1.159 (3.275%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 167 vertices, nripped=10511 mean border=83.1, 297 (200) missing vertices, mean dist -0.2 [0.4 (%69.1)->0.2 (%30.9))] %57 local maxima, %34 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0604 min Finding expansion regions mean absolute distance = 0.36 +- 0.53 3630 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=614930.7, rms=4.215 020: dt: 0.5000, sse=396858.7, rms=2.881 (31.638%) rms = 2.9453/2.8813, sse=405272.2/396858.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 021: dt: 0.2500, sse=295249.0, rms=2.007 (30.342%) 022: dt: 0.2500, sse=251600.9, rms=1.463 (27.096%) 023: dt: 0.2500, sse=245829.8, rms=1.353 (7.545%) 024: dt: 0.2500, sse=240216.2, rms=1.266 (6.451%) rms = 1.3185/1.2656, sse=243863.7/240216.2, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step 025: dt: 0.1250, sse=235663.4, rms=1.187 (6.205%) 026: dt: 0.1250, sse=230388.8, rms=1.081 (8.936%) rms = 1.0513/1.0810, sse=228994.3/230388.8, time step reduction 3 of 3 to 0.062 0 0 1 027: dt: 0.1250, sse=228994.3, rms=1.051 (2.744%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 228 vertices, nripped=10511 mean border=84.5, 317 (177) missing vertices, mean dist -0.1 [0.3 (%59.9)->0.2 (%40.1))] %69 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0395 min Finding expansion regions mean absolute distance = 0.27 +- 0.40 2842 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=304470.0, rms=2.129 rms = 2.3518/2.1294, sse=345429.0/304470.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=244323.1, rms=1.388 (34.825%) 029: dt: 0.2500, sse=229633.7, rms=1.028 (25.963%) rms = 1.1089/1.0275, sse=235595.8/229633.7, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step 030: dt: 0.1250, sse=225664.5, rms=0.944 (8.154%) 031: dt: 0.1250, sse=222580.0, rms=0.831 (11.992%) rms = 0.8176/0.8306, sse=222761.0/222580.0, time step reduction 3 of 3 to 0.062 0 1 1 032: dt: 0.1250, sse=222761.0, rms=0.818 (1.562%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Writing output to ../surf/lh.white #ET# mris_place_surface 3.34 minutes #VMPC# mris_place_surfaces VmPeak 2071104 mris_place_surface done @#@FSTIME 2023:08:15:22:41:01 mris_place_surface N 25 e 208.12 S 0.71 U 207.36 P 99% M 1812672 F 0 R 491120 W 0 c 1224 w 5 I 0 O 9048 L 1.34 1.12 1.07 @#@FSLOADPOST 2023:08:15:22:44:30 mris_place_surface N 25 1.14 1.13 1.09 #-------------------------------------------- #@# WhiteSurfs rh Tue 15 Aug 22:44:30 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white.preaparc --o ../surf/rh.white --white --nsmooth 0 --rip-label ../label/rh.cortex.label --rip-bg --rip-surf ../surf/rh.white.preaparc --aparc ../label/rh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white.preaparc --o ../surf/rh.white --white --nsmooth 0 --rip-label ../label/rh.cortex.label --rip-bg --rip-surf ../surf/rh.white.preaparc --aparc ../label/rh.aparc.annot Reading in input surface ../surf/rh.white.preaparc Not smoothing input surface Area 250716 0.34728 0.14759 0.000136 3.0446 Corner 752148 60.00000 16.52923 0.395834 178.6848 Edge 376074 0.91105 0.23934 0.020933 4.5417 Hinge 376074 11.50467 13.97427 0.000036 179.9357 Reading in aparc ../label/rh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 MRIfindBrightNonWM(): 8146 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex.label MRISripNotLabel() ripped 9221/125360 vertices (116139 unripped) Reading in ripping surface ../surf/rh.white.preaparc Reading in aparc ../label/rh.aparc.annot for ripsurf Ripping BG MRISripBasalGanglia(): 1 -2 2 0.5 ripped 634 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 62680: xyz = (59.4132,-1.47822,4.49754) oxyz = (59.4132,-1.47822,4.49754) wxzy = (59.4132,-1.47822,4.49754) pxyz = (0,0,0) CBVO Creating mask 125360 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=2 had to be increased for 420 vertices, nripped=9855 mean border=76.9, 751 (751) missing vertices, mean dist 0.2 [1.9 (%15.9)->0.6 (%84.1))] %20 local maxima, %71 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1366 min Finding expansion regions mean absolute distance = 0.85 +- 1.19 4342 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=1938646.0, rms=8.681 001: dt: 0.5000, sse=930972.8, rms=5.629 (35.156%) 002: dt: 0.5000, sse=673335.5, rms=4.467 (20.651%) 003: dt: 0.5000, sse=624557.2, rms=4.273 (4.328%) 004: dt: 0.5000, sse=575669.2, rms=4.008 (6.212%) rms = 4.1268/4.0078, sse=592090.2/575669.2, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 005: dt: 0.2500, sse=431109.4, rms=3.155 (21.281%) 006: dt: 0.2500, sse=390692.9, rms=2.809 (10.951%) 007: dt: 0.2500, sse=376068.4, rms=2.738 (2.543%) 008: dt: 0.2500, sse=367596.2, rms=2.645 (3.409%) rms = 2.6306/2.6446, sse=367516.0/367596.2, time step reduction 2 of 3 to 0.125 0 0 1 009: dt: 0.2500, sse=367516.0, rms=2.631 (0.527%) 010: dt: 0.1250, sse=353507.6, rms=2.530 (3.834%) rms = 2.5104/2.5298, sse=349169.8/353507.6, time step reduction 3 of 3 to 0.062 0 0 1 011: dt: 0.1250, sse=349169.8, rms=2.510 (0.765%) maximum number of reductions reached, breaking from loop positioning took 1.0 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=1 had to be increased for 270 vertices, nripped=9855 mean border=79.2, 637 (414) missing vertices, mean dist -0.3 [0.6 (%59.7)->0.3 (%40.3))] %34 local maxima, %57 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1033 min Finding expansion regions mean absolute distance = 0.45 +- 0.87 4340 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=699039.7, rms=4.574 012: dt: 0.5000, sse=555934.9, rms=3.681 (19.508%) rms = 3.6669/3.6814, sse=531854.9/555934.9, time step reduction 1 of 3 to 0.250 0 0 1 013: dt: 0.5000, sse=531854.9, rms=3.667 (0.394%) 014: dt: 0.2500, sse=397752.2, rms=2.752 (24.945%) 015: dt: 0.2500, sse=387457.3, rms=2.548 (7.413%) rms = 2.5045/2.5481, sse=384139.7/387457.3, time step reduction 2 of 3 to 0.125 0 0 1 016: dt: 0.2500, sse=384139.7, rms=2.504 (1.715%) 017: dt: 0.1250, sse=369029.2, rms=2.336 (6.744%) rms = 2.2932/2.3355, sse=366176.8/369029.1, time step reduction 3 of 3 to 0.062 0 0 1 018: dt: 0.1250, sse=366176.8, rms=2.293 (1.814%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 283 vertices, nripped=9855 mean border=82.2, 638 (349) missing vertices, mean dist -0.2 [0.4 (%69.1)->0.2 (%30.9))] %58 local maxima, %34 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0593 min Finding expansion regions mean absolute distance = 0.35 +- 0.53 3272 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=725887.4, rms=4.594 019: dt: 0.5000, sse=540744.8, rms=3.559 (22.526%) rms = 3.6755/3.5595, sse=549563.8/540744.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 020: dt: 0.2500, sse=422363.5, rms=2.806 (21.168%) 021: dt: 0.2500, sse=400246.8, rms=2.466 (12.115%) 022: dt: 0.2500, sse=369691.7, rms=2.392 (3.014%) rms = 2.3792/2.3918, sse=363995.1/369691.7, time step reduction 2 of 3 to 0.125 0 0 1 023: dt: 0.2500, sse=363995.1, rms=2.379 (0.523%) 024: dt: 0.1250, sse=347354.0, rms=2.233 (6.158%) rms = 2.1930/2.2327, sse=348914.8/347354.0, time step reduction 3 of 3 to 0.062 0 1 1 025: dt: 0.1250, sse=348914.8, rms=2.193 (1.780%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 314 vertices, nripped=9855 mean border=83.5, 713 (328) missing vertices, mean dist -0.1 [0.3 (%59.5)->0.2 (%40.5))] %69 local maxima, %22 large gradients and % 1 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0390 min Finding expansion regions mean absolute distance = 0.27 +- 0.41 2745 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=419514.1, rms=2.846 rms = 3.1998/2.8456, sse=472345.9/419514.1, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 026: dt: 0.2500, sse=347487.6, rms=2.303 (19.064%) rms = 2.1523/2.3031, sse=350157.6/347487.6, time step reduction 2 of 3 to 0.125 0 1 0 027: dt: 0.2500, sse=350157.6, rms=2.152 (6.546%) 028: dt: 0.1250, sse=323323.7, rms=2.041 (5.184%) rms = 2.0051/2.0408, sse=318117.0/323323.7, time step reduction 3 of 3 to 0.062 0 0 1 029: dt: 0.1250, sse=318117.0, rms=2.005 (1.746%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/rh.white #ET# mris_place_surface 2.90 minutes #VMPC# mris_place_surfaces VmPeak 1954536 mris_place_surface done @#@FSTIME 2023:08:15:22:44:30 mris_place_surface N 25 e 181.39 S 0.62 U 180.73 P 99% M 1696144 F 0 R 460941 W 0 c 863 w 5 I 0 O 8824 L 1.14 1.13 1.09 @#@FSLOADPOST 2023:08:15:22:47:31 mris_place_surface N 25 1.08 1.12 1.09 #-------------------------------------------- #@# T1PialSurf lh Tue 15 Aug 22:47:31 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white --o ../surf/lh.pial.T1 --pial --nsmooth 0 --rip-label ../label/lh.cortex+hipamyg.label --pin-medial-wall ../label/lh.cortex.label --aparc ../label/lh.aparc.annot --repulse-surf ../surf/lh.white --white-surf ../surf/lh.white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white --o ../surf/lh.pial.T1 --pial --nsmooth 0 --rip-label ../label/lh.cortex+hipamyg.label --pin-medial-wall ../label/lh.cortex.label --aparc ../label/lh.aparc.annot --repulse-surf ../surf/lh.white --white-surf ../surf/lh.white Reading in input surface ../surf/lh.white Not smoothing input surface Area 257128 0.34290 0.14545 0.000070 2.0007 Corner 771384 60.00000 17.08069 0.051459 178.9435 Edge 385692 0.90525 0.23646 0.010834 3.5824 Hinge 385692 11.37573 13.45148 0.000005 179.9892 Reading white surface coordinates from ../surf/lh.white Reading repulsion surface coordinates from ../surf/lh.white Reading in aparc ../label/lh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 MRIfindBrightNonWM(): 8146 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 58.0274 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex+hipamyg.label MRISripNotLabel() ripped 8435/128566 vertices (120131 unripped) INFO: rip surface needed but not specified, so using input surface Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 64283: xyz = (-41.7578,-8.76063,35.8089) oxyz = (-41.7578,-8.76063,35.8089) wxzy = (-41.7578,-8.76063,35.8089) pxyz = (-41.7578,-8.76063,35.8089) CBVO Creating mask 128566 n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 89.9260560; border_hi = 51.3762550; border_low = 26.1287610; outside_low = 10.0000000; outside_hi = 45.0643840; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=2 had to be increased for 265 vertices, nripped=8435 mean border=46.5, 464 (464) missing vertices, mean dist 1.7 [0.0 (%0.0)->2.1 (%100.0))] %20 local maxima, %55 large gradients and %18 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1144 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=35940628.0, rms=38.651 001: dt: 0.5000, sse=26757996.0, rms=33.320 (13.793%) 002: dt: 0.5000, sse=19523520.0, rms=28.423 (14.695%) 003: dt: 0.5000, sse=14174134.0, rms=24.172 (14.956%) 004: dt: 0.5000, sse=10489628.0, rms=20.743 (14.188%) 005: dt: 0.5000, sse=8088119.5, rms=18.162 (12.441%) 006: dt: 0.5000, sse=6096979.5, rms=15.704 (13.536%) 007: dt: 0.5000, sse=4549575.0, rms=13.486 (14.120%) 008: dt: 0.5000, sse=3277323.8, rms=11.341 (15.904%) 009: dt: 0.5000, sse=2475025.2, rms=9.749 (14.045%) 010: dt: 0.5000, sse=1902530.0, rms=8.428 (13.543%) 011: dt: 0.5000, sse=1662735.2, rms=7.808 (7.360%) 012: dt: 0.5000, sse=1469794.1, rms=7.269 (6.900%) 013: dt: 0.5000, sse=1436111.6, rms=7.169 (1.375%) 014: dt: 0.5000, sse=1344716.8, rms=6.894 (3.835%) rms = 6.9384/6.8943, sse=1359943.9/1344716.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 015: dt: 0.2500, sse=885230.4, rms=5.309 (22.993%) 016: dt: 0.2500, sse=780163.1, rms=4.873 (8.220%) 017: dt: 0.2500, sse=767400.2, rms=4.816 (1.174%) rms = 4.7767/4.8155, sse=758714.0/767400.2, time step reduction 2 of 3 to 0.125 0 0 1 018: dt: 0.2500, sse=758714.1, rms=4.777 (0.807%) 019: dt: 0.1250, sse=597146.2, rms=4.001 (16.235%) 020: dt: 0.1250, sse=567428.9, rms=3.842 (3.977%) rms = 3.7947/3.8421, sse=558927.6/567428.9, time step reduction 3 of 3 to 0.062 0 0 1 021: dt: 0.1250, sse=558927.6, rms=3.795 (1.233%) maximum number of reductions reached, breaking from loop positioning took 1.6 minutes Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 89.9260560; border_hi = 51.3762550; border_low = 26.1287610; outside_low = 10.0000000; outside_hi = 45.0643840; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=1 had to be increased for 1714 vertices, nripped=8435 mean border=44.0, 520 (111) missing vertices, mean dist 0.1 [0.1 (%55.5)->0.4 (%44.5))] %33 local maxima, %41 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0382 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=977084.8, rms=5.475 rms = 6.8306/5.4748, sse=1378566.1/977084.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 022: dt: 0.2500, sse=777053.8, rms=4.649 (15.085%) 023: dt: 0.2500, sse=733491.5, rms=4.448 (4.326%) rms = 4.4458/4.4479, sse=732561.6/733491.5, time step reduction 2 of 3 to 0.125 0 0 1 024: dt: 0.2500, sse=732561.6, rms=4.446 (0.046%) 025: dt: 0.1250, sse=639818.8, rms=3.984 (10.398%) 026: dt: 0.1250, sse=615081.8, rms=3.852 (3.314%) rms = 3.8035/3.8515, sse=606347.7/615081.8, time step reduction 3 of 3 to 0.062 0 0 1 027: dt: 0.1250, sse=606347.7, rms=3.803 (1.247%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 89.9260560; border_hi = 51.3762550; border_low = 26.1287610; outside_low = 10.0000000; outside_hi = 45.0643840; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 1906 vertices, nripped=8435 mean border=42.0, 606 (70) missing vertices, mean dist 0.1 [0.1 (%50.7)->0.3 (%49.3))] %44 local maxima, %29 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0222 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=759425.0, rms=4.550 rms = 6.4888/4.5500, sse=1274176.6/759425.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=638839.3, rms=3.956 (13.046%) rms = 3.9246/3.9564, sse=632817.8/638839.3, time step reduction 2 of 3 to 0.125 0 0 1 029: dt: 0.2500, sse=632817.8, rms=3.925 (0.805%) 030: dt: 0.1250, sse=589975.4, rms=3.689 (6.005%) 031: dt: 0.1250, sse=573931.2, rms=3.598 (2.472%) rms = 3.5689/3.5978, sse=568871.8/573931.2, time step reduction 3 of 3 to 0.062 0 0 1 032: dt: 0.1250, sse=568871.8, rms=3.569 (0.803%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Iteration 3 ========================================= n_averages=2, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 89.9260560; border_hi = 51.3762550; border_low = 26.1287610; outside_low = 10.0000000; outside_hi = 45.0643840; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 1411 vertices, nripped=8435 mean border=40.7, 1292 (58) missing vertices, mean dist 0.0 [0.1 (%55.2)->0.3 (%44.8))] %47 local maxima, %26 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0146 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=633168.2, rms=3.926 rms = 5.8764/3.9263, sse=1091990.0/633168.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 033: dt: 0.2500, sse=569146.8, rms=3.568 (9.121%) rms = 3.5865/3.5681, sse=571685.7/569146.8, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 3.5200/3.5681, sse=560971.8/569146.8, time step reduction 3 of 3 to 0.062 0 0 1 034: dt: 0.1250, sse=560971.8, rms=3.520 (1.349%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes Pinning medial wall to white surface removing intersecting faces 000: 21 intersecting 001: 3 intersecting step 1 with no progress (num=8, old_num=3) 002: 8 intersecting 003: 7 intersecting terminating search with 0 intersecting Writing output to ../surf/lh.pial.T1 #ET# mris_place_surface 3.11 minutes #VMPC# mris_place_surfaces VmPeak 1318136 mris_place_surface done @#@FSTIME 2023:08:15:22:47:31 mris_place_surface N 28 e 193.64 S 0.42 U 193.19 P 99% M 1059692 F 0 R 285866 W 0 c 877 w 5 I 0 O 9048 L 1.08 1.12 1.09 @#@FSLOADPOST 2023:08:15:22:50:45 mris_place_surface N 28 1.03 1.08 1.08 #-------------------------------------------- #@# T1PialSurf rh Tue 15 Aug 22:50:45 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white --o ../surf/rh.pial.T1 --pial --nsmooth 0 --rip-label ../label/rh.cortex+hipamyg.label --pin-medial-wall ../label/rh.cortex.label --aparc ../label/rh.aparc.annot --repulse-surf ../surf/rh.white --white-surf ../surf/rh.white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white --o ../surf/rh.pial.T1 --pial --nsmooth 0 --rip-label ../label/rh.cortex+hipamyg.label --pin-medial-wall ../label/rh.cortex.label --aparc ../label/rh.aparc.annot --repulse-surf ../surf/rh.white --white-surf ../surf/rh.white Reading in input surface ../surf/rh.white Not smoothing input surface Area 250716 0.34987 0.16217 0.000136 6.1466 Corner 752148 60.00000 17.65169 0.241103 178.7720 Edge 376074 0.91573 0.25594 0.021610 4.5862 Hinge 376074 11.62128 14.16505 0.000011 179.9960 Reading white surface coordinates from ../surf/rh.white Reading repulsion surface coordinates from ../surf/rh.white Reading in aparc ../label/rh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 MRIfindBrightNonWM(): 8146 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 58.0274 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex+hipamyg.label MRISripNotLabel() ripped 7881/125360 vertices (117479 unripped) INFO: rip surface needed but not specified, so using input surface Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 62680: xyz = (59.411,-1.52052,4.52353) oxyz = (59.411,-1.52052,4.52353) wxzy = (59.411,-1.52052,4.52353) pxyz = (59.411,-1.52052,4.52353) CBVO Creating mask 125360 n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.9260560; border_hi = 50.3762550; border_low = 25.1287610; outside_low = 10.0000000; outside_hi = 44.0643840; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=2 had to be increased for 404 vertices, nripped=7881 mean border=45.8, 748 (748) missing vertices, mean dist 1.7 [1.4 (%0.0)->2.1 (%100.0))] %18 local maxima, %58 large gradients and %17 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1142 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=34642764.0, rms=38.416 001: dt: 0.5000, sse=25471792.0, rms=32.908 (14.337%) 002: dt: 0.5000, sse=18323986.0, rms=27.870 (15.310%) 003: dt: 0.5000, sse=13101673.0, rms=23.515 (15.626%) 004: dt: 0.5000, sse=9575075.0, rms=20.045 (14.757%) 005: dt: 0.5000, sse=7336185.5, rms=17.488 (12.755%) 006: dt: 0.5000, sse=5567956.5, rms=15.167 (13.274%) 007: dt: 0.5000, sse=4204854.0, rms=13.099 (13.636%) 008: dt: 0.5000, sse=3086317.5, rms=11.116 (15.135%) 009: dt: 0.5000, sse=2375575.0, rms=9.646 (13.222%) 010: dt: 0.5000, sse=1881019.5, rms=8.473 (12.160%) 011: dt: 0.5000, sse=1668725.0, rms=7.915 (6.586%) 012: dt: 0.5000, sse=1494522.1, rms=7.426 (6.187%) 013: dt: 0.5000, sse=1454522.5, rms=7.306 (1.609%) 014: dt: 0.5000, sse=1373017.0, rms=7.060 (3.369%) rms = 7.0399/7.0601, sse=1367087.6/1373017.0, time step reduction 1 of 3 to 0.250 0 0 1 015: dt: 0.5000, sse=1367087.6, rms=7.040 (0.287%) 016: dt: 0.2500, sse=903031.4, rms=5.430 (22.865%) 017: dt: 0.2500, sse=796709.3, rms=4.991 (8.084%) rms = 4.9564/4.9913, sse=789031.0/796709.3, time step reduction 2 of 3 to 0.125 0 0 1 018: dt: 0.2500, sse=789031.0, rms=4.956 (0.698%) 019: dt: 0.1250, sse=650160.9, rms=4.309 (13.059%) 020: dt: 0.1250, sse=624869.8, rms=4.181 (2.974%) rms = 4.1427/4.1810, sse=617538.5/624869.7, time step reduction 3 of 3 to 0.062 0 0 1 021: dt: 0.1250, sse=617538.4, rms=4.143 (0.915%) maximum number of reductions reached, breaking from loop positioning took 1.5 minutes Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.9260560; border_hi = 50.3762550; border_low = 25.1287610; outside_low = 10.0000000; outside_hi = 44.0643840; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=1 had to be increased for 1848 vertices, nripped=7881 mean border=43.7, 847 (192) missing vertices, mean dist 0.1 [0.1 (%57.0)->0.4 (%43.0))] %32 local maxima, %43 large gradients and %18 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0382 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=985799.0, rms=5.555 rms = 6.6100/5.5552, sse=1287277.8/985799.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 022: dt: 0.2500, sse=809854.6, rms=4.831 (13.041%) 023: dt: 0.2500, sse=759510.3, rms=4.603 (4.724%) rms = 4.5737/4.6026, sse=752793.9/759510.3, time step reduction 2 of 3 to 0.125 0 0 1 024: dt: 0.2500, sse=752793.9, rms=4.574 (0.626%) 025: dt: 0.1250, sse=675606.3, rms=4.195 (8.274%) 026: dt: 0.1250, sse=653007.6, rms=4.079 (2.782%) rms = 4.0420/4.0786, sse=646050.2/653007.6, time step reduction 3 of 3 to 0.062 0 0 1 027: dt: 0.1250, sse=646050.2, rms=4.042 (0.896%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.9260560; border_hi = 50.3762550; border_low = 25.1287610; outside_low = 10.0000000; outside_hi = 44.0643840; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 1971 vertices, nripped=7881 mean border=41.8, 876 (103) missing vertices, mean dist 0.1 [0.1 (%51.1)->0.3 (%48.9))] %44 local maxima, %30 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0229 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=785654.6, rms=4.703 rms = 6.4253/4.7027, sse=1236058.3/785654.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=675680.1, rms=4.172 (11.282%) rms = 4.1319/4.1721, sse=667681.5/675680.2, time step reduction 2 of 3 to 0.125 0 0 1 029: dt: 0.2500, sse=667681.5, rms=4.132 (0.964%) 030: dt: 0.1250, sse=634242.1, rms=3.955 (4.287%) 031: dt: 0.1250, sse=618801.4, rms=3.871 (2.106%) rms = 3.8390/3.8715, sse=612808.8/618801.4, time step reduction 3 of 3 to 0.062 0 0 1 032: dt: 0.1250, sse=612808.9, rms=3.839 (0.838%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Iteration 3 ========================================= n_averages=2, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.9260560; border_hi = 50.3762550; border_low = 25.1287610; outside_low = 10.0000000; outside_hi = 44.0643840; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 1504 vertices, nripped=7881 mean border=40.5, 1466 (76) missing vertices, mean dist 0.0 [0.1 (%55.0)->0.3 (%45.0))] %48 local maxima, %26 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0149 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=671431.9, rms=4.150 rms = 5.9330/4.1500, sse=1093192.9/671432.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 033: dt: 0.2500, sse=606323.4, rms=3.799 (8.458%) rms = 3.7773/3.7990, sse=601770.0/606323.4, time step reduction 2 of 3 to 0.125 0 0 1 034: dt: 0.2500, sse=601770.0, rms=3.777 (0.572%) 035: dt: 0.1250, sse=576069.5, rms=3.629 (3.931%) 036: dt: 0.1250, sse=561880.1, rms=3.546 (2.285%) rms = 3.5187/3.5459, sse=557157.1/561880.1, time step reduction 3 of 3 to 0.062 0 0 1 037: dt: 0.1250, sse=557157.1, rms=3.519 (0.766%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Pinning medial wall to white surface removing intersecting faces 000: 15 intersecting step 1 with no progress (num=28, old_num=15) 001: 28 intersecting terminating search with 0 intersecting Writing output to ../surf/rh.pial.T1 #ET# mris_place_surface 3.11 minutes #VMPC# mris_place_surfaces VmPeak 1303604 mris_place_surface done @#@FSTIME 2023:08:15:22:50:45 mris_place_surface N 28 e 193.79 S 0.42 U 193.34 P 99% M 1045140 F 0 R 281667 W 0 c 1111 w 5 I 0 O 8824 L 1.03 1.08 1.08 @#@FSLOADPOST 2023:08:15:22:53:58 mris_place_surface N 28 1.11 1.13 1.09 #@# white curv lh Tue 15 Aug 22:53:58 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/lh.white, nbrs 2, curvature_avgs 10 writing curvature file ../surf/lh.curv @#@FSTIME 2023:08:15:22:53:58 mris_place_surface N 5 e 1.64 S 0.08 U 1.56 P 99% M 177180 F 0 R 47702 W 0 c 8 w 1 I 0 O 1008 L 1.11 1.13 1.09 @#@FSLOADPOST 2023:08:15:22:54:00 mris_place_surface N 5 1.11 1.13 1.09 #@# white area lh Tue 15 Aug 22:54:00 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/lh.area @#@FSTIME 2023:08:15:22:54:00 mris_place_surface N 3 e 0.78 S 0.09 U 0.69 P 99% M 177116 F 0 R 47704 W 0 c 2 w 1 I 0 O 1008 L 1.11 1.13 1.09 @#@FSLOADPOST 2023:08:15:22:54:01 mris_place_surface N 3 1.11 1.13 1.09 #@# pial curv lh Tue 15 Aug 22:54:01 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/lh.pial, nbrs 2, curvature_avgs 10 writing curvature file ../surf/lh.curv.pial @#@FSTIME 2023:08:15:22:54:01 mris_place_surface N 5 e 1.69 S 0.08 U 1.60 P 99% M 177136 F 0 R 47701 W 0 c 11 w 1 I 0 O 1008 L 1.11 1.13 1.09 @#@FSLOADPOST 2023:08:15:22:54:03 mris_place_surface N 5 1.10 1.12 1.09 #@# pial area lh Tue 15 Aug 22:54:03 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/lh.area.pial @#@FSTIME 2023:08:15:22:54:03 mris_place_surface N 3 e 0.84 S 0.08 U 0.76 P 99% M 177224 F 0 R 47704 W 0 c 5 w 1 I 0 O 1008 L 1.10 1.12 1.09 @#@FSLOADPOST 2023:08:15:22:54:04 mris_place_surface N 3 1.10 1.12 1.09 #@# thickness lh Tue 15 Aug 22:54:04 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 0 of 128566 vertices processed 25000 of 128566 vertices processed 50000 of 128566 vertices processed 75000 of 128566 vertices processed 100000 of 128566 vertices processed 125000 of 128566 vertices processed 0 of 128566 vertices processed 25000 of 128566 vertices processed 50000 of 128566 vertices processed 75000 of 128566 vertices processed 100000 of 128566 vertices processed 125000 of 128566 vertices processed thickness calculation complete, 113:411 truncations. 84445 vertices at 0 distance 116392 vertices at 1 distance 41929 vertices at 2 distance 10411 vertices at 3 distance 2576 vertices at 4 distance 706 vertices at 5 distance 268 vertices at 6 distance 129 vertices at 7 distance 88 vertices at 8 distance 60 vertices at 9 distance 43 vertices at 10 distance 30 vertices at 11 distance 16 vertices at 12 distance 16 vertices at 13 distance 12 vertices at 14 distance 3 vertices at 15 distance 3 vertices at 16 distance 1 vertices at 17 distance 2 vertices at 18 distance 0 vertices at 19 distance 2 vertices at 20 distance writing curvature file ../surf/lh.thickness @#@FSTIME 2023:08:15:22:54:04 mris_place_surface N 6 e 28.62 S 0.11 U 28.50 P 99% M 177252 F 0 R 54482 W 0 c 176 w 1 I 0 O 1008 L 1.10 1.12 1.09 @#@FSLOADPOST 2023:08:15:22:54:32 mris_place_surface N 6 1.11 1.13 1.09 #@# area and vertex vol lh Tue 15 Aug 22:54:32 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_calc -o lh.area.mid lh.area add lh.area.pial Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o lh.area.mid lh.area.mid div 2 Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume sub-073_ses-BSL lh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.volume masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Total face volume 191134 Total vertex volume 190923 (mask=0) #@# sub-073_ses-BSL lh 190923 vertexvol Done @#@FSTIME 2023:08:15:22:54:32 vertexvol N 4 e 1.61 S 0.17 U 1.43 P 99% M 294252 F 0 R 83666 W 0 c 9 w 23 I 8 O 3024 L 1.11 1.13 1.09 @#@FSLOADPOST 2023:08:15:22:54:34 vertexvol N 4 1.11 1.13 1.09 #@# white curv rh Tue 15 Aug 22:54:34 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/rh.white, nbrs 2, curvature_avgs 10 writing curvature file ../surf/rh.curv @#@FSTIME 2023:08:15:22:54:34 mris_place_surface N 5 e 1.65 S 0.08 U 1.57 P 100% M 172772 F 0 R 46513 W 0 c 8 w 1 I 0 O 984 L 1.11 1.13 1.09 @#@FSLOADPOST 2023:08:15:22:54:36 mris_place_surface N 5 1.11 1.13 1.09 #@# white area rh Tue 15 Aug 22:54:36 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/rh.area @#@FSTIME 2023:08:15:22:54:36 mris_place_surface N 3 e 0.81 S 0.10 U 0.71 P 99% M 172744 F 0 R 46512 W 0 c 9 w 2 I 8 O 984 L 1.11 1.13 1.09 @#@FSLOADPOST 2023:08:15:22:54:36 mris_place_surface N 3 1.18 1.14 1.10 #@# pial curv rh Tue 15 Aug 22:54:36 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/rh.pial, nbrs 2, curvature_avgs 10 writing curvature file ../surf/rh.curv.pial @#@FSTIME 2023:08:15:22:54:36 mris_place_surface N 5 e 1.57 S 0.07 U 1.50 P 99% M 172824 F 0 R 46513 W 0 c 7 w 1 I 0 O 984 L 1.18 1.14 1.10 @#@FSLOADPOST 2023:08:15:22:54:38 mris_place_surface N 5 1.18 1.14 1.10 #@# pial area rh Tue 15 Aug 22:54:38 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/rh.area.pial @#@FSTIME 2023:08:15:22:54:38 mris_place_surface N 3 e 0.80 S 0.08 U 0.72 P 99% M 172936 F 0 R 46514 W 0 c 5 w 2 I 8 O 984 L 1.18 1.14 1.10 @#@FSLOADPOST 2023:08:15:22:54:39 mris_place_surface N 3 1.18 1.14 1.10 #@# thickness rh Tue 15 Aug 22:54:39 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 0 of 125360 vertices processed 25000 of 125360 vertices processed 50000 of 125360 vertices processed 75000 of 125360 vertices processed 100000 of 125360 vertices processed 125000 of 125360 vertices processed 0 of 125360 vertices processed 25000 of 125360 vertices processed 50000 of 125360 vertices processed 75000 of 125360 vertices processed 100000 of 125360 vertices processed 125000 of 125360 vertices processed thickness calculation complete, 51:344 truncations. 82304 vertices at 0 distance 113444 vertices at 1 distance 40515 vertices at 2 distance 10281 vertices at 3 distance 2613 vertices at 4 distance 813 vertices at 5 distance 330 vertices at 6 distance 148 vertices at 7 distance 73 vertices at 8 distance 58 vertices at 9 distance 34 vertices at 10 distance 34 vertices at 11 distance 26 vertices at 12 distance 9 vertices at 13 distance 8 vertices at 14 distance 3 vertices at 15 distance 7 vertices at 16 distance 3 vertices at 17 distance 5 vertices at 18 distance 6 vertices at 19 distance 6 vertices at 20 distance writing curvature file ../surf/rh.thickness @#@FSTIME 2023:08:15:22:54:39 mris_place_surface N 6 e 28.12 S 0.08 U 28.03 P 99% M 172800 F 0 R 53125 W 0 c 116 w 1 I 0 O 984 L 1.18 1.14 1.10 @#@FSLOADPOST 2023:08:15:22:55:07 mris_place_surface N 6 1.16 1.14 1.10 #@# area and vertex vol rh Tue 15 Aug 22:55:07 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_calc -o rh.area.mid rh.area add rh.area.pial Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o rh.area.mid rh.area.mid div 2 Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume sub-073_ses-BSL rh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.volume masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Total face volume 189730 Total vertex volume 189520 (mask=0) #@# sub-073_ses-BSL rh 189520 vertexvol Done @#@FSTIME 2023:08:15:22:55:07 vertexvol N 4 e 1.57 S 0.18 U 1.38 P 99% M 287044 F 0 R 81628 W 0 c 14 w 22 I 0 O 2952 L 1.16 1.14 1.10 @#@FSLOADPOST 2023:08:15:22:55:09 vertexvol N 4 1.16 1.14 1.10 #----------------------------------------- #@# Curvature Stats lh Tue 15 Aug 22:55:09 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm sub-073_ses-BSL lh curv sulc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/lh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ sub-073_ses-BSL/lh.smoothwm ] Reading surface... [ ok ] Setting texture [ curv ] Reading texture... [ ok ] Setting texture [ sulc ] Reading texture...Gb_filter = 0 [ ok ] Calculating Discrete Principal Curvatures... Determining geometric order for vno faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 225 ] Gb_filter = 0 WARN: S lookup min: -0.124942 WARN: S explicit min: 0.000000 vertex = 179 @#@FSTIME 2023:08:15:22:55:09 mris_curvature_stats N 11 e 2.30 S 0.08 U 2.22 P 100% M 177264 F 0 R 47903 W 0 c 10 w 5 I 8 O 8104 L 1.16 1.14 1.10 @#@FSLOADPOST 2023:08:15:22:55:11 mris_curvature_stats N 11 1.16 1.14 1.10 #----------------------------------------- #@# Curvature Stats rh Tue 15 Aug 22:55:11 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm sub-073_ses-BSL rh curv sulc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/rh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ sub-073_ses-BSL/rh.smoothwm ] Reading surface... [ ok ] Setting texture [ curv ] Reading texture... [ ok ] Setting texture [ sulc ] Reading texture...Gb_filter = 0 [ ok ] Calculating Discrete Principal Curvatures... Determining geometric order for vno faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 229 ] Gb_filter = 0 WARN: S lookup min: -0.023793 WARN: S explicit min: 0.000000 vertex = 16 @#@FSTIME 2023:08:15:22:55:11 mris_curvature_stats N 11 e 2.21 S 0.10 U 2.11 P 99% M 172940 F 0 R 46715 W 0 c 12 w 7 I 16 O 7912 L 1.16 1.14 1.10 @#@FSLOADPOST 2023:08:15:22:55:13 mris_curvature_stats N 11 1.23 1.16 1.10 #-------------------------------------------- #@# Cortical ribbon mask Tue 15 Aug 22:55:13 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_volmask --aseg_name aseg.presurf --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon sub-073_ses-BSL /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR is /home/rosalia/Desktop/CAN_RUTI loading input data... Running hemis serially Processing left hemi computing distance to left white surface computing distance to left pial surface Processing right hemi computing distance to right white surface computing distance to right pial surface hemi masks overlap voxels = 10 writing volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/ribbon.mgz mris_volmask took 5.24 minutes writing ribbon files @#@FSTIME 2023:08:15:22:55:13 mris_volmask N 12 e 314.49 S 0.69 U 313.76 P 99% M 945412 F 0 R 503847 W 0 c 1484 w 1 I 0 O 848 L 1.23 1.16 1.10 @#@FSLOADPOST 2023:08:15:23:00:28 mris_volmask N 12 1.04 1.07 1.08 #----------------------------------------- #@# Cortical Parc 2 lh Tue 15 Aug 23:00:28 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL lh ../surf/lh.sphere.reg /home/rosalia/software/freesurfer/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 3.0 using min determinant for regularization = 0.088 0 singular and 0 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 88 labels changed using aseg relabeling using gibbs priors... 000: 8400 changed, 128566 examined... 001: 1960 changed, 32581 examined... 002: 589 changed, 10359 examined... 003: 250 changed, 3390 examined... 004: 112 changed, 1441 examined... 005: 67 changed, 646 examined... 006: 45 changed, 378 examined... 007: 15 changed, 246 examined... 008: 5 changed, 97 examined... 009: 4 changed, 26 examined... 010: 1 changed, 19 examined... 011: 1 changed, 8 examined... 012: 2 changed, 7 examined... 013: 0 changed, 10 examined... 31 labels changed using aseg 000: 219 total segments, 135 labels (1629 vertices) changed 001: 86 total segments, 5 labels (180 vertices) changed 002: 81 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 26 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1143 vertices marked for relabeling... 1143 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 0 minutes and 12 seconds. @#@FSTIME 2023:08:15:23:00:28 mris_ca_label N 11 e 12.02 S 0.85 U 11.16 P 99% M 1668132 F 0 R 631057 W 0 c 49 w 0 I 0 O 2016 L 1.04 1.07 1.08 @#@FSLOADPOST 2023:08:15:23:00:40 mris_ca_label N 11 1.11 1.09 1.08 #----------------------------------------- #@# Cortical Parc 2 rh Tue 15 Aug 23:00:40 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL rh ../surf/rh.sphere.reg /home/rosalia/software/freesurfer/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.021 0 singular and 0 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 74 labels changed using aseg relabeling using gibbs priors... 000: 8405 changed, 125360 examined... 001: 1829 changed, 32845 examined... 002: 538 changed, 9803 examined... 003: 229 changed, 3196 examined... 004: 112 changed, 1313 examined... 005: 54 changed, 600 examined... 006: 36 changed, 329 examined... 007: 22 changed, 205 examined... 008: 8 changed, 119 examined... 009: 5 changed, 45 examined... 010: 1 changed, 26 examined... 011: 0 changed, 7 examined... 38 labels changed using aseg 000: 233 total segments, 144 labels (1608 vertices) changed 001: 94 total segments, 6 labels (51 vertices) changed 002: 88 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 29 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1119 vertices marked for relabeling... 1119 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 0 minutes and 12 seconds. @#@FSTIME 2023:08:15:23:00:40 mris_ca_label N 11 e 11.84 S 0.92 U 10.92 P 99% M 1702632 F 0 R 651328 W 0 c 64 w 1 I 0 O 1968 L 1.11 1.09 1.08 @#@FSLOADPOST 2023:08:15:23:00:52 mris_ca_label N 11 1.09 1.08 1.08 #----------------------------------------- #@# Cortical Parc 3 lh Tue 15 Aug 23:00:52 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL lh ../surf/lh.sphere.reg /home/rosalia/software/freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.020 0 singular and 383 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1168 labels changed using aseg relabeling using gibbs priors... 000: 1978 changed, 128566 examined... 001: 486 changed, 9003 examined... 002: 160 changed, 2744 examined... 003: 83 changed, 895 examined... 004: 59 changed, 455 examined... 005: 39 changed, 286 examined... 006: 39 changed, 204 examined... 007: 32 changed, 203 examined... 008: 24 changed, 135 examined... 009: 8 changed, 111 examined... 010: 10 changed, 58 examined... 011: 10 changed, 59 examined... 012: 6 changed, 46 examined... 013: 7 changed, 41 examined... 014: 10 changed, 41 examined... 015: 6 changed, 47 examined... 016: 3 changed, 34 examined... 017: 6 changed, 20 examined... 018: 4 changed, 25 examined... 019: 6 changed, 24 examined... 020: 9 changed, 29 examined... 021: 9 changed, 35 examined... 022: 9 changed, 43 examined... 023: 5 changed, 42 examined... 024: 7 changed, 27 examined... 025: 7 changed, 31 examined... 026: 7 changed, 36 examined... 027: 10 changed, 38 examined... 028: 7 changed, 47 examined... 029: 7 changed, 39 examined... 030: 4 changed, 35 examined... 031: 6 changed, 27 examined... 032: 6 changed, 29 examined... 033: 5 changed, 25 examined... 034: 4 changed, 21 examined... 035: 2 changed, 15 examined... 036: 1 changed, 9 examined... 037: 2 changed, 7 examined... 038: 2 changed, 11 examined... 039: 0 changed, 9 examined... 607 labels changed using aseg 000: 63 total segments, 30 labels (380 vertices) changed 001: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 2 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 684 vertices marked for relabeling... 684 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas.annot... classification took 0 minutes and 9 seconds. @#@FSTIME 2023:08:15:23:00:52 mris_ca_label N 11 e 9.27 S 0.51 U 8.75 P 99% M 957020 F 0 R 300918 W 0 c 93 w 1 I 0 O 2016 L 1.09 1.08 1.08 @#@FSLOADPOST 2023:08:15:23:01:01 mris_ca_label N 11 1.08 1.08 1.08 #----------------------------------------- #@# Cortical Parc 3 rh Tue 15 Aug 23:01:01 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL rh ../surf/rh.sphere.reg /home/rosalia/software/freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.9 using min determinant for regularization = 0.009 0 singular and 325 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1253 labels changed using aseg relabeling using gibbs priors... 000: 1890 changed, 125360 examined... 001: 446 changed, 8772 examined... 002: 137 changed, 2483 examined... 003: 62 changed, 774 examined... 004: 28 changed, 329 examined... 005: 15 changed, 148 examined... 006: 11 changed, 72 examined... 007: 8 changed, 49 examined... 008: 4 changed, 37 examined... 009: 3 changed, 26 examined... 010: 3 changed, 18 examined... 011: 5 changed, 17 examined... 012: 6 changed, 26 examined... 013: 6 changed, 29 examined... 014: 9 changed, 27 examined... 015: 8 changed, 34 examined... 016: 5 changed, 35 examined... 017: 5 changed, 27 examined... 018: 4 changed, 18 examined... 019: 3 changed, 23 examined... 020: 1 changed, 18 examined... 021: 1 changed, 8 examined... 022: 0 changed, 7 examined... 397 labels changed using aseg 000: 63 total segments, 30 labels (111 vertices) changed 001: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 3 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 942 vertices marked for relabeling... 942 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas.annot... classification took 0 minutes and 9 seconds. @#@FSTIME 2023:08:15:23:01:01 mris_ca_label N 11 e 8.84 S 0.48 U 8.35 P 99% M 945676 F 0 R 293840 W 0 c 50 w 1 I 0 O 1968 L 1.08 1.08 1.08 @#@FSLOADPOST 2023:08:15:23:01:10 mris_ca_label N 11 1.14 1.09 1.08 #----------------------------------------- #@# WM/GM Contrast lh Tue 15 Aug 23:01:10 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts pctsurfcon --s sub-073_ses-BSL --lh-only /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Log file is /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts/pctsurfcon.log Tue 15 Aug 23:01:10 CEST 2023 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts /home/rosalia/software/freesurfer/bin/pctsurfcon pctsurfcon 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /home/rosalia/software/freesurfer mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.651146/lh.wm.mgh --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Done reading source surface Mapping Source Volume onto Source Subject Surface Projecting -1 -1 1 1 -1 -1 -1 using old Done mapping volume to surface Number of source voxels hit = 74023 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.651146/lh.wm.mgh Dim: 128566 1 1 mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.651146/lh.gm.mgh --projfrac 0.3 --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Done reading source surface Reading thickness /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.thickness Done Mapping Source Volume onto Source Subject Surface Projecting 0.3 0.3 1 1 0.3 0.3 0.3 using old Done mapping volume to surface Number of source voxels hit = 87761 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.651146/lh.gm.mgh Dim: 128566 1 1 mri_concat /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.651146/lh.wm.mgh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.651146/lh.gm.mgh --paired-diff-norm --mul 100 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh ninputs = 2 Checking inputs nframestot = 2 Allocing output Done allocing Combining pairs nframes = 1 Multiplying by 100.000000 Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh --annot sub-073_ses-BSL lh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/lh.w-g.pct.stats --snr 7.3.1 cwd cmdline mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh --annot sub-073_ses-BSL lh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/lh.w-g.pct.stats --snr sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.annot Seg base 1000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh Vertex Area is 0.685782 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation Reporting on 35 segmentations Using PrintSegStat mri_segstats done Cleaning up @#@FSTIME 2023:08:15:23:01:10 pctsurfcon N 3 e 3.15 S 0.33 U 2.81 P 100% M 244320 F 0 R 182072 W 0 c 16 w 68 I 0 O 3128 L 1.14 1.09 1.08 @#@FSLOADPOST 2023:08:15:23:01:13 pctsurfcon N 3 1.21 1.11 1.09 #----------------------------------------- #@# WM/GM Contrast rh Tue 15 Aug 23:01:13 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts pctsurfcon --s sub-073_ses-BSL --rh-only /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Log file is /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts/pctsurfcon.log Tue 15 Aug 23:01:13 CEST 2023 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts /home/rosalia/software/freesurfer/bin/pctsurfcon pctsurfcon 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /home/rosalia/software/freesurfer mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.651218/rh.wm.mgh --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Done reading source surface Mapping Source Volume onto Source Subject Surface Projecting -1 -1 1 1 -1 -1 -1 using old Done mapping volume to surface Number of source voxels hit = 72590 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.651218/rh.wm.mgh Dim: 125360 1 1 mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.651218/rh.gm.mgh --projfrac 0.3 --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Done reading source surface Reading thickness /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.thickness Done Mapping Source Volume onto Source Subject Surface Projecting 0.3 0.3 1 1 0.3 0.3 0.3 using old Done mapping volume to surface Number of source voxels hit = 85980 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.651218/rh.gm.mgh Dim: 125360 1 1 mri_concat /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.651218/rh.wm.mgh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.651218/rh.gm.mgh --paired-diff-norm --mul 100 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh ninputs = 2 Checking inputs nframestot = 2 Allocing output Done allocing Combining pairs nframes = 1 Multiplying by 100.000000 Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh --annot sub-073_ses-BSL rh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/rh.w-g.pct.stats --snr 7.3.1 cwd cmdline mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh --annot sub-073_ses-BSL rh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/rh.w-g.pct.stats --snr sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.annot Seg base 2000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh Vertex Area is 0.699721 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation Reporting on 35 segmentations Using PrintSegStat mri_segstats done Cleaning up @#@FSTIME 2023:08:15:23:01:13 pctsurfcon N 3 e 3.10 S 0.28 U 2.81 P 100% M 240920 F 0 R 172557 W 0 c 27 w 67 I 0 O 3064 L 1.21 1.11 1.09 @#@FSLOADPOST 2023:08:15:23:01:16 pctsurfcon N 3 1.21 1.11 1.09 #----------------------------------------- #@# Relabel Hypointensities Tue 15 Aug 23:01:16 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading input surface ../surf/lh.white... relabeling lh hypointensities... 4565 voxels changed to hypointensity... reading input surface ../surf/rh.white... relabeling rh hypointensities... 4164 voxels changed to hypointensity... 8430 hypointense voxels neighboring cortex changed @#@FSTIME 2023:08:15:23:01:16 mri_relabel_hypointensities N 3 e 13.14 S 0.49 U 12.64 P 99% M 462248 F 0 R 330739 W 0 c 76 w 2 I 8 O 672 L 1.21 1.11 1.09 @#@FSLOADPOST 2023:08:15:23:01:29 mri_relabel_hypointensities N 3 1.30 1.14 1.10 #----------------------------------------- #@# APas-to-ASeg Tue 15 Aug 23:01:29 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_surf2volseg --o aseg.mgz --i aseg.presurf.hypos.mgz --fix-presurf-with-ribbon /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/ribbon.mgz --threads 1 --lh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label --lh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white --lh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial --rh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label --rh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white --rh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI outvol aseg.mgz 8 avail.processors, using 1 Loading aseg.presurf.hypos.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/ribbon.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Done loading 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nrelabeled = 149288 ndotcheck = 0 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 881408 mri_surf2volseg done @#@FSTIME 2023:08:15:23:01:29 mri_surf2volseg N 20 e 19.19 S 0.34 U 18.84 P 99% M 861004 F 0 R 242731 W 0 c 121 w 1 I 0 O 704 L 1.30 1.14 1.10 @#@FSLOADPOST 2023:08:15:23:01:49 mri_surf2volseg N 20 1.21 1.13 1.09 mri_brainvol_stats sub-073_ses-BSL /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Command terminated by signal 11 @#@FSTIME 2023:08:15:23:01:49 mri_brainvol_stats N 1 e 3.52 S 0.17 U 3.26 P 97% M 214664 F 0 R 108243 W 0 c 8 w 3 I 0 O 0 L 1.21 1.13 1.09 @#@FSLOADPOST 2023:08:15:23:01:52 mri_brainvol_stats N 1 1.28 1.14 1.10 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux recon-all -s sub-073_ses-BSL exited with ERRORS at Tue 15 Aug 23:01:52 CEST 2023 To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting #New# invocation of recon-all Wed 16 Aug 09:14:18 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI /home/rosalia/software/freesurfer/bin/recon-all -autorecon-pial -subjid sub-073_ses-BSL/ subjid sub-073_ses-BSL setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI FREESURFER_HOME /home/rosalia/software/freesurfer Actual FREESURFER_HOME /home/rosalia/software/freesurfer build-stamp.txt: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 1024 memorylocked 4091860 kbytes maxproc 127559 maxlocks unlimited maxsignal 127559 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 31Gi 5.1Gi 1.8Gi 857Mi 24Gi 24Gi Swap: 2.0Gi 0.0Ki 2.0Gi ######################################## program versions used 7.3.1 (freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466) 7.3.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.3.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.1 TimeStamp: 2023/08/16-07:14:18-GMT BuildTime: Jul 23 2022 11:16:46 BuildStamp: freesurfer-linux-ubuntu20_x86_64-7.3.1-20220723-115e466 User: rosalia Machine: rosalia-Lenovo-Y520-15IKBN Platform: Linux PlatformVersion: 5.19.0-45-generic CompilerName: GCC CompilerVersion: 8.4.0 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ####################################### GCADIR /home/rosalia/software/freesurfer/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /home/rosalia/software/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### #-------------------------------------------- #@# Mask BFS Wed 16 Aug 09:14:18 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) threshold mask volume at 5 DoAbs = 0 Found 1371935 voxels in mask (pct= 15.06) INFO: MRImask() using MRImaskDifferentGeometry() Writing masked volume to brain.finalsurfs.mgz...done. @#@FSTIME 2023:08:16:09:14:18 mri_mask N 5 e 3.54 S 0.06 U 3.47 P 99% M 112408 F 0 R 26814 W 0 c 70 w 1 I 2424 O 2456 L 5.11 5.75 4.54 @#@FSLOADPOST 2023:08:16:09:14:22 mri_mask N 5 5.34 5.78 4.55 #-------------------------------------------- #@# AutoDetGWStats lh Wed 16 Aug 09:14:22 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh border white: 231825 voxels (1.38%) border gray 253183 voxels (1.51%) Reading in intensity volume brain.finalsurfs.mgz Reading in wm volume wm.mgz Reading in surf ../surf/lh.orig.premesh Auto detecting stats MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (96.0): 96.1 +- 9.1 [70.0 --> 110.0] CCS GM (70.0) : 68.7 +- 12.6 [30.0 --> 110.0] white_mean = 96.1173 +/- 9.07395, gray_mean = 68.7391 +/- 12.6237 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=255 nbins=256 intensity peaks found at WM=99+-7.8, GM=64+-13.0 white_mode = 99, gray_mode = 64 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 51.4 (was 70.000000) setting MAX_BORDER_WHITE to 108.1 (was 105.000000) setting MIN_BORDER_WHITE to 64.0 (was 85.000000) setting MAX_CSF to 38.8 (was 40.000000) setting MAX_GRAY to 89.9 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 51.4 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 26.1 (was 40.000000) When placing the white surface white_border_hi = 108.074; white_border_low = 64; white_outside_low = 51.3763; white_inside_hi = 120; white_outside_hi = 108.074; When placing the pial surface pial_border_hi = 51.3763; pial_border_low = 26.1288; pial_outside_low = 10; pial_inside_hi = 89.9261; pial_outside_hi = 45.0644; #VMPC# mris_autodet_gwstats VmPeak 244492 mris_autodet_gwstats done @#@FSTIME 2023:08:16:09:14:22 mris_autodet_gwstats N 8 e 6.42 S 0.21 U 6.19 P 99% M 224436 F 0 R 66453 W 0 c 123 w 1 I 0 O 8 L 5.34 5.78 4.55 @#@FSLOADPOST 2023:08:16:09:14:28 mris_autodet_gwstats N 8 5.31 5.77 4.56 #-------------------------------------------- #@# AutoDetGWStats rh Wed 16 Aug 09:14:28 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh border white: 231825 voxels (1.38%) border gray 253183 voxels (1.51%) Reading in intensity volume brain.finalsurfs.mgz Reading in wm volume wm.mgz Reading in surf ../surf/rh.orig.premesh Auto detecting stats MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (96.0): 96.1 +- 9.1 [70.0 --> 110.0] CCS GM (70.0) : 68.7 +- 12.6 [30.0 --> 110.0] white_mean = 96.1173 +/- 9.07395, gray_mean = 68.7391 +/- 12.6237 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=255 nbins=256 intensity peaks found at WM=100+-8.7, GM=63+-13.0 white_mode = 100, gray_mode = 63 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 50.4 (was 70.000000) setting MAX_BORDER_WHITE to 109.1 (was 105.000000) setting MIN_BORDER_WHITE to 63.0 (was 85.000000) setting MAX_CSF to 37.8 (was 40.000000) setting MAX_GRAY to 90.9 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 50.4 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 25.1 (was 40.000000) When placing the white surface white_border_hi = 109.074; white_border_low = 63; white_outside_low = 50.3763; white_inside_hi = 120; white_outside_hi = 109.074; When placing the pial surface pial_border_hi = 50.3763; pial_border_low = 25.1288; pial_outside_low = 10; pial_inside_hi = 90.9261; pial_outside_hi = 44.0644; #VMPC# mris_autodet_gwstats VmPeak 240700 mris_autodet_gwstats done @#@FSTIME 2023:08:16:09:14:28 mris_autodet_gwstats N 8 e 5.97 S 0.10 U 5.86 P 99% M 220480 F 0 R 62333 W 0 c 51 w 1 I 0 O 8 L 5.31 5.77 4.56 @#@FSLOADPOST 2023:08:16:09:14:34 mris_autodet_gwstats N 8 5.37 5.78 4.56 #-------------------------------------------- #@# WhitePreAparc lh Wed 16 Aug 09:14:34 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --lh --i ../surf/lh.orig --o ../surf/lh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --lh --i ../surf/lh.orig --o ../surf/lh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 Reading in input surface ../surf/lh.orig Smoothing surface before ripping with 5 iterations Area 257128 0.26849 0.06397 0.005624 0.5879 Corner 771384 60.00000 9.49037 11.091671 141.7306 Edge 385692 0.79102 0.11565 0.092196 1.2540 Hinge 385692 6.27339 6.45318 0.000011 134.6678 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 MRIfindBrightNonWM(): 8146 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=0 #FML# MRISripMidline(): nmarked=7707, nmarked2=0, nripped=7707 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 64283: xyz = (-41.7095,-8.77936,35.6601) oxyz = (-41.7095,-8.77936,35.6601) wxzy = (-41.7095,-8.77936,35.6601) pxyz = (0,0,0) CBVO Creating mask 128566 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7707 #FML# MRISripMidline(): nmarked=7707, nmarked2=0, nripped=7707 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=2 had to be increased for 102 vertices, nripped=7707 mean border=77.7, 478 (478) missing vertices, mean dist 0.2 [1.0 (%39.4)->1.0 (%60.6))] %21 local maxima, %73 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1938 min Finding expansion regions mean absolute distance = 1.00 +- 1.24 4889 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=4653050.5, rms=13.688 001: dt: 0.5000, sse=2478592.8, rms=9.864 (27.942%) 002: dt: 0.5000, sse=1491433.4, rms=7.503 (23.936%) 003: dt: 0.5000, sse=1019018.1, rms=6.050 (19.366%) 004: dt: 0.5000, sse=760430.6, rms=5.068 (16.235%) 005: dt: 0.5000, sse=607508.1, rms=4.388 (13.409%) 006: dt: 0.5000, sse=528658.9, rms=3.971 (9.509%) 007: dt: 0.5000, sse=486340.6, rms=3.749 (5.595%) 008: dt: 0.5000, sse=472688.7, rms=3.634 (3.053%) 009: dt: 0.5000, sse=465968.2, rms=3.569 (1.799%) rms = 3.5417/3.5688, sse=452459.0/465968.2, time step reduction 1 of 3 to 0.250 0 0 1 010: dt: 0.5000, sse=452459.0, rms=3.542 (0.761%) 011: dt: 0.2500, sse=267674.0, rms=2.182 (38.377%) 012: dt: 0.2500, sse=238684.6, rms=1.858 (14.855%) rms = 1.7889/1.8583, sse=239135.0/238684.6, time step reduction 2 of 3 to 0.125 0 1 0 013: dt: 0.2500, sse=239135.0, rms=1.789 (3.733%) 014: dt: 0.1250, sse=214302.5, rms=1.593 (10.935%) rms = 1.5542/1.5933, sse=212046.6/214302.5, time step reduction 3 of 3 to 0.062 0 0 1 015: dt: 0.1250, sse=212046.6, rms=1.554 (2.457%) maximum number of reductions reached, breaking from loop positioning took 1.8 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7707 removing 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 4 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8068, nmarked2=26, nripped=8068 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=1 had to be increased for 233 vertices, nripped=8068 mean border=80.2, 444 (275) missing vertices, mean dist -0.3 [0.6 (%63.5)->0.3 (%36.5))] %34 local maxima, %59 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1703 min Finding expansion regions mean absolute distance = 0.47 +- 0.88 4858 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=702128.8, rms=4.549 016: dt: 0.5000, sse=477640.2, rms=3.309 (27.267%) rms = 3.2707/3.3089, sse=467092.9/477640.2, time step reduction 1 of 3 to 0.250 0 0 1 017: dt: 0.5000, sse=467092.9, rms=3.271 (1.153%) 018: dt: 0.2500, sse=302203.5, rms=1.985 (39.320%) 019: dt: 0.2500, sse=286352.3, rms=1.691 (14.779%) 020: dt: 0.2500, sse=277582.7, rms=1.591 (5.918%) 021: dt: 0.2500, sse=267931.7, rms=1.503 (5.556%) rms = 1.4833/1.5029, sse=260922.1/267931.7, time step reduction 2 of 3 to 0.125 0 0 1 022: dt: 0.2500, sse=260922.1, rms=1.483 (1.304%) 023: dt: 0.1250, sse=250308.5, rms=1.316 (11.273%) rms = 1.2776/1.3161, sse=249933.5/250308.5, time step reduction 3 of 3 to 0.062 0 0 1 024: dt: 0.1250, sse=249933.5, rms=1.278 (2.919%) maximum number of reductions reached, breaking from loop positioning took 1.0 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=8068 removing 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8121, nmarked2=28, nripped=8121 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 280 vertices, nripped=8121 mean border=83.2, 425 (223) missing vertices, mean dist -0.2 [0.4 (%69.0)->0.2 (%31.0))] %58 local maxima, %35 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0830 min Finding expansion regions mean absolute distance = 0.36 +- 0.53 3554 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=634427.3, rms=4.230 025: dt: 0.5000, sse=411880.3, rms=2.902 (31.392%) rms = 3.0317/2.9019, sse=437393.0/411880.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 026: dt: 0.2500, sse=303815.1, rms=2.030 (30.059%) 027: dt: 0.2500, sse=267453.5, rms=1.548 (23.713%) 028: dt: 0.2500, sse=255919.9, rms=1.433 (7.470%) 029: dt: 0.2500, sse=253087.6, rms=1.373 (4.172%) rms = 1.3943/1.3729, sse=255623.4/253087.6, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step 030: dt: 0.1250, sse=241502.3, rms=1.292 (5.904%) 031: dt: 0.1250, sse=235213.5, rms=1.172 (9.251%) rms = 1.1423/1.1723, sse=237849.1/235213.6, time step reduction 3 of 3 to 0.062 0 1 1 032: dt: 0.1250, sse=237849.1, rms=1.142 (2.566%) maximum number of reductions reached, breaking from loop positioning took 0.9 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=8121 removing 2 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 removing 1 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8167, nmarked2=28, nripped=8167 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 309 vertices, nripped=8167 mean border=84.6, 428 (190) missing vertices, mean dist -0.1 [0.3 (%60.0)->0.2 (%40.0))] %69 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0612 min Finding expansion regions mean absolute distance = 0.27 +- 0.40 2893 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=313111.0, rms=2.157 rms = 2.4025/2.1575, sse=345006.7/313111.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 033: dt: 0.2500, sse=245542.4, rms=1.428 (33.830%) 034: dt: 0.2500, sse=227785.2, rms=1.059 (25.827%) rms = 1.1447/1.0589, sse=233882.9/227785.2, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step 035: dt: 0.1250, sse=222887.3, rms=0.984 (7.078%) 036: dt: 0.1250, sse=219336.3, rms=0.898 (8.717%) rms = 0.8797/0.8982, sse=218778.9/219336.3, time step reduction 3 of 3 to 0.062 0 0 1 037: dt: 0.1250, sse=218778.9, rms=0.880 (2.059%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes Writing output to ../surf/lh.white.preaparc #ET# mris_place_surface 4.90 minutes #VMPC# mris_place_surfaces VmPeak 2151428 mris_place_surface done @#@FSTIME 2023:08:16:09:14:34 mris_place_surface N 18 e 303.85 S 1.08 U 302.71 P 99% M 1892808 F 0 R 496748 W 0 c 1740 w 1 I 0 O 9048 L 5.37 5.78 4.56 @#@FSLOADPOST 2023:08:16:09:19:38 mris_place_surface N 18 4.47 5.07 4.61 #-------------------------------------------- #@# WhitePreAparc rh Wed 16 Aug 09:19:39 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --rh --i ../surf/rh.orig --o ../surf/rh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --wm wm.mgz --threads 1 --invol brain.finalsurfs.mgz --rh --i ../surf/rh.orig --o ../surf/rh.white.preaparc --white --seg aseg.presurf.mgz --nsmooth 5 Reading in input surface ../surf/rh.orig Smoothing surface before ripping with 5 iterations removing intersecting faces 000: 10 intersecting 001: 4 intersecting terminating search with 0 intersecting Area 250716 0.26697 0.06497 0.000136 0.5689 Corner 752148 60.00000 9.66427 1.189177 172.9192 Edge 376074 0.78859 0.11805 0.026305 1.4586 Hinge 376074 6.40553 6.89662 0.000013 170.6265 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 MRIfindBrightNonWM(): 8146 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=0 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7611, nmarked2=14, nripped=7611 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 62680: xyz = (59.5931,-1.08427,5.133) oxyz = (59.5931,-1.08427,5.133) wxzy = (59.5931,-1.08427,5.133) pxyz = (0,0,0) CBVO Creating mask 125360 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7611 removing 4 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=7611, nmarked2=14, nripped=7611 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=2 had to be increased for 597 vertices, nripped=7611 mean border=76.7, 823 (823) missing vertices, mean dist 0.2 [1.1 (%37.2)->1.0 (%62.8))] %22 local maxima, %71 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1672 min Finding expansion regions mean absolute distance = 1.02 +- 1.27 4665 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=5286545.5, rms=14.822 001: dt: 0.5000, sse=3125379.0, rms=11.312 (23.682%) 002: dt: 0.5000, sse=2092211.2, rms=9.152 (19.098%) 003: dt: 0.5000, sse=1564728.1, rms=7.808 (14.679%) 004: dt: 0.5000, sse=1251731.6, rms=6.880 (11.889%) 005: dt: 0.5000, sse=1038394.8, rms=6.173 (10.281%) 006: dt: 0.5000, sse=913885.6, rms=5.669 (8.166%) 007: dt: 0.5000, sse=860523.5, rms=5.358 (5.482%) 008: dt: 0.5000, sse=800606.9, rms=5.195 (3.037%) 009: dt: 0.5000, sse=777541.3, rms=5.082 (2.170%) 010: dt: 0.5000, sse=774645.1, rms=5.008 (1.456%) 011: dt: 0.5000, sse=731335.7, rms=4.929 (1.586%) 012: dt: 0.5000, sse=711677.9, rms=4.860 (1.396%) rms = 4.8261/4.8602, sse=709043.6/711677.9, time step reduction 1 of 3 to 0.250 0 0 1 013: dt: 0.5000, sse=709043.6, rms=4.826 (0.703%) 014: dt: 0.2500, sse=515649.9, rms=3.879 (19.617%) 015: dt: 0.2500, sse=478831.0, rms=3.674 (5.280%) 016: dt: 0.2500, sse=462466.0, rms=3.608 (1.810%) 017: dt: 0.2500, sse=460329.3, rms=3.536 (2.003%) 018: dt: 0.2500, sse=455434.9, rms=3.482 (1.509%) rms = 3.4644/3.4823, sse=450722.8/455434.9, time step reduction 2 of 3 to 0.125 0 0 1 019: dt: 0.2500, sse=450722.8, rms=3.464 (0.515%) 020: dt: 0.1250, sse=436815.6, rms=3.395 (2.013%) rms = 3.3571/3.3947, sse=424594.7/436815.6, time step reduction 3 of 3 to 0.062 0 0 1 021: dt: 0.1250, sse=424594.7, rms=3.357 (1.106%) maximum number of reductions reached, breaking from loop positioning took 2.2 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=7611 removing 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8033, nmarked2=86, nripped=8033 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=1 had to be increased for 389 vertices, nripped=8033 mean border=79.4, 633 (291) missing vertices, mean dist -0.3 [0.6 (%64.7)->0.3 (%35.3))] %35 local maxima, %58 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1392 min Finding expansion regions mean absolute distance = 0.47 +- 0.90 4558 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=1031771.1, rms=5.902 022: dt: 0.5000, sse=774311.8, rms=4.829 (18.174%) 023: dt: 0.5000, sse=749475.1, rms=4.703 (2.620%) 024: dt: 0.5000, sse=734222.1, rms=4.645 (1.232%) rms = 4.6242/4.6446, sse=728673.2/734222.1, time step reduction 1 of 3 to 0.250 0 0 1 025: dt: 0.5000, sse=728673.2, rms=4.624 (0.440%) 026: dt: 0.2500, sse=529433.2, rms=3.528 (23.704%) 027: dt: 0.2500, sse=480997.9, rms=3.290 (6.743%) rms = 3.2082/3.2902, sse=482811.6/480997.9, time step reduction 2 of 3 to 0.125 0 1 0 028: dt: 0.2500, sse=482811.6, rms=3.208 (2.490%) 029: dt: 0.1250, sse=448349.9, rms=3.063 (4.515%) 030: dt: 0.1250, sse=434824.3, rms=2.979 (2.758%) 031: dt: 0.1250, sse=427490.0, rms=2.916 (2.126%) rms = 2.8733/2.9156, sse=418720.8/427490.0, time step reduction 3 of 3 to 0.062 0 0 1 032: dt: 0.1250, sse=418720.8, rms=2.873 (1.451%) maximum number of reductions reached, breaking from loop positioning took 1.1 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=8033 removing 2 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 removing 1 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=8103, nmarked2=91, nripped=8103 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 358 vertices, nripped=8103 mean border=82.3, 563 (172) missing vertices, mean dist -0.2 [0.4 (%69.1)->0.2 (%30.9))] %58 local maxima, %35 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0844 min Finding expansion regions mean absolute distance = 0.34 +- 0.53 3250 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=778390.5, rms=4.891 033: dt: 0.5000, sse=603816.2, rms=3.924 (19.768%) rms = 3.9940/3.9243, sse=634525.1/603816.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 034: dt: 0.2500, sse=464522.7, rms=3.231 (17.659%) 035: dt: 0.2500, sse=425282.4, rms=2.893 (10.465%) 036: dt: 0.2500, sse=408885.6, rms=2.805 (3.061%) 037: dt: 0.2500, sse=396873.1, rms=2.726 (2.796%) rms = 2.6938/2.7262, sse=390537.8/396873.1, time step reduction 2 of 3 to 0.125 0 0 1 038: dt: 0.2500, sse=390537.8, rms=2.694 (1.190%) 039: dt: 0.1250, sse=380031.7, rms=2.529 (6.104%) rms = 2.4838/2.5293, sse=366038.1/380031.6, time step reduction 3 of 3 to 0.062 0 0 1 040: dt: 0.1250, sse=366038.1, rms=2.484 (1.800%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Freezing midline and others Ripping frozen voxels INFO: rip surface needed but not specified, so using input surface Freezing midline and others Entering: MRISripMidline(): inhibiting deformation at non-cortical midline structures... which=1, fix_mtl=0, using annot = 0 #FML0# MRISripMidline(): nripped=8103 #FML# MRISripMidline(): nmarked=8188, nmarked2=92, nripped=8188 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 247 247 247 247 MRISripSegs(): -2 2 0.5 ripped 0 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 330 vertices, nripped=8188 mean border=83.7, 546 (100) missing vertices, mean dist -0.1 [0.3 (%59.8)->0.2 (%40.2))] %69 local maxima, %23 large gradients and % 1 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0437 min Finding expansion regions mean absolute distance = 0.27 +- 0.41 2942 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=435356.4, rms=3.057 rms = 3.3268/3.0572, sse=487530.1/435356.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 041: dt: 0.2500, sse=362917.5, rms=2.530 (17.236%) 042: dt: 0.2500, sse=346110.6, rms=2.382 (5.871%) rms = 2.4441/2.3817, sse=353203.9/346110.6, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step 043: dt: 0.1250, sse=340381.3, rms=2.329 (2.221%) 044: dt: 0.1250, sse=331812.4, rms=2.265 (2.761%) rms = 2.2272/2.2645, sse=330201.9/331812.5, time step reduction 3 of 3 to 0.062 0 0 1 045: dt: 0.1250, sse=330201.9, rms=2.227 (1.648%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes Writing output to ../surf/rh.white.preaparc #ET# mris_place_surface 5.13 minutes #VMPC# mris_place_surfaces VmPeak 2223352 mris_place_surface done @#@FSTIME 2023:08:16:09:19:39 mris_place_surface N 18 e 321.99 S 0.89 U 321.04 P 99% M 1964624 F 0 R 514299 W 0 c 1799 w 1 I 0 O 8824 L 4.47 5.07 4.61 @#@FSLOADPOST 2023:08:16:09:25:01 mris_place_surface N 18 3.95 4.63 4.58 #-------------------------------------------- #@# CortexLabel lh Wed 16 Aug 09:25:01 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 0 ../label/lh.cortex.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 7 non-cortical segments detected only using segment with 9729 vertices erasing segment 0 (vno[0] = 26984) erasing segment 1 (vno[0] = 35917) erasing segment 3 (vno[0] = 40376) erasing segment 4 (vno[0] = 92249) erasing segment 5 (vno[0] = 92797) erasing segment 6 (vno[0] = 92872) @#@FSTIME 2023:08:16:09:25:01 mri_label2label N 5 e 14.04 S 0.17 U 13.86 P 99% M 318976 F 0 R 94478 W 0 c 48 w 3 I 0 O 10352 L 3.95 4.63 4.58 @#@FSLOADPOST 2023:08:16:09:25:15 mri_label2label N 5 3.67 4.54 4.55 #-------------------------------------------- #@# CortexLabel+HipAmyg lh Wed 16 Aug 09:25:15 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 1 ../label/lh.cortex+hipamyg.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=1 NucAccIsMedialWall=0 mris->useRealRAS=0 8 non-cortical segments detected only using segment with 8217 vertices erasing segment 0 (vno[0] = 26984) erasing segment 1 (vno[0] = 35917) erasing segment 3 (vno[0] = 40376) erasing segment 4 (vno[0] = 76207) erasing segment 5 (vno[0] = 92249) erasing segment 6 (vno[0] = 92797) erasing segment 7 (vno[0] = 92872) @#@FSTIME 2023:08:16:09:25:15 mri_label2label N 5 e 14.43 S 0.18 U 14.25 P 99% M 323456 F 0 R 95626 W 0 c 77 w 3 I 0 O 10488 L 3.67 4.54 4.55 @#@FSLOADPOST 2023:08:16:09:25:29 mri_label2label N 5 3.60 4.48 4.53 #-------------------------------------------- #@# CortexLabel rh Wed 16 Aug 09:25:29 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 0 ../label/rh.cortex.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 13 non-cortical segments detected only using segment with 8994 vertices erasing segment 1 (vno[0] = 32649) erasing segment 2 (vno[0] = 40103) erasing segment 3 (vno[0] = 43612) erasing segment 4 (vno[0] = 44379) erasing segment 5 (vno[0] = 72052) erasing segment 6 (vno[0] = 74207) erasing segment 7 (vno[0] = 85398) erasing segment 8 (vno[0] = 86019) erasing segment 9 (vno[0] = 87197) erasing segment 10 (vno[0] = 87794) erasing segment 11 (vno[0] = 111257) erasing segment 12 (vno[0] = 117580) @#@FSTIME 2023:08:16:09:25:29 mri_label2label N 5 e 15.58 S 0.17 U 15.40 P 99% M 341148 F 0 R 99454 W 0 c 183 w 1 I 0 O 9920 L 3.60 4.48 4.53 @#@FSLOADPOST 2023:08:16:09:25:45 mri_label2label N 5 3.70 4.45 4.52 #-------------------------------------------- #@# CortexLabel+HipAmyg rh Wed 16 Aug 09:25:45 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 1 ../label/rh.cortex+hipamyg.label /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Generating cortex label... RemoveHipAmgy=1 NucAccIsMedialWall=0 mris->useRealRAS=0 13 non-cortical segments detected only using segment with 7654 vertices erasing segment 1 (vno[0] = 32649) erasing segment 2 (vno[0] = 40103) erasing segment 3 (vno[0] = 43612) erasing segment 4 (vno[0] = 44379) erasing segment 5 (vno[0] = 72052) erasing segment 6 (vno[0] = 74207) erasing segment 7 (vno[0] = 85398) erasing segment 8 (vno[0] = 86019) erasing segment 9 (vno[0] = 87197) erasing segment 10 (vno[0] = 87794) erasing segment 11 (vno[0] = 111257) erasing segment 12 (vno[0] = 117580) @#@FSTIME 2023:08:16:09:25:45 mri_label2label N 5 e 15.35 S 0.18 U 15.16 P 99% M 341108 F 0 R 99471 W 0 c 45 w 1 I 0 O 10032 L 3.70 4.45 4.52 @#@FSLOADPOST 2023:08:16:09:26:00 mri_label2label N 5 3.91 4.46 4.52 #-------------------------------------------- #@# Smooth2 lh Wed 16 Aug 09:26:00 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:08:16:09:26:00 mris_smooth N 7 e 3.24 S 0.13 U 3.11 P 99% M 197812 F 0 R 59540 W 0 c 15 w 1 I 0 O 9048 L 3.91 4.46 4.52 @#@FSLOADPOST 2023:08:16:09:26:04 mris_smooth N 7 3.99 4.47 4.52 #-------------------------------------------- #@# Smooth2 rh Wed 16 Aug 09:26:04 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:08:16:09:26:04 mris_smooth N 7 e 3.12 S 0.14 U 2.97 P 99% M 193108 F 0 R 58081 W 0 c 95 w 1 I 0 O 8824 L 3.99 4.47 4.52 @#@FSLOADPOST 2023:08:16:09:26:07 mris_smooth N 7 4.07 4.48 4.53 #-------------------------------------------- #@# Inflation2 lh Wed 16 Aug 09:26:07 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_inflate ../surf/lh.smoothwm ../surf/lh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ../surf/lh.smoothwm avg radius = 47.7 mm, total surface area = 79443 mm^2 step 000: RMS=0.168 (target=0.015) step 005: RMS=0.114 (target=0.015) step 010: RMS=0.085 (target=0.015) step 015: RMS=0.071 (target=0.015) step 020: RMS=0.057 (target=0.015) step 025: RMS=0.048 (target=0.015) step 030: RMS=0.040 (target=0.015) step 035: RMS=0.033 (target=0.015) step 040: RMS=0.028 (target=0.015) step 045: RMS=0.024 (target=0.015) step 050: RMS=0.022 (target=0.015) step 055: RMS=0.020 (target=0.015) step 060: RMS=0.019 (target=0.015) writing inflated surface to ../surf/lh.inflated writing sulcal depths to ../surf/lh.sulc inflation complete. inflation took 0.4 minutes mris_inflate utimesec 23.900478 mris_inflate stimesec 0.967857 mris_inflate ru_maxrss 198336 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 506170 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 10056 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 1 mris_inflate ru_nivcsw 183 @#@FSTIME 2023:08:16:09:26:07 mris_inflate N 2 e 24.89 S 0.98 U 23.90 P 99% M 198336 F 0 R 506173 W 0 c 183 w 2 I 0 O 10056 L 4.07 4.48 4.53 @#@FSLOADPOST 2023:08:16:09:26:32 mris_inflate N 2 4.03 4.44 4.51 #-------------------------------------------- #@# Inflation2 rh Wed 16 Aug 09:26:32 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_inflate ../surf/rh.smoothwm ../surf/rh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Reading ../surf/rh.smoothwm avg radius = 47.0 mm, total surface area = 78775 mm^2 step 000: RMS=0.171 (target=0.015) step 005: RMS=0.118 (target=0.015) step 010: RMS=0.089 (target=0.015) step 015: RMS=0.074 (target=0.015) step 020: RMS=0.060 (target=0.015) step 025: RMS=0.050 (target=0.015) step 030: RMS=0.042 (target=0.015) step 035: RMS=0.036 (target=0.015) step 040: RMS=0.031 (target=0.015) step 045: RMS=0.027 (target=0.015) step 050: RMS=0.024 (target=0.015) step 055: RMS=0.022 (target=0.015) step 060: RMS=0.021 (target=0.015) writing inflated surface to ../surf/rh.inflated writing sulcal depths to ../surf/rh.sulc inflation complete. inflation took 0.4 minutes mris_inflate utimesec 22.123776 mris_inflate stimesec 0.083968 mris_inflate ru_maxrss 194284 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 51875 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 9808 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 608 @#@FSTIME 2023:08:16:09:26:32 mris_inflate N 2 e 22.24 S 0.09 U 22.12 P 99% M 194696 F 0 R 51878 W 0 c 608 w 1 I 0 O 9808 L 4.03 4.44 4.51 @#@FSLOADPOST 2023:08:16:09:26:54 mris_inflate N 2 4.26 4.46 4.52 #-------------------------------------------- #@# Curv .H and .K lh Wed 16 Aug 09:26:54 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature -w -seed 1234 lh.white.preaparc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 total integrated curvature = 14.497*4pi (182.172) --> -13 handles ICI = 150.2, FI = 1373.2, variation=22123.535 writing Gaussian curvature to ./lh.white.preaparc.K...done. writing mean curvature to ./lh.white.preaparc.H...done. @#@FSTIME 2023:08:16:09:26:54 mris_curvature N 4 e 1.77 S 0.08 U 1.69 P 99% M 147580 F 0 R 40234 W 0 c 26 w 1 I 0 O 2016 L 4.26 4.46 4.52 @#@FSLOADPOST 2023:08:16:09:26:56 mris_curvature N 4 4.26 4.46 4.52 rm -f lh.white.H ln -s lh.white.preaparc.H lh.white.H rm -f lh.white.K ln -s lh.white.preaparc.K lh.white.K mris_curvature -seed 1234 -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 148 vertices thresholded to be in k1 ~ [-0.77 0.47], k2 ~ [-0.11 0.09] total integrated curvature = 0.585*4pi (7.346) --> 0 handles ICI = 1.5, FI = 8.4, variation=148.121 105 vertices thresholded to be in [-0.03 0.02] writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 106 vertices thresholded to be in [-0.22 0.20] done. writing mean curvature to ./lh.inflated.H...curvature mean = -0.017, std = 0.022 done. @#@FSTIME 2023:08:16:09:26:56 mris_curvature N 12 e 51.72 S 0.19 U 51.52 P 99% M 348496 F 0 R 90605 W 0 c 384 w 1 I 0 O 2016 L 4.26 4.46 4.52 @#@FSLOADPOST 2023:08:16:09:27:48 mris_curvature N 12 4.58 4.55 4.54 #-------------------------------------------- #@# Curv .H and .K rh Wed 16 Aug 09:27:48 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature -w -seed 1234 rh.white.preaparc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 total integrated curvature = 4.586*4pi (57.625) --> -4 handles ICI = 149.9, FI = 1433.6, variation=23059.026 writing Gaussian curvature to ./rh.white.preaparc.K...done. writing mean curvature to ./rh.white.preaparc.H...done. @#@FSTIME 2023:08:16:09:27:48 mris_curvature N 4 e 1.60 S 0.08 U 1.51 P 99% M 144244 F 0 R 39257 W 0 c 17 w 0 I 0 O 1968 L 4.58 4.55 4.54 @#@FSLOADPOST 2023:08:16:09:27:49 mris_curvature N 4 4.58 4.55 4.54 rm -f rh.white.H ln -s rh.white.preaparc.H rh.white.H rm -f rh.white.K ln -s rh.white.preaparc.K rh.white.K mris_curvature -seed 1234 -thresh .999 -n -a 5 -w -distances 10 10 rh.inflated /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 190 vertices thresholded to be in k1 ~ [-0.20 0.96], k2 ~ [-0.11 0.08] total integrated curvature = 0.547*4pi (6.879) --> 0 handles ICI = 1.5, FI = 8.2, variation=145.548 90 vertices thresholded to be in [-0.01 0.01] writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 101 vertices thresholded to be in [-0.12 0.30] done. writing mean curvature to ./rh.inflated.H...curvature mean = -0.017, std = 0.022 done. @#@FSTIME 2023:08:16:09:27:49 mris_curvature N 12 e 58.51 S 0.32 U 58.18 P 99% M 339964 F 0 R 88355 W 0 c 414 w 1 I 0 O 1968 L 4.58 4.55 4.54 @#@FSLOADPOST 2023:08:16:09:28:48 mris_curvature N 12 5.41 4.80 4.63 #-------------------------------------------- #@# Sphere lh Wed 16 Aug 09:28:48 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_sphere -seed 1234 ../surf/lh.inflated ../surf/lh.sphere /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 version: 7.3.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.313... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 1234 singular matrix in quadratic form -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %19.78 pass 1: epoch 2 of 3 starting distance error %19.75 unfolding complete - removing small folds... starting distance error %19.71 removing remaining folds... final distance error %19.71 MRISunfold() return, current seed 1234 -01: dt=0.0000, 203 negative triangles VmPeak 523688 107: dt=0.9900, 203 negative triangles 108: dt=0.9900, 107 negative triangles 109: dt=0.9900, 78 negative triangles 110: dt=0.9900, 75 negative triangles 111: dt=0.9900, 80 negative triangles 112: dt=0.9900, 69 negative triangles 113: dt=0.9900, 74 negative triangles 114: dt=0.9900, 72 negative triangles 115: dt=0.9900, 70 negative triangles 116: dt=0.9900, 68 negative triangles 117: dt=0.9900, 62 negative triangles 118: dt=0.9900, 65 negative triangles 119: dt=0.9900, 57 negative triangles 120: dt=0.9900, 61 negative triangles 121: dt=0.9900, 60 negative triangles 122: dt=0.9900, 55 negative triangles 123: dt=0.9900, 58 negative triangles 124: dt=0.9900, 52 negative triangles 125: dt=0.9900, 47 negative triangles 126: dt=0.9900, 46 negative triangles 127: dt=0.9900, 45 negative triangles 128: dt=0.9900, 43 negative triangles 129: dt=0.9900, 40 negative triangles 130: dt=0.9900, 44 negative triangles 131: dt=0.9900, 39 negative triangles 132: dt=0.9900, 40 negative triangles 133: dt=0.9900, 38 negative triangles 134: dt=0.9900, 39 negative triangles 135: dt=0.9900, 35 negative triangles 136: dt=0.9900, 34 negative triangles 137: dt=0.9900, 35 negative triangles 138: dt=0.9900, 35 negative triangles 139: dt=0.9900, 36 negative triangles 140: dt=0.9900, 34 negative triangles 141: dt=0.9900, 34 negative triangles 142: dt=0.9900, 31 negative triangles 143: dt=0.9900, 30 negative triangles 144: dt=0.9900, 25 negative triangles 145: dt=0.9900, 28 negative triangles 146: dt=0.9900, 26 negative triangles 147: dt=0.9900, 31 negative triangles 148: dt=0.9900, 20 negative triangles 149: dt=0.9900, 20 negative triangles 150: dt=0.9900, 20 negative triangles 151: dt=0.9900, 18 negative triangles 152: dt=0.9900, 17 negative triangles 153: dt=0.9900, 12 negative triangles 154: dt=0.9900, 11 negative triangles 155: dt=0.9900, 10 negative triangles 156: dt=0.9900, 14 negative triangles 157: dt=0.9900, 11 negative triangles 158: dt=0.9900, 11 negative triangles 159: dt=0.9900, 13 negative triangles 160: dt=0.9900, 11 negative triangles 161: dt=0.9900, 10 negative triangles 162: dt=0.9900, 12 negative triangles 163: dt=0.9900, 8 negative triangles 164: dt=0.9900, 9 negative triangles 165: dt=0.9900, 12 negative triangles 166: dt=0.9900, 9 negative triangles 167: dt=0.9900, 10 negative triangles 168: dt=0.9900, 4 negative triangles 169: dt=0.9900, 9 negative triangles 170: dt=0.9900, 5 negative triangles 171: dt=0.9900, 6 negative triangles 172: dt=0.9900, 6 negative triangles 173: dt=0.9900, 4 negative triangles 174: dt=0.9900, 4 negative triangles 175: dt=0.9900, 3 negative triangles 176: dt=0.9900, 3 negative triangles 177: dt=0.9900, 3 negative triangles writing spherical brain to ../surf/lh.sphere spherical transformation took 0.2134 hours FSRUNTIME@ mris_sphere 0.2134 hours 1 threads #VMPC# mris_sphere VmPeak 523688 mris_sphere done @#@FSTIME 2023:08:16:09:28:48 mris_sphere N 4 e 768.13 S 20.26 U 747.51 P 99% M 264500 F 0 R 8710073 W 0 c 7777 w 5 I 0 O 9048 L 5.41 4.80 4.63 @#@FSLOADPOST 2023:08:16:09:41:36 mris_sphere N 4 6.06 6.12 5.59 #-------------------------------------------- #@# Sphere rh Wed 16 Aug 09:41:36 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_sphere -seed 1234 ../surf/rh.inflated ../surf/rh.sphere /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number genererator to 1234 version: 7.3.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.315... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 1234 singular matrix in quadratic form -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %20.86 pass 1: epoch 2 of 3 starting distance error %20.83 unfolding complete - removing small folds... starting distance error %20.75 removing remaining folds... final distance error %20.79 MRISunfold() return, current seed 1234 -01: dt=0.0000, 58 negative triangles VmPeak 517284 184: dt=0.9900, 58 negative triangles 185: dt=0.9900, 38 negative triangles 186: dt=0.9900, 23 negative triangles 187: dt=0.9900, 22 negative triangles 188: dt=0.9900, 29 negative triangles 189: dt=0.9900, 20 negative triangles 190: dt=0.9900, 19 negative triangles 191: dt=0.9900, 18 negative triangles 192: dt=0.9900, 14 negative triangles 193: dt=0.9900, 13 negative triangles 194: dt=0.9900, 18 negative triangles 195: dt=0.9900, 13 negative triangles 196: dt=0.9900, 12 negative triangles 197: dt=0.9900, 15 negative triangles 198: dt=0.9900, 11 negative triangles 199: dt=0.9900, 11 negative triangles 200: dt=0.9900, 15 negative triangles 201: dt=0.9900, 11 negative triangles 202: dt=0.9900, 11 negative triangles 203: dt=0.9900, 15 negative triangles 204: dt=0.9900, 10 negative triangles 205: dt=0.9900, 12 negative triangles 206: dt=0.9900, 10 negative triangles 207: dt=0.9900, 16 negative triangles 208: dt=0.9900, 10 negative triangles 209: dt=0.9900, 8 negative triangles 210: dt=0.9900, 6 negative triangles 211: dt=0.9900, 5 negative triangles 212: dt=0.9900, 5 negative triangles 213: dt=0.9900, 6 negative triangles 214: dt=0.9900, 7 negative triangles 215: dt=0.9900, 4 negative triangles 216: dt=0.9900, 1 negative triangles 217: dt=0.9900, 2 negative triangles 218: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 0.1842 hours FSRUNTIME@ mris_sphere 0.1842 hours 1 threads #VMPC# mris_sphere VmPeak 517284 mris_sphere done @#@FSTIME 2023:08:16:09:41:36 mris_sphere N 4 e 663.10 S 22.34 U 640.49 P 99% M 258432 F 0 R 13253272 W 0 c 8915 w 5 I 0 O 8824 L 6.06 6.12 5.59 @#@FSLOADPOST 2023:08:16:09:52:39 mris_sphere N 4 2.45 4.11 4.95 #-------------------------------------------- #@# Surf Reg lh Wed 16 Aug 09:52:39 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_register -curv ../surf/lh.sphere /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) using smoothwm curvature for final alignment cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts cmdline mris_register -curv ../surf/lh.sphere /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.3.1 7.3.1 reading surface from ../surf/lh.sphere... reading template parameterization from /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height -1.000000 momentum 0.950000 nbhd_size -10 max_nbrs 10 niterations 25 nsurfaces 0 SURFACES 3 flags 16 (10) use curv 16 no sulc 0 no rigid align 0 mris->nsize 1 mris->hemisphere 0 randomSeed 0 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization -------------------- 1 Reading lh.sulc tol=1.0e+00, sigma=0.5, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000 using quadratic fit line minimization curvature mean = -0.000, std = 5.458 curvature mean = 0.035, std = 0.822 curvature mean = 0.017, std = 0.868 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (8.50, 0.50, -9.00) sse = 162899.9, elapsed since starting=0.3630 min MRISrigidBodyAlignGlobal() done 0.36 min curvature mean = 0.007, std = 0.846 curvature mean = 0.008, std = 0.952 curvature mean = 0.005, std = 0.857 curvature mean = 0.003, std = 0.981 curvature mean = 0.004, std = 0.860 curvature mean = 0.001, std = 0.993 2 Reading smoothwm curvature mean = -0.022, std = 0.266 curvature mean = 0.039, std = 0.251 curvature mean = 0.071, std = 0.359 curvature mean = 0.035, std = 0.309 curvature mean = 0.034, std = 0.564 curvature mean = 0.033, std = 0.337 curvature mean = 0.017, std = 0.707 curvature mean = 0.033, std = 0.350 curvature mean = 0.005, std = 0.816 MRISregister() return, current seed 0 writing registered surface to ../surf/lh.sphere.reg... -01: dt=0.0000, 0 negative triangles VmPeak 509200 registration took 0.11 hours #VMPC# mris_register VmPeak 509200 FSRUNTIME@ mris_register 0.1106 hours 1 threads @#@FSTIME 2023:08:16:09:52:39 mris_register N 4 e 398.16 S 10.15 U 387.98 P 99% M 250628 F 0 R 5959217 W 0 c 1388 w 5 I 0 O 9048 L 2.45 4.11 4.95 @#@FSLOADPOST 2023:08:16:09:59:17 mris_register N 4 2.11 2.62 3.93 ln -sf lh.sphere.reg lh.fsaverage.sphere.reg #-------------------------------------------- #@# Surf Reg rh Wed 16 Aug 09:59:17 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_register -curv ../surf/rh.sphere /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) using smoothwm curvature for final alignment cwd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts cmdline mris_register -curv ../surf/rh.sphere /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.3.1 7.3.1 reading surface from ../surf/rh.sphere... reading template parameterization from /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height -1.000000 momentum 0.950000 nbhd_size -10 max_nbrs 10 niterations 25 nsurfaces 0 SURFACES 3 flags 16 (10) use curv 16 no sulc 0 no rigid align 0 mris->nsize 1 mris->hemisphere 1 randomSeed 0 tol=5.0e-01, sigma=0.0, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization -------------------- 1 Reading rh.sulc tol=1.0e+00, sigma=0.5, host=rosal, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000 using quadratic fit line minimization curvature mean = 0.000, std = 5.399 curvature mean = 0.024, std = 0.806 curvature mean = 0.012, std = 0.868 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (12.00, -2.50, -3.50) sse = 187732.1, elapsed since starting=0.3654 min MRISrigidBodyAlignGlobal() done 0.37 min curvature mean = 0.008, std = 0.822 curvature mean = 0.006, std = 0.950 curvature mean = 0.005, std = 0.833 curvature mean = 0.002, std = 0.980 curvature mean = 0.003, std = 0.836 curvature mean = 0.000, std = 0.992 2 Reading smoothwm curvature mean = -0.022, std = 0.275 curvature mean = 0.034, std = 0.241 curvature mean = 0.060, std = 0.361 curvature mean = 0.032, std = 0.301 curvature mean = 0.035, std = 0.550 curvature mean = 0.031, std = 0.329 curvature mean = 0.018, std = 0.688 curvature mean = 0.030, std = 0.342 curvature mean = 0.005, std = 0.796 MRISregister() return, current seed 0 -01: dt=0.0000, 47 negative triangles VmPeak 504432 112: dt=0.9900, 47 negative triangles expanding nbhd size to 1 113: dt=0.9900, 47 negative triangles 114: dt=0.9900, 37 negative triangles 115: dt=0.9900, 30 negative triangles 116: dt=0.9900, 28 negative triangles 117: dt=0.9900, 26 negative triangles 118: dt=0.9900, 26 negative triangles 119: dt=0.9900, 25 negative triangles 120: dt=0.9900, 25 negative triangles 121: dt=0.9900, 23 negative triangles 122: dt=0.9900, 19 negative triangles 123: dt=0.9900, 18 negative triangles 124: dt=0.9900, 18 negative triangles 125: dt=0.9900, 14 negative triangles 126: dt=0.9900, 12 negative triangles 127: dt=0.9900, 13 negative triangles 128: dt=0.9900, 12 negative triangles 129: dt=0.9900, 12 negative triangles 130: dt=0.9900, 10 negative triangles 131: dt=0.9900, 10 negative triangles 132: dt=0.9900, 10 negative triangles 133: dt=0.9900, 9 negative triangles 134: dt=0.9900, 9 negative triangles 135: dt=0.9900, 9 negative triangles 136: dt=0.9900, 9 negative triangles 137: dt=0.9900, 9 negative triangles 138: dt=0.9900, 9 negative triangles 139: dt=0.9900, 9 negative triangles 140: dt=0.9900, 9 negative triangles 141: dt=0.9900, 9 negative triangles 142: dt=0.9900, 9 negative triangles 143: dt=0.9405, 9 negative triangles 144: dt=0.9405, 9 negative triangles 145: dt=0.9405, 9 negative triangles 146: dt=0.9405, 8 negative triangles 147: dt=0.9405, 8 negative triangles 148: dt=0.9405, 8 negative triangles 149: dt=0.9405, 7 negative triangles 150: dt=0.9405, 7 negative triangles 151: dt=0.9405, 7 negative triangles 152: dt=0.9405, 6 negative triangles 153: dt=0.9405, 6 negative triangles 154: dt=0.9405, 6 negative triangles 155: dt=0.9405, 6 negative triangles 156: dt=0.9405, 5 negative triangles 157: dt=0.9405, 5 negative triangles 158: dt=0.9405, 5 negative triangles 159: dt=0.9405, 4 negative triangles 160: dt=0.9405, 4 negative triangles 161: dt=0.9405, 4 negative triangles 162: dt=0.9405, 4 negative triangles 163: dt=0.9405, 4 negative triangles 164: dt=0.9405, 3 negative triangles 165: dt=0.9405, 3 negative triangles 166: dt=0.9405, 3 negative triangles 167: dt=0.9405, 3 negative triangles 168: dt=0.9405, 3 negative triangles 169: dt=0.9405, 3 negative triangles 170: dt=0.9405, 2 negative triangles 171: dt=0.9405, 1 negative triangles 172: dt=0.9405, 1 negative triangles writing registered surface to ../surf/rh.sphere.reg... registration took 0.13 hours #VMPC# mris_register VmPeak 504432 FSRUNTIME@ mris_register 0.1285 hours 1 threads @#@FSTIME 2023:08:16:09:59:17 mris_register N 4 e 462.56 S 13.25 U 449.27 P 99% M 245996 F 0 R 8017840 W 0 c 2007 w 5 I 0 O 8824 L 2.11 2.62 3.93 @#@FSLOADPOST 2023:08:16:10:07:00 mris_register N 4 2.01 2.18 3.19 ln -sf rh.sphere.reg rh.fsaverage.sphere.reg #-------------------------------------------- #@# Jacobian white lh Wed 16 Aug 10:07:00 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading surface from ../surf/lh.white.preaparc... writing curvature file ../surf/lh.jacobian_white @#@FSTIME 2023:08:16:10:07:00 mris_jacobian N 3 e 1.18 S 0.10 U 1.08 P 99% M 197588 F 0 R 59532 W 0 c 5 w 1 I 0 O 1008 L 2.01 2.18 3.19 @#@FSLOADPOST 2023:08:16:10:07:01 mris_jacobian N 3 2.01 2.18 3.19 #-------------------------------------------- #@# Jacobian white rh Wed 16 Aug 10:07:01 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading surface from ../surf/rh.white.preaparc... writing curvature file ../surf/rh.jacobian_white @#@FSTIME 2023:08:16:10:07:01 mris_jacobian N 3 e 1.18 S 0.10 U 1.08 P 99% M 192592 F 0 R 58049 W 0 c 10 w 1 I 0 O 984 L 2.01 2.18 3.19 @#@FSLOADPOST 2023:08:16:10:07:02 mris_jacobian N 3 2.01 2.18 3.19 #-------------------------------------------- #@# AvgCurv lh Wed 16 Aug 10:07:03 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mrisp_paint -a 5 /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) averaging curvature patterns 5 times... reading surface from ../surf/lh.sphere.reg... reading template parameterization from /home/rosalia/software/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/lh.avg_curv... @#@FSTIME 2023:08:16:10:07:03 mrisp_paint N 5 e 0.88 S 0.07 U 0.80 P 99% M 152432 F 0 R 41514 W 0 c 4 w 1 I 0 O 1008 L 2.01 2.18 3.19 @#@FSLOADPOST 2023:08:16:10:07:03 mrisp_paint N 5 2.09 2.19 3.19 #-------------------------------------------- #@# AvgCurv rh Wed 16 Aug 10:07:03 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mrisp_paint -a 5 /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) averaging curvature patterns 5 times... reading surface from ../surf/rh.sphere.reg... reading template parameterization from /home/rosalia/software/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/rh.avg_curv... @#@FSTIME 2023:08:16:10:07:03 mrisp_paint N 5 e 0.85 S 0.07 U 0.77 P 99% M 148948 F 0 R 40509 W 0 c 5 w 1 I 0 O 984 L 2.09 2.19 3.19 @#@FSLOADPOST 2023:08:16:10:07:04 mrisp_paint N 5 2.09 2.19 3.19 #----------------------------------------- #@# Cortical Parc lh Wed 16 Aug 10:07:04 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL lh ../surf/lh.sphere.reg /home/rosalia/software/freesurfer/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.8 using min determinant for regularization = 0.006 0 singular and 342 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1430 labels changed using aseg relabeling using gibbs priors... 000: 2996 changed, 128566 examined... 001: 685 changed, 12497 examined... 002: 185 changed, 3797 examined... 003: 52 changed, 1142 examined... 004: 23 changed, 345 examined... 005: 10 changed, 148 examined... 006: 4 changed, 54 examined... 007: 3 changed, 23 examined... 008: 0 changed, 15 examined... 294 labels changed using aseg 000: 122 total segments, 82 labels (293 vertices) changed 001: 41 total segments, 2 labels (3 vertices) changed 002: 39 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 3 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1686 vertices marked for relabeling... 1686 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 10 seconds. @#@FSTIME 2023:08:16:10:07:04 mris_ca_label N 11 e 10.39 S 0.63 U 9.75 P 100% M 1211452 F 0 R 418488 W 0 c 35 w 0 I 0 O 2016 L 2.09 2.19 3.19 @#@FSLOADPOST 2023:08:16:10:07:15 mris_ca_label N 11 2.08 2.18 3.18 #----------------------------------------- #@# Cortical Parc rh Wed 16 Aug 10:07:15 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL rh ../surf/rh.sphere.reg /home/rosalia/software/freesurfer/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.7 using min determinant for regularization = 0.004 0 singular and 309 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1383 labels changed using aseg relabeling using gibbs priors... 000: 2675 changed, 125360 examined... 001: 585 changed, 11611 examined... 002: 123 changed, 3312 examined... 003: 39 changed, 749 examined... 004: 12 changed, 245 examined... 005: 3 changed, 71 examined... 006: 2 changed, 19 examined... 007: 0 changed, 15 examined... 231 labels changed using aseg 000: 100 total segments, 57 labels (196 vertices) changed 001: 46 total segments, 6 labels (16 vertices) changed 002: 40 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 1 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1621 vertices marked for relabeling... 1621 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 10 seconds. @#@FSTIME 2023:08:16:10:07:15 mris_ca_label N 11 e 9.94 S 0.67 U 9.26 P 99% M 1095276 F 0 R 390464 W 0 c 24 w 1 I 0 O 1968 L 2.08 2.18 3.18 @#@FSLOADPOST 2023:08:16:10:07:25 mris_ca_label N 11 2.14 2.19 3.17 #-------------------------------------------- #@# WhiteSurfs lh Wed 16 Aug 10:07:25 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white.preaparc --o ../surf/lh.white --white --nsmooth 0 --rip-label ../label/lh.cortex.label --rip-bg --rip-surf ../surf/lh.white.preaparc --aparc ../label/lh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white.preaparc --o ../surf/lh.white --white --nsmooth 0 --rip-label ../label/lh.cortex.label --rip-bg --rip-surf ../surf/lh.white.preaparc --aparc ../label/lh.aparc.annot Reading in input surface ../surf/lh.white.preaparc Not smoothing input surface Area 257128 0.34032 0.13148 0.000464 1.7070 Corner 771384 60.00000 15.68085 0.522054 177.4071 Edge 385692 0.90018 0.21742 0.007876 3.1990 Hinge 385692 11.18123 12.98158 0.000016 179.9673 Reading in aparc ../label/lh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 MRIfindBrightNonWM(): 8146 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex.label MRISripNotLabel() ripped 10011/128566 vertices (118555 unripped) Reading in ripping surface ../surf/lh.white.preaparc Reading in aparc ../label/lh.aparc.annot for ripsurf Ripping BG MRISripBasalGanglia(): 1 -2 2 0.5 ripped 500 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 64283: xyz = (-41.7201,-8.80207,35.746) oxyz = (-41.7201,-8.80207,35.746) wxzy = (-41.7201,-8.80207,35.746) pxyz = (0,0,0) CBVO Creating mask 128566 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=2 had to be increased for 157 vertices, nripped=10511 mean border=77.9, 403 (403) missing vertices, mean dist 0.3 [1.9 (%16.1)->0.7 (%83.9))] %19 local maxima, %72 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1439 min Finding expansion regions mean absolute distance = 0.86 +- 1.18 4587 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=1803980.6, rms=8.279 001: dt: 0.5000, sse=801377.7, rms=5.127 (38.069%) 002: dt: 0.5000, sse=523908.4, rms=3.810 (25.687%) 003: dt: 0.5000, sse=474559.8, rms=3.530 (7.361%) 004: dt: 0.5000, sse=437097.4, rms=3.282 (7.013%) rms = 3.3894/3.2822, sse=453488.4/437097.4, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 005: dt: 0.2500, sse=303950.7, rms=2.256 (31.258%) 006: dt: 0.2500, sse=259279.7, rms=1.776 (21.294%) 007: dt: 0.2500, sse=250411.9, rms=1.655 (6.822%) 008: dt: 0.2500, sse=246365.2, rms=1.599 (3.385%) rms = 1.5695/1.5986, sse=244421.3/246365.2, time step reduction 2 of 3 to 0.125 0 0 1 009: dt: 0.2500, sse=244421.3, rms=1.570 (1.821%) 010: dt: 0.1250, sse=235161.4, rms=1.437 (8.464%) rms = 1.4061/1.4367, sse=233346.6/235161.4, time step reduction 3 of 3 to 0.062 0 0 1 011: dt: 0.1250, sse=233346.6, rms=1.406 (2.131%) maximum number of reductions reached, breaking from loop positioning took 1.1 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=1 had to be increased for 137 vertices, nripped=10511 mean border=80.1, 312 (234) missing vertices, mean dist -0.3 [0.6 (%58.5)->0.3 (%41.5))] %33 local maxima, %58 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1104 min Finding expansion regions mean absolute distance = 0.46 +- 0.87 4423 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=569649.2, rms=3.962 012: dt: 0.5000, sse=404742.1, rms=2.941 (25.758%) rms = 2.9538/2.9414, sse=404363.4/404742.1, time step reduction 1 of 3 to 0.250 0 0 1 RMS increased, rejecting step 013: dt: 0.2500, sse=320062.1, rms=2.254 (23.356%) 014: dt: 0.2500, sse=271369.2, rms=1.734 (23.097%) 015: dt: 0.2500, sse=254266.8, rms=1.508 (13.011%) 016: dt: 0.2500, sse=248200.5, rms=1.411 (6.446%) rms = 1.3659/1.4109, sse=245575.2/248200.5, time step reduction 2 of 3 to 0.125 0 0 1 017: dt: 0.2500, sse=245575.2, rms=1.366 (3.190%) 018: dt: 0.1250, sse=235077.4, rms=1.199 (12.240%) rms = 1.1594/1.1987, sse=232981.3/235077.4, time step reduction 3 of 3 to 0.062 0 0 1 019: dt: 0.1250, sse=232981.3, rms=1.159 (3.275%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 167 vertices, nripped=10511 mean border=83.1, 297 (200) missing vertices, mean dist -0.2 [0.4 (%69.1)->0.2 (%30.9))] %57 local maxima, %34 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0642 min Finding expansion regions mean absolute distance = 0.36 +- 0.53 3630 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=614930.7, rms=4.215 020: dt: 0.5000, sse=396858.7, rms=2.881 (31.638%) rms = 2.9453/2.8813, sse=405272.2/396858.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 021: dt: 0.2500, sse=295249.0, rms=2.007 (30.342%) 022: dt: 0.2500, sse=251600.9, rms=1.463 (27.096%) 023: dt: 0.2500, sse=245829.8, rms=1.353 (7.545%) 024: dt: 0.2500, sse=240216.2, rms=1.266 (6.451%) rms = 1.3185/1.2656, sse=243863.7/240216.2, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step 025: dt: 0.1250, sse=235663.4, rms=1.187 (6.205%) 026: dt: 0.1250, sse=230388.8, rms=1.081 (8.936%) rms = 1.0513/1.0810, sse=228994.3/230388.8, time step reduction 3 of 3 to 0.062 0 0 1 027: dt: 0.1250, sse=228994.3, rms=1.051 (2.744%) maximum number of reductions reached, breaking from loop positioning took 0.9 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 108.0739440; border_low = 64.0000000; outside_low = 51.3762550; outside_hi = 108.0739440; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 228 vertices, nripped=10511 mean border=84.5, 317 (177) missing vertices, mean dist -0.1 [0.3 (%59.9)->0.2 (%40.1))] %69 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0426 min Finding expansion regions mean absolute distance = 0.27 +- 0.40 2842 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=304470.0, rms=2.129 rms = 2.3518/2.1294, sse=345429.0/304470.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=244323.1, rms=1.388 (34.825%) 029: dt: 0.2500, sse=229633.7, rms=1.028 (25.963%) rms = 1.1089/1.0275, sse=235595.8/229633.7, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step 030: dt: 0.1250, sse=225664.5, rms=0.944 (8.154%) 031: dt: 0.1250, sse=222580.0, rms=0.831 (11.992%) rms = 0.8176/0.8306, sse=222761.0/222580.0, time step reduction 3 of 3 to 0.062 0 1 1 032: dt: 0.1250, sse=222761.0, rms=0.818 (1.562%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes Writing output to ../surf/lh.white #ET# mris_place_surface 3.79 minutes #VMPC# mris_place_surfaces VmPeak 2071104 mris_place_surface done @#@FSTIME 2023:08:16:10:07:25 mris_place_surface N 25 e 235.73 S 0.86 U 234.87 P 99% M 1812748 F 0 R 491123 W 0 c 700 w 5 I 0 O 9048 L 2.14 2.19 3.17 @#@FSLOADPOST 2023:08:16:10:11:21 mris_place_surface N 25 2.17 2.15 2.93 #-------------------------------------------- #@# WhiteSurfs rh Wed 16 Aug 10:11:21 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white.preaparc --o ../surf/rh.white --white --nsmooth 0 --rip-label ../label/rh.cortex.label --rip-bg --rip-surf ../surf/rh.white.preaparc --aparc ../label/rh.aparc.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white.preaparc --o ../surf/rh.white --white --nsmooth 0 --rip-label ../label/rh.cortex.label --rip-bg --rip-surf ../surf/rh.white.preaparc --aparc ../label/rh.aparc.annot Reading in input surface ../surf/rh.white.preaparc Not smoothing input surface Area 250716 0.34728 0.14759 0.000136 3.0446 Corner 752148 60.00000 16.52923 0.395834 178.6848 Edge 376074 0.91105 0.23934 0.020933 4.5417 Hinge 376074 11.50467 13.97427 0.000036 179.9357 Reading in aparc ../label/rh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 MRIfindBrightNonWM(): 8146 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex.label MRISripNotLabel() ripped 9221/125360 vertices (116139 unripped) Reading in ripping surface ../surf/rh.white.preaparc Reading in aparc ../label/rh.aparc.annot for ripsurf Ripping BG MRISripBasalGanglia(): 1 -2 2 0.5 ripped 634 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 62680: xyz = (59.4132,-1.47822,4.49754) oxyz = (59.4132,-1.47822,4.49754) wxzy = (59.4132,-1.47822,4.49754) pxyz = (0,0,0) CBVO Creating mask 125360 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=2 had to be increased for 420 vertices, nripped=9855 mean border=76.9, 751 (751) missing vertices, mean dist 0.2 [1.9 (%15.9)->0.6 (%84.1))] %20 local maxima, %71 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1477 min Finding expansion regions mean absolute distance = 0.85 +- 1.19 4342 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=4, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=1938646.0, rms=8.681 001: dt: 0.5000, sse=930972.8, rms=5.629 (35.156%) 002: dt: 0.5000, sse=673335.5, rms=4.467 (20.651%) 003: dt: 0.5000, sse=624557.2, rms=4.273 (4.328%) 004: dt: 0.5000, sse=575669.2, rms=4.008 (6.212%) rms = 4.1268/4.0078, sse=592090.2/575669.2, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 005: dt: 0.2500, sse=431109.4, rms=3.155 (21.281%) 006: dt: 0.2500, sse=390692.9, rms=2.809 (10.951%) 007: dt: 0.2500, sse=376068.4, rms=2.738 (2.543%) 008: dt: 0.2500, sse=367596.2, rms=2.645 (3.409%) rms = 2.6306/2.6446, sse=367516.0/367596.2, time step reduction 2 of 3 to 0.125 0 0 1 009: dt: 0.2500, sse=367516.0, rms=2.631 (0.527%) 010: dt: 0.1250, sse=353507.6, rms=2.530 (3.834%) rms = 2.5104/2.5298, sse=349169.8/353507.6, time step reduction 3 of 3 to 0.062 0 0 1 011: dt: 0.1250, sse=349169.8, rms=2.510 (0.765%) maximum number of reductions reached, breaking from loop positioning took 1.1 minutes Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=1 had to be increased for 270 vertices, nripped=9855 mean border=79.2, 637 (414) missing vertices, mean dist -0.3 [0.6 (%59.7)->0.3 (%40.3))] %34 local maxima, %57 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1106 min Finding expansion regions mean absolute distance = 0.45 +- 0.87 4340 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=2, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=699039.7, rms=4.574 012: dt: 0.5000, sse=555934.9, rms=3.681 (19.508%) rms = 3.6669/3.6814, sse=531854.9/555934.9, time step reduction 1 of 3 to 0.250 0 0 1 013: dt: 0.5000, sse=531854.9, rms=3.667 (0.394%) 014: dt: 0.2500, sse=397752.2, rms=2.752 (24.945%) 015: dt: 0.2500, sse=387457.3, rms=2.548 (7.413%) rms = 2.5045/2.5481, sse=384139.7/387457.3, time step reduction 2 of 3 to 0.125 0 0 1 016: dt: 0.2500, sse=384139.7, rms=2.504 (1.715%) 017: dt: 0.1250, sse=369029.2, rms=2.336 (6.744%) rms = 2.2932/2.3355, sse=366176.8/369029.1, time step reduction 3 of 3 to 0.062 0 0 1 018: dt: 0.1250, sse=366176.8, rms=2.293 (1.814%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 283 vertices, nripped=9855 mean border=82.2, 638 (349) missing vertices, mean dist -0.2 [0.4 (%69.1)->0.2 (%30.9))] %58 local maxima, %34 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0641 min Finding expansion regions mean absolute distance = 0.35 +- 0.53 3272 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=1, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=725887.4, rms=4.594 019: dt: 0.5000, sse=540744.8, rms=3.559 (22.526%) rms = 3.6755/3.5595, sse=549563.8/540744.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 020: dt: 0.2500, sse=422363.5, rms=2.806 (21.168%) 021: dt: 0.2500, sse=400246.8, rms=2.466 (12.115%) 022: dt: 0.2500, sse=369691.7, rms=2.392 (3.014%) rms = 2.3792/2.3918, sse=363995.1/369691.7, time step reduction 2 of 3 to 0.125 0 0 1 023: dt: 0.2500, sse=363995.1, rms=2.379 (0.523%) 024: dt: 0.1250, sse=347354.0, rms=2.233 (6.158%) rms = 2.1930/2.2327, sse=348914.8/347354.0, time step reduction 3 of 3 to 0.062 0 1 1 025: dt: 0.1250, sse=348914.8, rms=2.193 (1.780%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0739440; border_low = 63.0000000; outside_low = 50.3762550; outside_hi = 109.0739440; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 314 vertices, nripped=9855 mean border=83.5, 713 (328) missing vertices, mean dist -0.1 [0.3 (%59.5)->0.2 (%40.5))] %69 local maxima, %22 large gradients and % 1 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0415 min Finding expansion regions mean absolute distance = 0.27 +- 0.41 2745 vertices more than 2 sigmas from mean. Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 5, l_surf_repulse = 0, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=0, nbrs=2, l_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=419514.1, rms=2.846 rms = 3.1998/2.8456, sse=472345.9/419514.1, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 026: dt: 0.2500, sse=347487.6, rms=2.303 (19.064%) rms = 2.1523/2.3031, sse=350157.6/347487.6, time step reduction 2 of 3 to 0.125 0 1 0 027: dt: 0.2500, sse=350157.6, rms=2.152 (6.546%) 028: dt: 0.1250, sse=323323.7, rms=2.041 (5.184%) rms = 2.0051/2.0408, sse=318117.0/323323.7, time step reduction 3 of 3 to 0.062 0 0 1 029: dt: 0.1250, sse=318117.0, rms=2.005 (1.746%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Writing output to ../surf/rh.white #ET# mris_place_surface 3.29 minutes #VMPC# mris_place_surfaces VmPeak 1954540 mris_place_surface done @#@FSTIME 2023:08:16:10:11:21 mris_place_surface N 25 e 205.84 S 0.77 U 205.04 P 99% M 1696132 F 0 R 460942 W 0 c 1006 w 5 I 0 O 8824 L 2.17 2.15 2.93 @#@FSLOADPOST 2023:08:16:10:14:46 mris_place_surface N 25 2.18 2.17 2.78 #-------------------------------------------- #@# T1PialSurf lh Wed 16 Aug 10:14:46 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white --o ../surf/lh.pial.T1 --pial --nsmooth 0 --rip-label ../label/lh.cortex+hipamyg.label --pin-medial-wall ../label/lh.cortex.label --aparc ../label/lh.aparc.annot --repulse-surf ../surf/lh.white --white-surf ../surf/lh.white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.lh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --lh --i ../surf/lh.white --o ../surf/lh.pial.T1 --pial --nsmooth 0 --rip-label ../label/lh.cortex+hipamyg.label --pin-medial-wall ../label/lh.cortex.label --aparc ../label/lh.aparc.annot --repulse-surf ../surf/lh.white --white-surf ../surf/lh.white Reading in input surface ../surf/lh.white Not smoothing input surface Area 257128 0.34290 0.14545 0.000070 2.0007 Corner 771384 60.00000 17.08069 0.051459 178.9435 Edge 385692 0.90525 0.23646 0.010834 3.5824 Hinge 385692 11.37573 13.45148 0.000005 179.9892 Reading white surface coordinates from ../surf/lh.white Reading repulsion surface coordinates from ../surf/lh.white Reading in aparc ../label/lh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 MRIfindBrightNonWM(): 8146 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 58.0274 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex+hipamyg.label MRISripNotLabel() ripped 8435/128566 vertices (120131 unripped) INFO: rip surface needed but not specified, so using input surface Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 64283: xyz = (-41.7578,-8.76063,35.8089) oxyz = (-41.7578,-8.76063,35.8089) wxzy = (-41.7578,-8.76063,35.8089) pxyz = (-41.7578,-8.76063,35.8089) CBVO Creating mask 128566 n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 89.9260560; border_hi = 51.3762550; border_low = 26.1287610; outside_low = 10.0000000; outside_hi = 45.0643840; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=2 had to be increased for 265 vertices, nripped=8435 mean border=46.5, 464 (464) missing vertices, mean dist 1.7 [0.0 (%0.0)->2.1 (%100.0))] %20 local maxima, %55 large gradients and %18 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1205 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 000: dt: 0.0000, sse=35940628.0, rms=38.651 001: dt: 0.5000, sse=26757996.0, rms=33.320 (13.793%) 002: dt: 0.5000, sse=19523520.0, rms=28.423 (14.695%) 003: dt: 0.5000, sse=14174134.0, rms=24.172 (14.956%) 004: dt: 0.5000, sse=10489628.0, rms=20.743 (14.188%) 005: dt: 0.5000, sse=8088119.5, rms=18.162 (12.441%) 006: dt: 0.5000, sse=6096979.5, rms=15.704 (13.536%) 007: dt: 0.5000, sse=4549575.0, rms=13.486 (14.120%) 008: dt: 0.5000, sse=3277323.8, rms=11.341 (15.904%) 009: dt: 0.5000, sse=2475025.2, rms=9.749 (14.045%) 010: dt: 0.5000, sse=1902530.0, rms=8.428 (13.543%) 011: dt: 0.5000, sse=1662735.2, rms=7.808 (7.360%) 012: dt: 0.5000, sse=1469794.1, rms=7.269 (6.900%) 013: dt: 0.5000, sse=1436111.6, rms=7.169 (1.375%) 014: dt: 0.5000, sse=1344716.8, rms=6.894 (3.835%) rms = 6.9384/6.8943, sse=1359943.9/1344716.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 015: dt: 0.2500, sse=885230.4, rms=5.309 (22.993%) 016: dt: 0.2500, sse=780163.1, rms=4.873 (8.220%) 017: dt: 0.2500, sse=767400.2, rms=4.816 (1.174%) rms = 4.7767/4.8155, sse=758714.0/767400.2, time step reduction 2 of 3 to 0.125 0 0 1 018: dt: 0.2500, sse=758714.1, rms=4.777 (0.807%) 019: dt: 0.1250, sse=597146.2, rms=4.001 (16.235%) 020: dt: 0.1250, sse=567428.9, rms=3.842 (3.977%) rms = 3.7947/3.8421, sse=558927.6/567428.9, time step reduction 3 of 3 to 0.062 0 0 1 021: dt: 0.1250, sse=558927.6, rms=3.795 (1.233%) maximum number of reductions reached, breaking from loop positioning took 1.8 minutes Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 89.9260560; border_hi = 51.3762550; border_low = 26.1287610; outside_low = 10.0000000; outside_hi = 45.0643840; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=1 had to be increased for 1714 vertices, nripped=8435 mean border=44.0, 520 (111) missing vertices, mean dist 0.1 [0.1 (%55.5)->0.4 (%44.5))] %33 local maxima, %41 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0410 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=977084.8, rms=5.475 rms = 6.8306/5.4748, sse=1378566.1/977084.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 022: dt: 0.2500, sse=777053.8, rms=4.649 (15.085%) 023: dt: 0.2500, sse=733491.5, rms=4.448 (4.326%) rms = 4.4458/4.4479, sse=732561.6/733491.5, time step reduction 2 of 3 to 0.125 0 0 1 024: dt: 0.2500, sse=732561.6, rms=4.446 (0.046%) 025: dt: 0.1250, sse=639818.8, rms=3.984 (10.398%) 026: dt: 0.1250, sse=615081.8, rms=3.852 (3.314%) rms = 3.8035/3.8515, sse=606347.7/615081.8, time step reduction 3 of 3 to 0.062 0 0 1 027: dt: 0.1250, sse=606347.7, rms=3.803 (1.247%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 89.9260560; border_hi = 51.3762550; border_low = 26.1287610; outside_low = 10.0000000; outside_hi = 45.0643840; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 1906 vertices, nripped=8435 mean border=42.0, 606 (70) missing vertices, mean dist 0.1 [0.1 (%50.7)->0.3 (%49.3))] %44 local maxima, %29 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0256 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=759425.0, rms=4.550 rms = 6.4888/4.5500, sse=1274176.6/759425.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=638839.3, rms=3.956 (13.046%) rms = 3.9246/3.9564, sse=632817.8/638839.3, time step reduction 2 of 3 to 0.125 0 0 1 029: dt: 0.2500, sse=632817.8, rms=3.925 (0.805%) 030: dt: 0.1250, sse=589975.4, rms=3.689 (6.005%) 031: dt: 0.1250, sse=573931.2, rms=3.598 (2.472%) rms = 3.5689/3.5978, sse=568871.8/573931.2, time step reduction 3 of 3 to 0.062 0 0 1 032: dt: 0.1250, sse=568871.8, rms=3.569 (0.803%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 3 ========================================= n_averages=2, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 89.9260560; border_hi = 51.3762550; border_low = 26.1287610; outside_low = 10.0000000; outside_hi = 45.0643840; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=128566 Gdiag_no=-1 vno start=0, stop=128566 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 1411 vertices, nripped=8435 mean border=40.7, 1292 (58) missing vertices, mean dist 0.0 [0.1 (%55.2)->0.3 (%44.8))] %47 local maxima, %26 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0182 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=633168.2, rms=3.926 rms = 5.8764/3.9263, sse=1091990.0/633168.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 033: dt: 0.2500, sse=569146.8, rms=3.568 (9.121%) rms = 3.5865/3.5681, sse=571685.7/569146.8, time step reduction 2 of 3 to 0.125 0 1 1 RMS increased, rejecting step rms = 3.5200/3.5681, sse=560971.8/569146.8, time step reduction 3 of 3 to 0.062 0 0 1 034: dt: 0.1250, sse=560971.8, rms=3.520 (1.349%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes Pinning medial wall to white surface removing intersecting faces 000: 21 intersecting 001: 3 intersecting step 1 with no progress (num=8, old_num=3) 002: 8 intersecting 003: 7 intersecting terminating search with 0 intersecting Writing output to ../surf/lh.pial.T1 #ET# mris_place_surface 3.54 minutes #VMPC# mris_place_surfaces VmPeak 1318132 mris_place_surface done @#@FSTIME 2023:08:16:10:14:46 mris_place_surface N 28 e 220.58 S 0.54 U 220.01 P 99% M 1059864 F 0 R 285872 W 0 c 1072 w 3 I 0 O 9048 L 2.18 2.17 2.78 @#@FSLOADPOST 2023:08:16:10:18:27 mris_place_surface N 28 2.34 2.26 2.68 #-------------------------------------------- #@# T1PialSurf rh Wed 16 Aug 10:18:27 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white --o ../surf/rh.pial.T1 --pial --nsmooth 0 --rip-label ../label/rh.cortex+hipamyg.label --pin-medial-wall ../label/rh.cortex.label --aparc ../label/rh.aparc.annot --repulse-surf ../surf/rh.white --white-surf ../surf/rh.white /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 7.3.1 7.3.1 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI mris_place_surface --adgws-in ../surf/autodet.gw.stats.rh.dat --seg aseg.presurf.mgz --threads 1 --wm wm.mgz --invol brain.finalsurfs.mgz --rh --i ../surf/rh.white --o ../surf/rh.pial.T1 --pial --nsmooth 0 --rip-label ../label/rh.cortex+hipamyg.label --pin-medial-wall ../label/rh.cortex.label --aparc ../label/rh.aparc.annot --repulse-surf ../surf/rh.white --white-surf ../surf/rh.white Reading in input surface ../surf/rh.white Not smoothing input surface Area 250716 0.34987 0.16217 0.000136 6.1466 Corner 752148 60.00000 17.65169 0.241103 178.7720 Edge 376074 0.91573 0.25594 0.021610 4.5862 Hinge 376074 11.62128 14.16505 0.000011 179.9960 Reading white surface coordinates from ../surf/rh.white Reading repulsion surface coordinates from ../surf/rh.white Reading in aparc ../label/rh.aparc.annot Reading in input volume brain.finalsurfs.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=27531, wmmin=5, clip=110 MRIfindBrightNonWM(): 8146 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 58.0274 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Reading in seg volume aseg.presurf.mgz Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex+hipamyg.label MRISripNotLabel() ripped 7881/125360 vertices (117479 unripped) INFO: rip surface needed but not specified, so using input surface Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 62680: xyz = (59.411,-1.52052,4.52353) oxyz = (59.411,-1.52052,4.52353) wxzy = (59.411,-1.52052,4.52353) pxyz = (59.411,-1.52052,4.52353) CBVO Creating mask 125360 n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.9260560; border_hi = 50.3762550; border_low = 25.1287610; outside_low = 10.0000000; outside_hi = 44.0643840; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=2 had to be increased for 404 vertices, nripped=7881 mean border=45.8, 748 (748) missing vertices, mean dist 1.7 [1.4 (%0.0)->2.1 (%100.0))] %18 local maxima, %58 large gradients and %17 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1216 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=2.0, host=rosal, nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 100 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 0 000: dt: 0.0000, sse=34642764.0, rms=38.416 001: dt: 0.5000, sse=25471792.0, rms=32.908 (14.337%) 002: dt: 0.5000, sse=18323986.0, rms=27.870 (15.310%) 003: dt: 0.5000, sse=13101673.0, rms=23.515 (15.626%) 004: dt: 0.5000, sse=9575075.0, rms=20.045 (14.757%) 005: dt: 0.5000, sse=7336185.5, rms=17.488 (12.755%) 006: dt: 0.5000, sse=5567956.5, rms=15.167 (13.274%) 007: dt: 0.5000, sse=4204854.0, rms=13.099 (13.636%) 008: dt: 0.5000, sse=3086317.5, rms=11.116 (15.135%) 009: dt: 0.5000, sse=2375575.0, rms=9.646 (13.222%) 010: dt: 0.5000, sse=1881019.5, rms=8.473 (12.160%) 011: dt: 0.5000, sse=1668725.0, rms=7.915 (6.586%) 012: dt: 0.5000, sse=1494522.1, rms=7.426 (6.187%) 013: dt: 0.5000, sse=1454522.5, rms=7.306 (1.609%) 014: dt: 0.5000, sse=1373017.0, rms=7.060 (3.369%) rms = 7.0399/7.0601, sse=1367087.6/1373017.0, time step reduction 1 of 3 to 0.250 0 0 1 015: dt: 0.5000, sse=1367087.6, rms=7.040 (0.287%) 016: dt: 0.2500, sse=903031.4, rms=5.430 (22.865%) 017: dt: 0.2500, sse=796709.3, rms=4.991 (8.084%) rms = 4.9564/4.9913, sse=789031.0/796709.3, time step reduction 2 of 3 to 0.125 0 0 1 018: dt: 0.2500, sse=789031.0, rms=4.956 (0.698%) 019: dt: 0.1250, sse=650160.9, rms=4.309 (13.059%) 020: dt: 0.1250, sse=624869.8, rms=4.181 (2.974%) rms = 4.1427/4.1810, sse=617538.5/624869.7, time step reduction 3 of 3 to 0.062 0 0 1 021: dt: 0.1250, sse=617538.4, rms=4.143 (0.915%) maximum number of reductions reached, breaking from loop positioning took 1.8 minutes Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.9260560; border_hi = 50.3762550; border_low = 25.1287610; outside_low = 10.0000000; outside_hi = 44.0643840; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=1 had to be increased for 1848 vertices, nripped=7881 mean border=43.7, 847 (192) missing vertices, mean dist 0.1 [0.1 (%57.0)->0.4 (%43.0))] %32 local maxima, %43 large gradients and %18 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0455 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=1.0, host=rosal, nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=985799.0, rms=5.555 rms = 6.6100/5.5552, sse=1287277.8/985799.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 022: dt: 0.2500, sse=809854.6, rms=4.831 (13.041%) 023: dt: 0.2500, sse=759510.3, rms=4.603 (4.724%) rms = 4.5737/4.6026, sse=752793.9/759510.3, time step reduction 2 of 3 to 0.125 0 0 1 024: dt: 0.2500, sse=752793.9, rms=4.574 (0.626%) 025: dt: 0.1250, sse=675606.3, rms=4.195 (8.274%) 026: dt: 0.1250, sse=653007.6, rms=4.079 (2.782%) rms = 4.0420/4.0786, sse=646050.2/653007.6, time step reduction 3 of 3 to 0.062 0 0 1 027: dt: 0.1250, sse=646050.2, rms=4.042 (0.896%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.9260560; border_hi = 50.3762550; border_low = 25.1287610; outside_low = 10.0000000; outside_hi = 44.0643840; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 1971 vertices, nripped=7881 mean border=41.8, 876 (103) missing vertices, mean dist 0.1 [0.1 (%51.1)->0.3 (%48.9))] %44 local maxima, %30 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0253 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.5, host=rosal, nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=785654.6, rms=4.703 rms = 6.4253/4.7027, sse=1236058.3/785654.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=675680.1, rms=4.172 (11.282%) rms = 4.1319/4.1721, sse=667681.5/675680.2, time step reduction 2 of 3 to 0.125 0 0 1 029: dt: 0.2500, sse=667681.5, rms=4.132 (0.964%) 030: dt: 0.1250, sse=634242.1, rms=3.955 (4.287%) 031: dt: 0.1250, sse=618801.4, rms=3.871 (2.106%) rms = 3.8390/3.8715, sse=612808.8/618801.4, time step reduction 3 of 3 to 0.062 0 0 1 032: dt: 0.1250, sse=612808.9, rms=3.839 (0.838%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes Iteration 3 ========================================= n_averages=2, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 90.9260560; border_hi = 50.3762550; border_low = 25.1287610; outside_low = 10.0000000; outside_hi = 44.0643840; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=125360 Gdiag_no=-1 vno start=0, stop=125360 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 1504 vertices, nripped=7881 mean border=40.5, 1466 (76) missing vertices, mean dist 0.0 [0.1 (%55.0)->0.3 (%45.0))] %48 local maxima, %26 large gradients and %19 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0176 min Averaging target values for 5 iterations... Positioning Surface: tspring = 0.3, nspring = 0.3, spring = 0, niters = 100 l_repulse = 0, l_surf_repulse = 5, checktol = 0 Positioning pial surface Entering MRISpositionSurface() max_mm = 0.3 MAX_REDUCTIONS = 2, REDUCTION_PCT = 0.5 parms->check_tol = 0, niterations = 100 tol=1.0e-04, sigma=0.2, host=rosal, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=0.300, l_nspring=0.300, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 000: dt: 0.0000, sse=671431.9, rms=4.150 rms = 5.9330/4.1500, sse=1093192.9/671432.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 033: dt: 0.2500, sse=606323.4, rms=3.799 (8.458%) rms = 3.7773/3.7990, sse=601770.0/606323.4, time step reduction 2 of 3 to 0.125 0 0 1 034: dt: 0.2500, sse=601770.0, rms=3.777 (0.572%) 035: dt: 0.1250, sse=576069.5, rms=3.629 (3.931%) 036: dt: 0.1250, sse=561880.1, rms=3.546 (2.285%) rms = 3.5187/3.5459, sse=557157.1/561880.1, time step reduction 3 of 3 to 0.062 0 0 1 037: dt: 0.1250, sse=557157.1, rms=3.519 (0.766%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes Pinning medial wall to white surface removing intersecting faces 000: 15 intersecting step 1 with no progress (num=28, old_num=15) 001: 28 intersecting terminating search with 0 intersecting Writing output to ../surf/rh.pial.T1 #ET# mris_place_surface 3.56 minutes #VMPC# mris_place_surfaces VmPeak 1303600 mris_place_surface done @#@FSTIME 2023:08:16:10:18:27 mris_place_surface N 28 e 221.82 S 0.83 U 220.97 P 99% M 1045028 F 0 R 281673 W 0 c 986 w 1 I 0 O 8824 L 2.34 2.26 2.68 @#@FSLOADPOST 2023:08:16:10:22:09 mris_place_surface N 28 2.86 2.67 2.77 #@# white curv lh Wed 16 Aug 10:22:09 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/lh.white, nbrs 2, curvature_avgs 10 writing curvature file ../surf/lh.curv @#@FSTIME 2023:08:16:10:22:09 mris_place_surface N 5 e 1.92 S 0.11 U 1.80 P 99% M 177232 F 0 R 47704 W 0 c 12 w 1 I 0 O 1008 L 2.86 2.67 2.77 @#@FSLOADPOST 2023:08:16:10:22:11 mris_place_surface N 5 3.11 2.73 2.79 #@# white area lh Wed 16 Aug 10:22:11 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/lh.area @#@FSTIME 2023:08:16:10:22:11 mris_place_surface N 3 e 0.94 S 0.08 U 0.85 P 99% M 177092 F 0 R 47702 W 0 c 5 w 1 I 0 O 1008 L 3.11 2.73 2.79 @#@FSLOADPOST 2023:08:16:10:22:12 mris_place_surface N 3 3.11 2.73 2.79 #@# pial curv lh Wed 16 Aug 10:22:12 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/lh.pial, nbrs 2, curvature_avgs 10 writing curvature file ../surf/lh.curv.pial @#@FSTIME 2023:08:16:10:22:12 mris_place_surface N 5 e 2.11 S 0.10 U 2.01 P 99% M 177184 F 0 R 47705 W 0 c 11 w 1 I 0 O 1008 L 3.11 2.73 2.79 @#@FSLOADPOST 2023:08:16:10:22:14 mris_place_surface N 5 3.11 2.73 2.79 #@# pial area lh Wed 16 Aug 10:22:14 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/lh.area.pial @#@FSTIME 2023:08:16:10:22:14 mris_place_surface N 3 e 0.91 S 0.09 U 0.82 P 99% M 177184 F 0 R 47703 W 0 c 14 w 1 I 0 O 1008 L 3.02 2.71 2.78 @#@FSLOADPOST 2023:08:16:10:22:15 mris_place_surface N 3 3.02 2.71 2.78 #@# thickness lh Wed 16 Aug 10:22:15 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 0 of 128566 vertices processed 25000 of 128566 vertices processed 50000 of 128566 vertices processed 75000 of 128566 vertices processed 100000 of 128566 vertices processed 125000 of 128566 vertices processed 0 of 128566 vertices processed 25000 of 128566 vertices processed 50000 of 128566 vertices processed 75000 of 128566 vertices processed 100000 of 128566 vertices processed 125000 of 128566 vertices processed thickness calculation complete, 113:411 truncations. 84445 vertices at 0 distance 116392 vertices at 1 distance 41929 vertices at 2 distance 10411 vertices at 3 distance 2576 vertices at 4 distance 706 vertices at 5 distance 268 vertices at 6 distance 129 vertices at 7 distance 88 vertices at 8 distance 60 vertices at 9 distance 43 vertices at 10 distance 30 vertices at 11 distance 16 vertices at 12 distance 16 vertices at 13 distance 12 vertices at 14 distance 3 vertices at 15 distance 3 vertices at 16 distance 1 vertices at 17 distance 2 vertices at 18 distance 0 vertices at 19 distance 2 vertices at 20 distance writing curvature file ../surf/lh.thickness @#@FSTIME 2023:08:16:10:22:15 mris_place_surface N 6 e 33.70 S 0.10 U 33.60 P 99% M 177212 F 0 R 54482 W 0 c 93 w 1 I 0 O 1008 L 3.02 2.71 2.78 @#@FSLOADPOST 2023:08:16:10:22:49 mris_place_surface N 6 3.09 2.76 2.80 #@# area and vertex vol lh Wed 16 Aug 10:22:49 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_calc -o lh.area.mid lh.area add lh.area.pial Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o lh.area.mid lh.area.mid div 2 Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume sub-073_ses-BSL lh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.volume masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Total face volume 191134 Total vertex volume 190923 (mask=0) #@# sub-073_ses-BSL lh 190923 vertexvol Done @#@FSTIME 2023:08:16:10:22:49 vertexvol N 4 e 1.81 S 0.18 U 1.62 P 99% M 294220 F 0 R 83654 W 0 c 46 w 22 I 0 O 3024 L 3.09 2.76 2.80 @#@FSLOADPOST 2023:08:16:10:22:51 vertexvol N 4 3.41 2.83 2.82 #@# white curv rh Wed 16 Aug 10:22:51 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/rh.white, nbrs 2, curvature_avgs 10 writing curvature file ../surf/rh.curv @#@FSTIME 2023:08:16:10:22:51 mris_place_surface N 5 e 1.81 S 0.08 U 1.73 P 100% M 172820 F 0 R 46512 W 0 c 11 w 1 I 8 O 984 L 3.41 2.83 2.82 @#@FSLOADPOST 2023:08:16:10:22:52 mris_place_surface N 5 3.41 2.83 2.82 #@# white area rh Wed 16 Aug 10:22:52 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/rh.area @#@FSTIME 2023:08:16:10:22:52 mris_place_surface N 3 e 0.91 S 0.11 U 0.79 P 99% M 172768 F 0 R 46513 W 0 c 6 w 1 I 0 O 984 L 3.41 2.83 2.82 @#@FSLOADPOST 2023:08:16:10:22:53 mris_place_surface N 3 3.41 2.83 2.82 #@# pial curv rh Wed 16 Aug 10:22:53 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) insurf ../surf/rh.pial, nbrs 2, curvature_avgs 10 writing curvature file ../surf/rh.curv.pial @#@FSTIME 2023:08:16:10:22:53 mris_place_surface N 5 e 2.11 S 0.06 U 2.04 P 99% M 172824 F 0 R 46510 W 0 c 37 w 1 I 0 O 984 L 3.41 2.83 2.82 @#@FSLOADPOST 2023:08:16:10:22:56 mris_place_surface N 5 3.62 2.88 2.84 #@# pial area rh Wed 16 Aug 10:22:56 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) writing curvature file ../surf/rh.area.pial @#@FSTIME 2023:08:16:10:22:56 mris_place_surface N 3 e 0.89 S 0.09 U 0.79 P 99% M 172888 F 0 R 46515 W 0 c 9 w 1 I 0 O 984 L 3.62 2.88 2.84 @#@FSLOADPOST 2023:08:16:10:22:56 mris_place_surface N 3 3.62 2.88 2.84 #@# thickness rh Wed 16 Aug 10:22:56 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) 0 of 125360 vertices processed 25000 of 125360 vertices processed 50000 of 125360 vertices processed 75000 of 125360 vertices processed 100000 of 125360 vertices processed 125000 of 125360 vertices processed 0 of 125360 vertices processed 25000 of 125360 vertices processed 50000 of 125360 vertices processed 75000 of 125360 vertices processed 100000 of 125360 vertices processed 125000 of 125360 vertices processed thickness calculation complete, 51:344 truncations. 82304 vertices at 0 distance 113444 vertices at 1 distance 40515 vertices at 2 distance 10281 vertices at 3 distance 2613 vertices at 4 distance 813 vertices at 5 distance 330 vertices at 6 distance 148 vertices at 7 distance 73 vertices at 8 distance 58 vertices at 9 distance 34 vertices at 10 distance 34 vertices at 11 distance 26 vertices at 12 distance 9 vertices at 13 distance 8 vertices at 14 distance 3 vertices at 15 distance 7 vertices at 16 distance 3 vertices at 17 distance 5 vertices at 18 distance 6 vertices at 19 distance 6 vertices at 20 distance writing curvature file ../surf/rh.thickness @#@FSTIME 2023:08:16:10:22:57 mris_place_surface N 6 e 34.48 S 0.12 U 34.34 P 99% M 172856 F 0 R 53122 W 0 c 651 w 2 I 8 O 984 L 3.62 2.88 2.84 @#@FSLOADPOST 2023:08:16:10:23:31 mris_place_surface N 6 4.11 3.09 2.91 #@# area and vertex vol rh Wed 16 Aug 10:23:31 CEST 2023 cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_calc -o rh.area.mid rh.area add rh.area.pial Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o rh.area.mid rh.area.mid div 2 Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume sub-073_ses-BSL rh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.volume masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Total face volume 189730 Total vertex volume 189520 (mask=0) #@# sub-073_ses-BSL rh 189520 vertexvol Done @#@FSTIME 2023:08:16:10:23:31 vertexvol N 4 e 1.83 S 0.17 U 1.66 P 99% M 287132 F 0 R 81640 W 0 c 13 w 23 I 8 O 2952 L 4.11 3.09 2.91 @#@FSLOADPOST 2023:08:16:10:23:33 vertexvol N 4 4.11 3.09 2.91 #----------------------------------------- #@# Curvature Stats lh Wed 16 Aug 10:23:33 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm sub-073_ses-BSL lh curv sulc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/lh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ sub-073_ses-BSL/lh.smoothwm ] Reading surface... [ ok ] Setting texture [ curv ] Reading texture... [ ok ] Setting texture [ sulc ] Reading texture...Gb_filter = 0 [ ok ] Calculating Discrete Principal Curvatures... Determining geometric order for vno faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 225 ] Gb_filter = 0 WARN: S lookup min: -0.124942 WARN: S explicit min: 0.000000 vertex = 179 @#@FSTIME 2023:08:16:10:23:33 mris_curvature_stats N 11 e 2.62 S 0.09 U 2.52 P 99% M 177404 F 0 R 47904 W 0 c 60 w 3 I 16 O 8104 L 4.11 3.09 2.91 @#@FSLOADPOST 2023:08:16:10:23:36 mris_curvature_stats N 11 4.34 3.15 2.93 #----------------------------------------- #@# Curvature Stats rh Wed 16 Aug 10:23:36 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm sub-073_ses-BSL rh curv sulc /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/rh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ sub-073_ses-BSL/rh.smoothwm ] Reading surface... [ ok ] Setting texture [ curv ] Reading texture... [ ok ] Setting texture [ sulc ] Reading texture...Gb_filter = 0 [ ok ] Calculating Discrete Principal Curvatures... Determining geometric order for vno faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 229 ] Gb_filter = 0 WARN: S lookup min: -0.023793 WARN: S explicit min: 0.000000 vertex = 16 @#@FSTIME 2023:08:16:10:23:36 mris_curvature_stats N 11 e 2.55 S 0.10 U 2.45 P 99% M 173008 F 0 R 46715 W 0 c 47 w 2 I 8 O 7912 L 4.34 3.15 2.93 @#@FSLOADPOST 2023:08:16:10:23:38 mris_curvature_stats N 11 4.34 3.15 2.93 #-------------------------------------------- #@# Cortical ribbon mask Wed 16 Aug 10:23:38 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mris_volmask --aseg_name aseg.presurf --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon sub-073_ses-BSL /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR is /home/rosalia/Desktop/CAN_RUTI loading input data... Running hemis serially Processing left hemi computing distance to left white surface computing distance to left pial surface Processing right hemi computing distance to right white surface computing distance to right pial surface hemi masks overlap voxels = 10 writing volume /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/ribbon.mgz mris_volmask took 9.13 minutes writing ribbon files @#@FSTIME 2023:08:16:10:23:38 mris_volmask N 12 e 548.10 S 1.01 U 546.94 P 99% M 945524 F 0 R 503849 W 0 c 4537 w 1 I 0 O 848 L 4.34 3.15 2.93 @#@FSLOADPOST 2023:08:16:10:32:46 mris_volmask N 12 5.27 4.97 3.98 #----------------------------------------- #@# Cortical Parc 2 lh Wed 16 Aug 10:32:46 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL lh ../surf/lh.sphere.reg /home/rosalia/software/freesurfer/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 3.0 using min determinant for regularization = 0.088 0 singular and 0 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 88 labels changed using aseg relabeling using gibbs priors... 000: 8400 changed, 128566 examined... 001: 1960 changed, 32581 examined... 002: 589 changed, 10359 examined... 003: 250 changed, 3390 examined... 004: 112 changed, 1441 examined... 005: 67 changed, 646 examined... 006: 45 changed, 378 examined... 007: 15 changed, 246 examined... 008: 5 changed, 97 examined... 009: 4 changed, 26 examined... 010: 1 changed, 19 examined... 011: 1 changed, 8 examined... 012: 2 changed, 7 examined... 013: 0 changed, 10 examined... 31 labels changed using aseg 000: 219 total segments, 135 labels (1629 vertices) changed 001: 86 total segments, 5 labels (180 vertices) changed 002: 81 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 26 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1143 vertices marked for relabeling... 1143 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 0 minutes and 19 seconds. @#@FSTIME 2023:08:16:10:32:46 mris_ca_label N 11 e 18.61 S 1.42 U 17.18 P 99% M 1668128 F 0 R 631056 W 0 c 173 w 1 I 0 O 2016 L 5.27 4.97 3.98 @#@FSLOADPOST 2023:08:16:10:33:05 mris_ca_label N 11 5.39 5.02 4.02 #----------------------------------------- #@# Cortical Parc 2 rh Wed 16 Aug 10:33:05 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL rh ../surf/rh.sphere.reg /home/rosalia/software/freesurfer/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.021 0 singular and 0 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 74 labels changed using aseg relabeling using gibbs priors... 000: 8405 changed, 125360 examined... 001: 1829 changed, 32845 examined... 002: 538 changed, 9803 examined... 003: 229 changed, 3196 examined... 004: 112 changed, 1313 examined... 005: 54 changed, 600 examined... 006: 36 changed, 329 examined... 007: 22 changed, 205 examined... 008: 8 changed, 119 examined... 009: 5 changed, 45 examined... 010: 1 changed, 26 examined... 011: 0 changed, 7 examined... 38 labels changed using aseg 000: 233 total segments, 144 labels (1608 vertices) changed 001: 94 total segments, 6 labels (51 vertices) changed 002: 88 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 29 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1119 vertices marked for relabeling... 1119 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 0 minutes and 19 seconds. @#@FSTIME 2023:08:16:10:33:05 mris_ca_label N 11 e 18.73 S 1.66 U 17.07 P 99% M 1702572 F 0 R 651328 W 0 c 118 w 1 I 0 O 1968 L 5.39 5.02 4.02 @#@FSLOADPOST 2023:08:16:10:33:24 mris_ca_label N 11 5.46 5.05 4.05 #----------------------------------------- #@# Cortical Parc 3 lh Wed 16 Aug 10:33:24 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL lh ../surf/lh.sphere.reg /home/rosalia/software/freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.020 0 singular and 383 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1168 labels changed using aseg relabeling using gibbs priors... 000: 1978 changed, 128566 examined... 001: 486 changed, 9003 examined... 002: 160 changed, 2744 examined... 003: 83 changed, 895 examined... 004: 59 changed, 455 examined... 005: 39 changed, 286 examined... 006: 39 changed, 204 examined... 007: 32 changed, 203 examined... 008: 24 changed, 135 examined... 009: 8 changed, 111 examined... 010: 10 changed, 58 examined... 011: 10 changed, 59 examined... 012: 6 changed, 46 examined... 013: 7 changed, 41 examined... 014: 10 changed, 41 examined... 015: 6 changed, 47 examined... 016: 3 changed, 34 examined... 017: 6 changed, 20 examined... 018: 4 changed, 25 examined... 019: 6 changed, 24 examined... 020: 9 changed, 29 examined... 021: 9 changed, 35 examined... 022: 9 changed, 43 examined... 023: 5 changed, 42 examined... 024: 7 changed, 27 examined... 025: 7 changed, 31 examined... 026: 7 changed, 36 examined... 027: 10 changed, 38 examined... 028: 7 changed, 47 examined... 029: 7 changed, 39 examined... 030: 4 changed, 35 examined... 031: 6 changed, 27 examined... 032: 6 changed, 29 examined... 033: 5 changed, 25 examined... 034: 4 changed, 21 examined... 035: 2 changed, 15 examined... 036: 1 changed, 9 examined... 037: 2 changed, 7 examined... 038: 2 changed, 11 examined... 039: 0 changed, 9 examined... 607 labels changed using aseg 000: 63 total segments, 30 labels (380 vertices) changed 001: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 2 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 684 vertices marked for relabeling... 684 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas.annot... classification took 0 minutes and 14 seconds. @#@FSTIME 2023:08:16:10:33:24 mris_ca_label N 11 e 14.30 S 0.66 U 13.63 P 99% M 957024 F 0 R 300922 W 0 c 85 w 1 I 0 O 2016 L 5.46 5.05 4.05 @#@FSLOADPOST 2023:08:16:10:33:39 mris_ca_label N 11 5.20 5.01 4.05 #----------------------------------------- #@# Cortical Parc 3 rh Wed 16 Aug 10:33:39 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-073_ses-BSL rh ../surf/rh.sphere.reg /home/rosalia/software/freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.3.1 7.3.1 reading atlas from /home/rosalia/software/freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.9 using min determinant for regularization = 0.009 0 singular and 325 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1253 labels changed using aseg relabeling using gibbs priors... 000: 1890 changed, 125360 examined... 001: 446 changed, 8772 examined... 002: 137 changed, 2483 examined... 003: 62 changed, 774 examined... 004: 28 changed, 329 examined... 005: 15 changed, 148 examined... 006: 11 changed, 72 examined... 007: 8 changed, 49 examined... 008: 4 changed, 37 examined... 009: 3 changed, 26 examined... 010: 3 changed, 18 examined... 011: 5 changed, 17 examined... 012: 6 changed, 26 examined... 013: 6 changed, 29 examined... 014: 9 changed, 27 examined... 015: 8 changed, 34 examined... 016: 5 changed, 35 examined... 017: 5 changed, 27 examined... 018: 4 changed, 18 examined... 019: 3 changed, 23 examined... 020: 1 changed, 18 examined... 021: 1 changed, 8 examined... 022: 0 changed, 7 examined... 397 labels changed using aseg 000: 63 total segments, 30 labels (111 vertices) changed 001: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 3 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 942 vertices marked for relabeling... 942 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas.annot... classification took 0 minutes and 14 seconds. @#@FSTIME 2023:08:16:10:33:39 mris_ca_label N 11 e 14.14 S 0.71 U 13.42 P 99% M 945772 F 0 R 293841 W 0 c 105 w 1 I 0 O 1968 L 5.20 5.01 4.05 @#@FSLOADPOST 2023:08:16:10:33:53 mris_ca_label N 11 5.08 4.99 4.06 #----------------------------------------- #@# WM/GM Contrast lh Wed 16 Aug 10:33:53 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts pctsurfcon --s sub-073_ses-BSL --lh-only /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Log file is /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts/pctsurfcon.log Wed 16 Aug 10:33:53 CEST 2023 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts /home/rosalia/software/freesurfer/bin/pctsurfcon pctsurfcon 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /home/rosalia/software/freesurfer mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.705179/lh.wm.mgh --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Done reading source surface Mapping Source Volume onto Source Subject Surface Projecting -1 -1 1 1 -1 -1 -1 using old Done mapping volume to surface Number of source voxels hit = 74023 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.705179/lh.wm.mgh Dim: 128566 1 1 mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.705179/lh.gm.mgh --projfrac 0.3 --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Done reading source surface Reading thickness /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.thickness Done Mapping Source Volume onto Source Subject Surface Projecting 0.3 0.3 1 1 0.3 0.3 0.3 using old Done mapping volume to surface Number of source voxels hit = 87761 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.705179/lh.gm.mgh Dim: 128566 1 1 mri_concat /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.705179/lh.wm.mgh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.705179/lh.gm.mgh --paired-diff-norm --mul 100 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh ninputs = 2 Checking inputs nframestot = 2 Allocing output Done allocing Combining pairs nframes = 1 Multiplying by 100.000000 Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh --annot sub-073_ses-BSL lh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/lh.w-g.pct.stats --snr 7.3.1 cwd cmdline mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh --annot sub-073_ses-BSL lh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/lh.w-g.pct.stats --snr sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.aparc.annot Seg base 1000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.w-g.pct.mgh Vertex Area is 0.685782 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation Reporting on 35 segmentations Using PrintSegStat mri_segstats done Cleaning up @#@FSTIME 2023:08:16:10:33:53 pctsurfcon N 3 e 5.21 S 0.49 U 4.34 P 92% M 244268 F 1 R 182090 W 0 c 80 w 71 I 48 O 3136 L 5.08 4.99 4.06 @#@FSLOADPOST 2023:08:16:10:33:58 pctsurfcon N 3 5.31 5.04 4.08 #----------------------------------------- #@# WM/GM Contrast rh Wed 16 Aug 10:33:58 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts pctsurfcon --s sub-073_ses-BSL --rh-only /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Log file is /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts/pctsurfcon.log Wed 16 Aug 10:33:58 CEST 2023 setenv SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI cd /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/scripts /home/rosalia/software/freesurfer/bin/pctsurfcon pctsurfcon 7.3.1 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /home/rosalia/software/freesurfer mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.705252/rh.wm.mgh --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Done reading source surface Mapping Source Volume onto Source Subject Surface Projecting -1 -1 1 1 -1 -1 -1 using old Done mapping volume to surface Number of source voxels hit = 72590 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.705252/rh.wm.mgh Dim: 125360 1 1 mri_vol2surf --mov /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.705252/rh.gm.mgh --projfrac 0.3 --regheader sub-073_ses-BSL --cortex srcvol = /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99103 -0.08160 0.10582 -0.00005; 0.12266 -0.24129 0.96267 0.00003; 0.05302 -0.96702 -0.24914 -0.00003; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Reading surface /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Done reading source surface Reading thickness /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.thickness Done Mapping Source Volume onto Source Subject Surface Projecting 0.3 0.3 1 1 0.3 0.3 0.3 using old Done mapping volume to surface Number of source voxels hit = 85980 Masking with /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.705252/rh.gm.mgh Dim: 125360 1 1 mri_concat /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.705252/rh.wm.mgh /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/tmp.pctsurfcon.705252/rh.gm.mgh --paired-diff-norm --mul 100 --o /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh ninputs = 2 Checking inputs nframestot = 2 Allocing output Done allocing Combining pairs nframes = 1 Multiplying by 100.000000 Writing to /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh --annot sub-073_ses-BSL rh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/rh.w-g.pct.stats --snr 7.3.1 cwd cmdline mri_segstats --in /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh --annot sub-073_ses-BSL rh aparc --sum /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/stats/rh.w-g.pct.stats --snr sysname Linux hostname rosalia-Lenovo-Y520-15IKBN machine x86_64 user rosalia whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.aparc.annot Seg base 2000 Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.w-g.pct.mgh Vertex Area is 0.699721 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation Reporting on 35 segmentations Using PrintSegStat mri_segstats done Cleaning up @#@FSTIME 2023:08:16:10:33:58 pctsurfcon N 3 e 5.75 S 0.48 U 4.64 P 89% M 240800 F 1 R 172498 W 0 c 90 w 71 I 8 O 3056 L 5.31 5.04 4.08 @#@FSLOADPOST 2023:08:16:10:34:04 pctsurfcon N 3 5.77 5.14 4.12 #----------------------------------------- #@# Relabel Hypointensities Wed 16 Aug 10:34:04 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) reading input surface ../surf/lh.white... relabeling lh hypointensities... 4565 voxels changed to hypointensity... reading input surface ../surf/rh.white... relabeling rh hypointensities... 4164 voxels changed to hypointensity... 8430 hypointense voxels neighboring cortex changed @#@FSTIME 2023:08:16:10:34:04 mri_relabel_hypointensities N 3 e 20.56 S 0.62 U 19.92 P 99% M 462276 F 0 R 330738 W 0 c 157 w 1 I 0 O 672 L 5.77 5.14 4.12 @#@FSLOADPOST 2023:08:16:10:34:25 mri_relabel_hypointensities N 3 5.67 5.17 4.15 #----------------------------------------- #@# APas-to-ASeg Wed 16 Aug 10:34:25 CEST 2023 /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri mri_surf2volseg --o aseg.mgz --i aseg.presurf.hypos.mgz --fix-presurf-with-ribbon /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/ribbon.mgz --threads 1 --lh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label --lh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white --lh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial --rh-cortex-mask /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label --rh-white /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white --rh-pial /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) SUBJECTS_DIR /home/rosalia/Desktop/CAN_RUTI outvol aseg.mgz 8 avail.processors, using 1 Loading aseg.presurf.hypos.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/mri/ribbon.mgz Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/lh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/lh.cortex.label Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.white Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/surf/rh.pial Loading /home/rosalia/Desktop/CAN_RUTI/sub-073_ses-BSL/label/rh.cortex.label Done loading 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nrelabeled = 149288 ndotcheck = 0 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 881408 mri_surf2volseg done @#@FSTIME 2023:08:16:10:34:25 mri_surf2volseg N 20 e 37.25 S 0.48 U 36.77 P 99% M 861060 F 0 R 242731 W 0 c 158 w 1 I 0 O 704 L 5.85 5.21 4.17 @#@FSLOADPOST 2023:08:16:10:35:03 mri_surf2volseg N 20 5.73 5.27 4.23 mri_brainvol_stats sub-073_ses-BSL /bin/tcsh: /home/rosalia/software/fsl/fslpython/lib/libtinfo.so.6: no version information available (required by /bin/tcsh) Command terminated by signal 11 @#@FSTIME 2023:08:16:10:35:03 mri_brainvol_stats N 1 e 6.24 S 0.35 U 5.67 P 96% M 214620 F 0 R 108243 W 0 c 29 w 6 I 4920 O 0 L 5.73 5.27 4.23 @#@FSLOADPOST 2023:08:16:10:35:09 mri_brainvol_stats N 1 5.67 5.26 4.23 Linux rosalia-Lenovo-Y520-15IKBN 5.19.0-45-generic #46~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Wed Jun 7 15:06:04 UTC 20 x86_64 x86_64 x86_64 GNU/Linux recon-all -s sub-073_ses-BSL exited with ERRORS at Wed 16 Aug 10:35:09 CEST 2023 To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting