Mon Sep 11 17:52:52 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 /usr/local/freesurfer/7.4.1/bin/recon-all -s ED751/SAG_MPRAGE_p2_NON-SS/ED751_SAG_MPRAGE_p2_NON-SSc.nii -i ED751/SAG_MPRAGE_p2_NON-SS/ED751_SAG_MPRAGE_p2_NON-SSc.nii.gz -all -qcache subjid ED751_SAG_MPRAGE_p2_NON-SSc.nii setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Actual FREESURFER_HOME /usr/local/freesurfer/7.4.1 build-stamp.txt: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 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 2021552 kbytes maxproc 62847 maxlocks unlimited maxsignal 62847 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 15Gi 3.6Gi 2.0Gi 182Mi 9.9Gi 11Gi Swap: 2.0Gi 4.0Mi 2.0Gi ######################################## program versions used 7.4.1 (freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460) 7.4.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 7.4.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 7.4.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.4.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/11-09:52:52-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-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 /usr/local/freesurfer/7.4.1/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 /usr/local/freesurfer/7.4.1/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii mri_convert /media/mt/Expansion/Disk9/EDIS_751/ED751/SAG_MPRAGE_p2_NON-SS/ED751_SAG_MPRAGE_p2_NON-SSc.nii.gz /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig/001.mgz mri_convert /media/mt/Expansion/Disk9/EDIS_751/ED751/SAG_MPRAGE_p2_NON-SS/ED751_SAG_MPRAGE_p2_NON-SSc.nii.gz /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig/001.mgz reading from /media/mt/Expansion/Disk9/EDIS_751/ED751/SAG_MPRAGE_p2_NON-SS/ED751_SAG_MPRAGE_p2_NON-SSc.nii.gz... TR=2300.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (0.990627, -0.0923706, -0.100624) j_ras = (0.0928418, 0.995681, 2.46027e-08) k_ras = (0.10019, -0.00934217, 0.994924) writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig/001.mgz... @#@FSTIME 2023:09:11:17:52:53 mri_convert N 2 e 2.48 S 0.02 U 2.45 P 99% M 31744 F 0 R 6617 W 0 c 15 w 2 I 0 O 22488 L 0.92 1.14 1.08 @#@FSLOADPOST 2023:09:11:17:52:55 mri_convert N 2 0.92 1.14 1.08 #-------------------------------------------- #@# MotionCor Mon Sep 11 17:52:55 +08 2023 Found 1 runs /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig/001.mgz /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz mri_info /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz rawavg.mgz ======================================== Volume information for /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz type: MGH dimensions: 192 x 256 x 256 voxel sizes: 1.000000, 1.000000, 1.000000 type: SHORT (4) fov: 256.000 dof: 1 xstart: -96.0, xend: 96.0 ystart: -128.0, yend: 128.0 zstart: -128.0, zend: 128.0 TR: 2300.00 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 = 0.9906, y_r = 0.0928, z_r = 0.1002, c_r = 7.0241 : x_a = -0.0924, y_a = 0.9957, z_a = -0.0093, c_a = 30.2863 : x_s = -0.1006, y_s = 0.0000, z_s = 0.9949, c_s = 6.0058 talairach xfm : Orientation : RAS Primary Slice Direction: axial voxel to ras transform: 0.9906 0.0928 0.1002 -112.7841 -0.0924 0.9957 -0.0093 -87.0975 -0.1006 0.0000 0.9949 -111.6846 0.0000 0.0000 0.0000 1.0000 voxel-to-ras determinant 1 ras to voxel transform: 0.9906 -0.0924 -0.1006 92.4436 0.0928 0.9957 0.0000 97.1924 0.1002 -0.0093 0.9949 121.6039 0.0000 0.0000 0.0000 1.0000 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii mri_convert /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz --conform mri_convert /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz --conform reading from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz... TR=2300.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (0.990627, -0.0923706, -0.100624) j_ras = (0.0928418, 0.995681, 2.46027e-08) k_ras = (0.10019, -0.00934217, 0.994924) changing data type from short to uchar (noscale = 0)... MRIchangeType: Building histogram 0 1460 1000, flo=0, fhi=0.999, dest_type=0 Reslicing using trilinear interpolation writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz... @#@FSTIME 2023:09:11:17:52:59 mri_convert N 3 e 4.30 S 0.03 U 4.25 P 99% M 44544 F 0 R 17930 W 0 c 98 w 1 I 0 O 12736 L 1.16 1.19 1.10 @#@FSLOADPOST 2023:09:11:17:53:03 mri_convert N 3 1.39 1.23 1.11 mri_add_xform_to_header -c /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/transforms/talairach.xfm /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz INFO: extension is mgz @#@FSTIME 2023:09:11:17:53:03 mri_add_xform_to_header N 4 e 1.35 S 0.00 U 1.34 P 99% M 23168 F 0 R 4566 W 0 c 20 w 0 I 0 O 12736 L 1.39 1.23 1.11 @#@FSLOADPOST 2023:09:11:17:53:04 mri_add_xform_to_header N 4 1.39 1.23 1.11 mri_info /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz orig.mgz ======================================== Volume information for /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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: 2300.00 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 = 7.0241 : x_a = 0.0000, y_a = -0.0000, z_a = 1.0000, c_a = 30.2863 : x_s = 0.0000, y_s = -1.0000, z_s = 0.0000, c_s = 6.0058 talairach xfm : /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/transforms/talairach.xfm Orientation : LIA Primary Slice Direction: coronal voxel to ras transform: -1.0000 0.0000 0.0000 135.0242 0.0000 -0.0000 1.0000 -97.7137 0.0000 -1.0000 0.0000 134.0058 0.0000 0.0000 0.0000 1.0000 voxel-to-ras determinant -1 ras to voxel transform: -1.0000 0.0000 -0.0000 135.0241 -0.0000 -0.0000 -1.0000 134.0058 0.0000 1.0000 -0.0000 97.7137 -0.0000 -0.0000 -0.0000 1.0000 #-------------------------------------------- #@# Talairach Mon Sep 11 17:53:05 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --ants-n4 --n 1 --proto-iters 1000 --distance 50 /usr/bin/bc /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri /usr/local/freesurfer/7.4.1/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 7.4.1 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux Mon Sep 11 17:53:05 +08 2023 tmpdir is ./tmp.mri_nu_correct.mni.933160 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o ./tmp.mri_nu_correct.mni.933160/nu0.mgz --dtype uchar AntsN4BiasFieldCorrectionFs done mri_convert ./tmp.mri_nu_correct.mni.933160/nu0.mgz orig_nu.mgz --like orig.mgz --conform mri_convert ./tmp.mri_nu_correct.mni.933160/nu0.mgz orig_nu.mgz --like orig.mgz --conform reading from ./tmp.mri_nu_correct.mni.933160/nu0.mgz... TR=2300.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 9.95351e-09, 0) j_ras = (7.45058e-09, -9.31323e-10, -1) k_ras = (5.06407e-09, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to orig_nu.mgz... Mon Sep 11 17:55:49 +08 2023 mri_nu_correct.mni done @#@FSTIME 2023:09:11:17:53:05 mri_nu_correct.mni N 12 e 164.35 S 0.37 U 163.18 P 99% M 504664 F 0 R 152013 W 0 c 3206 w 100 I 4 O 22408 L 1.39 1.23 1.11 @#@FSLOADPOST 2023:09:11:17:55:49 mri_nu_correct.mni N 12 4.59 2.76 1.72 talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm talairach_avi log file is transforms/talairach_avi.log... mv -f /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/talsrcimg_to_711-2C_as_mni_average_305_t4_vox2vox.txt /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/transforms/talsrcimg_to_711-2C_as_mni_average_305_t4_vox2vox.txt Started at Mon Sep 11 17:55:49 +08 2023 Ended at Mon Sep 11 17:56:13 +08 2023 talairach_avi done @#@FSTIME 2023:09:11:17:55:49 talairach_avi N 4 e 23.66 S 1.16 U 16.36 P 74% M 255232 F 1 R 398374 W 0 c 604 w 195 I 0 O 295280 L 4.59 2.76 1.72 @#@FSLOADPOST 2023:09:11:17:56:13 talairach_avi N 4 4.63 2.91 1.80 cp transforms/talairach.auto.xfm transforms/talairach.xfm lta_convert --src orig.mgz --trg /usr/local/freesurfer/7.4.1/average/mni305.cor.mgz --inxfm transforms/talairach.xfm --outlta transforms/talairach.xfm.lta --subject fsaverage --ltavox2vox 7.4.1 --src: orig.mgz src image (geometry). --trg: /usr/local/freesurfer/7.4.1/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 1.10678 -0.10510 -0.15100 0.34793; 0.21889 1.15007 0.20558 -52.03523; 0.12641 -0.18600 1.15690 -24.77525; 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 Sep 11 17:56:15 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.6541, pval=0.3663 >= threshold=0.0050) @#@FSTIME 2023:09:11:17:56:15 talairach_afd N 4 e 0.00 S 0.00 U 0.00 P 100% M 5760 F 0 R 222 W 0 c 0 w 1 I 0 O 0 L 4.63 2.91 1.80 @#@FSLOADPOST 2023:09:11:17:56:15 talairach_afd N 4 4.63 2.91 1.80 awk -f /usr/local/freesurfer/7.4.1/bin/extract_talairach_avi_QA.awk /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/transforms/talairach_avi.log tal_QC_AZS /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/transforms/talairach_avi.log TalAviQA: 0.96229 z-score: -3 #-------------------------------------------- #@# Nu Intensity Correction Mon Sep 11 17:56:15 +08 2023 mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2 --ants-n4 /usr/bin/bc /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri /usr/local/freesurfer/7.4.1/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 7.4.1 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux Mon Sep 11 17:56:15 +08 2023 tmpdir is ./tmp.mri_nu_correct.mni.934398 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o ./tmp.mri_nu_correct.mni.934398/nu0.mgz --dtype uchar AntsN4BiasFieldCorrectionFs done mri_binarize --i ./tmp.mri_nu_correct.mni.934398/nu0.mgz --min -1 --o ./tmp.mri_nu_correct.mni.934398/ones.mgz 7.4.1 cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri cmdline mri_binarize --i ./tmp.mri_nu_correct.mni.934398/nu0.mgz --min -1 --o ./tmp.mri_nu_correct.mni.934398/ones.mgz sysname Linux hostname mtubuntu machine x86_64 user mt input ./tmp.mri_nu_correct.mni.934398/nu0.mgz frame 0 nErode3d 0 nErode2d 0 output ./tmp.mri_nu_correct.mni.934398/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.934398/ones.mgz Count: 16777215 16777215.000000 16777216 99.999994 mri_binarize done mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.934398/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.934398/sum.junk --avgwf ./tmp.mri_nu_correct.mni.934398/input.mean.dat 7.4.1 cwd cmdline mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.934398/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.934398/sum.junk --avgwf ./tmp.mri_nu_correct.mni.934398/input.mean.dat sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 Loading ./tmp.mri_nu_correct.mni.934398/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.934398/input.mean.dat mri_segstats done mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.934398/ones.mgz --i ./tmp.mri_nu_correct.mni.934398/nu0.mgz --sum ./tmp.mri_nu_correct.mni.934398/sum.junk --avgwf ./tmp.mri_nu_correct.mni.934398/output.mean.dat 7.4.1 cwd cmdline mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.934398/ones.mgz --i ./tmp.mri_nu_correct.mni.934398/nu0.mgz --sum ./tmp.mri_nu_correct.mni.934398/sum.junk --avgwf ./tmp.mri_nu_correct.mni.934398/output.mean.dat sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 Loading ./tmp.mri_nu_correct.mni.934398/ones.mgz Loading ./tmp.mri_nu_correct.mni.934398/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.934398/output.mean.dat mri_segstats done mris_calc -o ./tmp.mri_nu_correct.mni.934398/nu0.mgz ./tmp.mri_nu_correct.mni.934398/nu0.mgz mul 1.26592862699424445346 Saving result to './tmp.mri_nu_correct.mni.934398/nu0.mgz' (type = MGH ) [ ok ] mri_convert ./tmp.mri_nu_correct.mni.934398/nu0.mgz nu.mgz --like orig.mgz mri_convert ./tmp.mri_nu_correct.mni.934398/nu0.mgz nu.mgz --like orig.mgz reading from ./tmp.mri_nu_correct.mni.934398/nu0.mgz... TR=2300.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 9.95351e-09, 0) j_ras = (7.45058e-09, -9.31323e-10, -1) k_ras = (5.06407e-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 5 seconds. FIRST_PERCENTILE 0.010000 WM_PERCENTILE 0.900000 MAX_R 50.000000 i1 = 1, i2 = 44 #mri_make_uchar# mapping 3 113 to 3 110 : b 0.0511627 m 0.970137 : thresh -0.0527377 maxsat 262.797 : nzero 0 nsat 243 Mon Sep 11 17:59:19 +08 2023 mri_nu_correct.mni done @#@FSTIME 2023:09:11:17:56:15 mri_nu_correct.mni N 9 e 184.02 S 1.14 U 181.69 P 99% M 613740 F 0 R 512374 W 0 c 4578 w 165 I 2 O 61992 L 4.63 2.91 1.80 @#@FSLOADPOST 2023:09:11:17:59:19 mri_nu_correct.mni N 9 5.55 3.95 2.40 mri_add_xform_to_header -c /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/transforms/talairach.xfm nu.mgz nu.mgz INFO: extension is mgz @#@FSTIME 2023:09:11:17:59:19 mri_add_xform_to_header N 4 e 1.34 S 0.10 U 1.16 P 95% M 23040 F 0 R 4568 W 0 c 195 w 11 I 0 O 10944 L 5.55 3.95 2.40 @#@FSLOADPOST 2023:09:11:17:59:20 mri_add_xform_to_header N 4 5.55 3.95 2.40 #-------------------------------------------- #@# Intensity Normalization Mon Sep 11 17:59:20 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_normalize -g 1 -seed 1234 -mprage nu.mgz T1.mgz 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 1.10678 -0.10510 -0.15100 0.34793; 0.21889 1.15007 0.20558 -52.03523; 0.12641 -0.18600 1.15690 -24.77525; 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 = 13 Starting OpenSpline(): npoints = 13 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 109 gm peak at 80 (80), valley at 68 (68) csf peak at 28, setting threshold to 62 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 83 (83), valley at 71 (71) csf peak at 42, setting threshold to 69 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to T1.mgz 3D bias adjustment took 1 minutes and 25 seconds. @#@FSTIME 2023:09:11:17:59:20 mri_normalize N 7 e 85.72 S 0.50 U 85.15 P 99% M 583532 F 0 R 263276 W 0 c 615 w 1 I 0 O 11048 L 5.55 3.95 2.40 @#@FSLOADPOST 2023:09:11:18:00:46 mri_normalize N 7 5.39 4.35 2.69 #-------------------------------------------- #@# Skull Stripping Mon Sep 11 18:00:46 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_em_register -skull nu.mgz /usr/local/freesurfer/7.4.1/average/RB_all_withskull_2020_01_02.gca transforms/talairach_with_skull.lta 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 '/usr/local/freesurfer/7.4.1/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 = (58, 26, 32) --> (209, 255, 219) finding center of left hemi white matter using (108, 102, 126) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 108, using box (89,74,103) --> (126, 130,149) to find MRI wm before smoothing, mri peak at 98 robust fit to distribution - 96 +- 12.0 distribution too broad for accurate scaling - disabling after smoothing, mri peak at 108, scaling input intensities by 1.000 scaling channel 0 by 1 initial log_p = -4.649 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.537529 @ (-10.526, 10.526, -10.526) max log p = -4.386217 @ (5.263, 5.263, -5.263) max log p = -4.374478 @ (-2.632, 2.632, -2.632) max log p = -4.350976 @ (3.947, 1.316, 1.316) max log p = -4.345783 @ (-0.658, 0.658, 0.658) max log p = -4.344574 @ (0.329, 0.329, -0.987) max log p = -4.344574 @ (0.000, 0.000, 0.000) max log p = -4.344574 @ (0.000, 0.000, 0.000) Found translation: (-4.3, 20.7, -17.4): log p = -4.345 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.904, old_max_log_p =-4.345 (thresh=-4.3) 1.12501 -0.20625 0.11967 -10.80405; 0.20134 1.20563 0.18505 -54.08351; -0.15865 -0.16007 1.21553 2.30463; 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=-3.904, old_max_log_p =-3.904 (thresh=-3.9) 1.12501 -0.20625 0.11967 -10.80405; 0.20134 1.20563 0.18505 -54.08351; -0.15865 -0.16007 1.21553 2.30463; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 iteration took 1 minutes and 19 seconds. **************************************** Nine parameter search. iteration 2 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.824, old_max_log_p =-3.904 (thresh=-3.9) 1.15213 -0.16561 0.13423 -21.08449; 0.15621 1.18895 0.18240 -47.72142; -0.16128 -0.16161 1.19139 3.91989; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 15 seconds. **************************************** Nine parameter search. iteration 3 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.824, old_max_log_p =-3.824 (thresh=-3.8) 1.15213 -0.16561 0.13423 -21.08449; 0.15621 1.18895 0.18240 -47.72142; -0.16128 -0.16161 1.19139 3.91989; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 iteration took 1 minutes and 16 seconds. **************************************** Nine parameter search. iteration 4 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.817, old_max_log_p =-3.824 (thresh=-3.8) 1.14669 -0.16752 0.15339 -22.99218; 0.15937 1.19561 0.16355 -46.14139; -0.17710 -0.13899 1.18908 3.95742; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 5 seconds. **************************************** Nine parameter search. iteration 5 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.816, old_max_log_p =-3.817 (thresh=-3.8) 1.14762 -0.14916 0.16592 -26.45738; 0.13932 1.19844 0.17078 -45.23721; -0.18777 -0.14739 1.18641 6.24748; 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 1.14762 -0.14916 0.16592 -26.45738; 0.13932 1.19844 0.17078 -45.23721; -0.18777 -0.14739 1.18641 6.24748; 0.00000 0.00000 0.00000 1.00000; nsamples 3292 Quasinewton: input matrix 1.14762 -0.14916 0.16592 -26.45738; 0.13932 1.19844 0.17078 -45.23721; -0.18777 -0.14739 1.18641 6.24748; 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: 008: -log(p) = -0.0 tol 0.000010 Resulting transform: 1.14762 -0.14916 0.16592 -26.45738; 0.13932 1.19844 0.17078 -45.23721; -0.18777 -0.14739 1.18641 6.24748; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -3.816 (old=-4.649) transform before final EM align: 1.14762 -0.14916 0.16592 -26.45738; 0.13932 1.19844 0.17078 -45.23721; -0.18777 -0.14739 1.18641 6.24748; 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 1.14762 -0.14916 0.16592 -26.45738; 0.13932 1.19844 0.17078 -45.23721; -0.18777 -0.14739 1.18641 6.24748; 0.00000 0.00000 0.00000 1.00000; nsamples 364986 Quasinewton: input matrix 1.14762 -0.14916 0.16592 -26.45738; 0.13932 1.19844 0.17078 -45.23721; -0.18777 -0.14739 1.18641 6.24748; 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: 010: -log(p) = 4.2 tol 0.000000 final transform: 1.14762 -0.14916 0.16592 -26.45738; 0.13932 1.19844 0.17078 -45.23721; -0.18777 -0.14739 1.18641 6.24748; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach_with_skull.lta... #VMPC# mri_em_register VmPeak 795120 FSRUNTIME@ mri_em_register 0.1399 hours 1 threads registration took 8 minutes and 24 seconds. @#@FSTIME 2023:09:11:18:00:46 mri_em_register N 4 e 503.71 S 1.45 U 501.50 P 99% M 628864 F 0 R 166580 W 0 c 5019 w 1 I 0 O 48 L 5.39 4.35 2.69 @#@FSLOADPOST 2023:09:11:18:09:10 mri_em_register N 4 6.16 5.71 4.09 mri_watershed -T1 -brain_atlas /usr/local/freesurfer/7.4.1/average/RB_all_withskull_2020_01_02.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz 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=128 y=95 z=125 r=86 first estimation of the main basin volume: 2734743 voxels Looking for seedpoints 2 found in the cerebellum 12 found in the rest of the brain global maximum in x=113, y=90, z=89, Imax=255 CSF=15, 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=1314752901476863 voxels, voxel volume =1.000 = 1314752901476863 mmm3 = 1314752840073.216 cm3 done. PostAnalyze...Basin Prior 6 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=129,y=107, z=115, r=9361 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=23, CSF_MAX=46 , nb = 43956 RIGHT_CER CSF_MIN=0, CSF_intensity=9, CSF_MAX=27 , nb = 3528 LEFT_CER CSF_MIN=1, CSF_intensity=11, CSF_MAX=30 , nb = 3150 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=23, CSF_MAX=44 , nb = 18522 LEFT_BRAIN CSF_MIN=0, CSF_intensity=23, CSF_MAX=49 , nb = 18360 OTHER CSF_MIN=0, CSF_intensity=12, CSF_MAX=32 , nb = 396 CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 46, 41, 31, 78 after analyzing : 36, 41, 41, 50 RIGHT_CER before analyzing : 27, 28, 31, 78 after analyzing : 27, 30, 31, 42 LEFT_CER before analyzing : 30, 30, 31, 78 after analyzing : 24, 30, 31, 42 RIGHT_BRAIN before analyzing : 44, 39, 32, 72 after analyzing : 34, 39, 39, 47 LEFT_BRAIN before analyzing : 49, 42, 31, 78 after analyzing : 37, 42, 42, 51 OTHER before analyzing : 32, 31, 31, 78 after analyzing : 25, 31, 31, 42 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...73 iterations *********************VALIDATION********************* curvature mean = -0.014, std = 0.013 curvature mean = 63.273, std = 6.053 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 3.89, sigma = 5.75 after rotation: sse = 3.89, sigma = 5.75 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 4.41, its var is 7.15 before Erosion-Dilatation 1.78% 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...30 iterations mri_strip_skull: done peeling brain Brain Size = 1259255 voxels, voxel volume = 1.000 mm3 = 1259255 mmm3 = 1259.255 cm3 ****************************** Saving brainmask.auto.mgz done mri_watershed done @#@FSTIME 2023:09:11:18:09:10 mri_watershed N 6 e 14.05 S 0.33 U 13.57 P 99% M 842376 F 0 R 213357 W 0 c 438 w 1 I 0 O 2088 L 6.16 5.71 4.09 @#@FSLOADPOST 2023:09:11:18:09:24 mri_watershed N 6 5.98 5.69 4.11 cp brainmask.auto.mgz brainmask.mgz #------------------------------------- #@# EM Registration Mon Sep 11 18:09:25 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_em_register -uns 3 -mask brainmask.mgz nu.mgz /usr/local/freesurfer/7.4.1/average/RB_all_2020-01-02.gca transforms/talairach.lta 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 '/usr/local/freesurfer/7.4.1/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=19.0 skull bounding box = (68, 48, 48) --> (194, 153, 199) finding center of left hemi white matter using (110, 83, 124) as brain centroid of Right_Cerebral_White_Matter... MRImask(): AllowDiffGeom = 1 mean wm in atlas = 107, using box (95,70,105) --> (125, 95,142) to find MRI wm before smoothing, mri peak at 101 robust fit to distribution - 101 +- 5.6 after smoothing, mri peak at 101, scaling input intensities by 1.059 scaling channel 0 by 1.05941 initial log_p = -4.427 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.133515 @ (-10.526, 10.526, -10.526) max log p = -4.050294 @ (5.263, 5.263, -5.263) max log p = -4.048326 @ (7.895, 2.632, -7.895) max log p = -4.020214 @ (-3.947, -1.316, 1.316) max log p = -4.001754 @ (-3.289, 4.605, 4.605) max log p = -3.999207 @ (-2.303, -0.987, -0.329) max log p = -3.999207 @ (0.000, 0.000, 0.000) max log p = -3.999207 @ (0.000, 0.000, 0.000) Found translation: (-6.9, 20.7, -18.1): log p = -3.999 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.702, old_max_log_p =-3.999 (thresh=-4.0) 1.04563 -0.15563 0.11836 -10.27122; 0.14882 1.12785 0.16825 -41.74525; -0.15011 -0.14882 1.13041 7.78465; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 9 seconds. **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.702, old_max_log_p =-3.702 (thresh=-3.7) 1.04563 -0.15563 0.11836 -10.27122; 0.14882 1.12785 0.16825 -41.74525; -0.15011 -0.14882 1.13041 7.78465; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 iteration took 1 minutes and 8 seconds. **************************************** Nine parameter search. iteration 2 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.511, old_max_log_p =-3.702 (thresh=-3.7) 1.04563 -0.15563 0.11836 -6.52122; 0.14882 1.12785 0.16825 -37.99525; -0.15011 -0.14882 1.13041 7.78465; 0.00000 0.00000 0.00000 1.00000; iteration took 1 minutes and 7 seconds. **************************************** Nine parameter search. iteration 3 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.511, old_max_log_p =-3.511 (thresh=-3.5) 1.04563 -0.15563 0.11836 -6.52122; 0.14882 1.12785 0.16825 -37.99525; -0.15011 -0.14882 1.13041 7.78465; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 iteration took 1 minutes and 7 seconds. **************************************** Nine parameter search. iteration 4 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.475, old_max_log_p =-3.511 (thresh=-3.5) 1.04578 -0.12294 0.15200 -14.84805; 0.10935 1.12700 0.20053 -37.49476; -0.18019 -0.18236 1.12239 17.57742; 0.00000 0.00000 0.00000 1.00000; iteration took 0 minutes and 58 seconds. **************************************** Nine parameter search. iteration 5 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.470, old_max_log_p =-3.475 (thresh=-3.5) 1.04892 -0.12914 0.13208 -12.28243; 0.11658 1.12577 0.21104 -39.06717; -0.16375 -0.19334 1.12174 17.12988; 0.00000 0.00000 0.00000 1.00000; iteration took 0 minutes and 58 seconds. **************************************** Nine parameter search. iteration 6 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.470, old_max_log_p =-3.470 (thresh=-3.5) 1.04892 -0.12914 0.13208 -12.28243; 0.11658 1.12577 0.21104 -39.06717; -0.16375 -0.19334 1.12174 17.12988; 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 1.04892 -0.12914 0.13208 -12.28243; 0.11658 1.12577 0.21104 -39.06717; -0.16375 -0.19334 1.12174 17.12988; 0.00000 0.00000 0.00000 1.00000; nsamples 2841 Quasinewton: input matrix 1.04892 -0.12914 0.13208 -12.28243; 0.11658 1.12577 0.21104 -39.06717; -0.16375 -0.19334 1.12174 17.12988; 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: 1.04892 -0.12914 0.13208 -12.28243; 0.11658 1.12577 0.21104 -39.06717; -0.16375 -0.19334 1.12174 17.12988; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -3.470 (old=-4.427) transform before final EM align: 1.04892 -0.12914 0.13208 -12.28243; 0.11658 1.12577 0.21104 -39.06717; -0.16375 -0.19334 1.12174 17.12988; 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 1.04892 -0.12914 0.13208 -12.28243; 0.11658 1.12577 0.21104 -39.06717; -0.16375 -0.19334 1.12174 17.12988; 0.00000 0.00000 0.00000 1.00000; nsamples 315638 Quasinewton: input matrix 1.04892 -0.12914 0.13208 -12.28243; 0.11658 1.12577 0.21104 -39.06717; -0.16375 -0.19334 1.12174 17.12988; 0.00000 0.00000 0.00000 1.00000; dfp_em_step_func: 010: -log(p) = 4.0 after pass:transform: ( 1.05, -0.13, 0.13, -12.28) ( 0.12, 1.13, 0.21, -39.07) ( -0.16, -0.19, 1.12, 17.13) dfp_em_step_func: 011: -log(p) = 4.0 after pass:transform: ( 1.05, -0.13, 0.13, -12.28) ( 0.12, 1.13, 0.21, -39.07) ( -0.16, -0.19, 1.12, 17.13) 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: 013: -log(p) = 4.0 tol 0.000000 final transform: 1.04930 -0.12886 0.13235 -12.28243; 0.11690 1.12602 0.21134 -39.06717; -0.16371 -0.19325 1.12179 17.12988; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach.lta... #VMPC# mri_em_register VmPeak 782568 FSRUNTIME@ mri_em_register 0.1433 hours 1 threads registration took 8 minutes and 36 seconds. @#@FSTIME 2023:09:11:18:09:25 mri_em_register N 7 e 516.00 S 1.97 U 513.84 P 99% M 616280 F 0 R 166692 W 0 c 2156 w 1 I 0 O 40 L 5.98 5.69 4.11 @#@FSLOADPOST 2023:09:11:18:18:01 mri_em_register N 7 4.02 4.36 4.09 #-------------------------------------- #@# CA Normalize Mon Sep 11 18:18:01 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_ca_normalize -c ctrl_pts.mgz -mask brainmask.mgz nu.mgz /usr/local/freesurfer/7.4.1/average/RB_all_2020-01-02.gca transforms/talairach.lta norm.mgz writing control point volume to ctrl_pts.mgz using MR volume brainmask.mgz to mask input volume... reading 1 input volume reading atlas from '/usr/local/freesurfer/7.4.1/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=19.0 skull bounding box = (68, 48, 48) --> (194, 153, 199) finding center of left hemi white matter using (110, 83, 124) as brain centroid of Right_Cerebral_White_Matter... mean wm in atlas = 107, using box (95,70,105) --> (125, 95,142) to find MRI wm before smoothing, mri peak at 101 robust fit to distribution - 101 +- 5.6 after smoothing, mri peak at 101, scaling input intensities by 1.059 scaling channel 0 by 1.05941 using 246437 sample points... INFO: compute sample coordinates transform 1.04930 -0.12886 0.13235 -12.28243; 0.11690 1.12602 0.21134 -39.06717; -0.16371 -0.19325 1.12179 17.12988; 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 (124, 46, 51) --> (195, 144, 195) Left_Cerebral_White_Matter: limiting intensities to 93.0 --> 132.0 1 of 2628 (0.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (69, 50, 47) --> (136, 152, 193) Right_Cerebral_White_Matter: limiting intensities to 90.0 --> 132.0 7 of 3135 (0.2%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (137, 122, 76) --> (185, 160, 122) Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 26 of 101 (25.7%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (97, 122, 69) --> (139, 165, 119) Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 171 of 173 (98.8%) samples deleted finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (117, 114, 104) --> (151, 175, 131) Brain_Stem: limiting intensities to 88.0 --> 132.0 136 of 202 (67.3%) samples deleted using 6239 total control points for intensity normalization... bias field = 1.001 +- 0.062 5 of 5898 control points discarded finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (124, 46, 51) --> (195, 144, 195) Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 0 of 3247 (0.0%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (69, 50, 47) --> (136, 152, 193) Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 1 of 3815 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (137, 122, 76) --> (185, 160, 122) Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 132 of 160 (82.5%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (97, 122, 69) --> (139, 165, 119) Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 215 of 215 (100.0%) samples deleted finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (117, 114, 104) --> (151, 175, 131) Brain_Stem: limiting intensities to 88.0 --> 132.0 257 of 276 (93.1%) samples deleted using 7713 total control points for intensity normalization... bias field = 1.043 +- 0.066 0 of 7035 control points discarded finding control points in Left_Cerebral_White_Matter.... found 40230 control points for structure... bounding box (124, 46, 51) --> (195, 144, 195) Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 3 of 3512 (0.1%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39478 control points for structure... bounding box (69, 50, 47) --> (136, 152, 193) Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 117.0 40 of 4068 (1.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3105 control points for structure... bounding box (137, 122, 76) --> (185, 160, 122) Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 154 of 161 (95.7%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2710 control points for structure... bounding box (97, 122, 69) --> (139, 165, 119) Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 217 of 217 (100.0%) samples deleted finding control points in Brain_Stem.... found 3475 control points for structure... bounding box (117, 114, 104) --> (151, 175, 131) Brain_Stem: limiting intensities to 88.0 --> 132.0 260 of 271 (95.9%) samples deleted using 8229 total control points for intensity normalization... bias field = 1.061 +- 0.058 4 of 7418 control points discarded writing normalized volume to norm.mgz... writing control points to ctrl_pts.mgz freeing GCA...done. normalization took 0 minutes and 51 seconds. @#@FSTIME 2023:09:11:18:18:01 mri_ca_normalize N 8 e 51.20 S 0.55 U 50.65 P 99% M 704476 F 1 R 408190 W 0 c 83 w 2 I 32 O 3288 L 4.02 4.36 4.09 @#@FSLOADPOST 2023:09:11:18:18:52 mri_ca_normalize N 8 4.00 4.30 4.08 #-------------------------------------- #@# CA Reg Mon Sep 11 18:18:52 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_ca_register -nobigventricles -T transforms/talairach.lta -align-after -mask brainmask.mgz norm.mgz /usr/local/freesurfer/7.4.1/average/RB_all_2020-01-02.gca transforms/talairach.m3z 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 '/usr/local/freesurfer/7.4.1/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 0.923469 #GCAMreg# pass 0 level1 5 level2 1 tsec 234.083 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 0.737431 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 0.739858 #GCAMreg# pass 0 level1 4 level2 1 tsec 237.075 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 0.674965 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 0.712768 #GCAMreg# pass 0 level1 3 level2 1 tsec 39.922 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 0.712768 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 0.823729 #GCAMreg# pass 0 level1 2 level2 1 tsec 65.548 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 0.788014 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 0.876582 #GCAMreg# pass 0 level1 1 level2 1 tsec 161.602 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 0.846909 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 0.803192 #GCAMreg# pass 0 level1 0 level2 1 tsec 44.235 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 0.795952 GCAMregister done in 18.8183 min Starting GCAmapRenormalizeWithAlignment() without scales renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.10253 (16) mri peak = 0.23713 (24) Left_Lateral_Ventricle (4): linear fit = 1.30 x + 0.0 (1775 voxels, overlap=0.462) Left_Lateral_Ventricle (4): linear fit = 1.30 x + 0.0 (1775 voxels, peak = 21), gca=20.9 gca peak = 0.17690 (16) mri peak = 0.18676 (24) Right_Lateral_Ventricle (43): linear fit = 1.41 x + 0.0 (1437 voxels, overlap=0.389) Right_Lateral_Ventricle (43): linear fit = 1.41 x + 0.0 (1437 voxels, peak = 23), gca=22.6 gca peak = 0.28275 (96) mri peak = 0.09847 (91) Right_Pallidum (52): linear fit = 0.94 x + 0.0 (744 voxels, overlap=0.638) Right_Pallidum (52): linear fit = 0.94 x + 0.0 (744 voxels, peak = 90), gca=89.8 gca peak = 0.18948 (93) mri peak = 0.12379 (88) Left_Pallidum (13): linear fit = 0.94 x + 0.0 (628 voxels, overlap=0.568) Left_Pallidum (13): linear fit = 0.94 x + 0.0 (628 voxels, peak = 87), gca=87.0 gca peak = 0.20755 (55) mri peak = 0.09444 (63) Right_Hippocampus (53): linear fit = 1.10 x + 0.0 (787 voxels, overlap=0.944) Right_Hippocampus (53): linear fit = 1.10 x + 0.0 (787 voxels, peak = 60), gca=60.2 gca peak = 0.31831 (58) mri peak = 0.08791 (62) Left_Hippocampus (17): linear fit = 1.08 x + 0.0 (667 voxels, overlap=0.995) Left_Hippocampus (17): linear fit = 1.08 x + 0.0 (667 voxels, peak = 62), gca=62.4 gca peak = 0.11957 (102) mri peak = 0.08973 (101) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (44615 voxels, overlap=0.914) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (44615 voxels, peak = 101), gca=101.5 gca peak = 0.11429 (102) mri peak = 0.07345 (101) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (44605 voxels, overlap=0.885) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (44605 voxels, peak = 105), gca=104.5 gca peak = 0.14521 (59) mri peak = 0.02486 (90) Left_Cerebral_Cortex (3): linear fit = 1.48 x + 0.0 (12599 voxels, overlap=0.000) Left_Cerebral_Cortex (3): linear fit = 1.48 x + 0.0 (12599 voxels, peak = 87), gca=87.0 gca peak = 0.14336 (58) mri peak = 0.02542 (69) Right_Cerebral_Cortex (42): linear fit = 1.26 x + 0.0 (14256 voxels, overlap=0.000) Right_Cerebral_Cortex (42): linear fit = 1.26 x + 0.0 (14256 voxels, peak = 73), gca=73.4 gca peak = 0.13305 (70) mri peak = 0.14437 (70) Right_Caudate (50): linear fit = 1.01 x + 0.0 (491 voxels, overlap=0.866) Right_Caudate (50): linear fit = 1.01 x + 0.0 (491 voxels, peak = 71), gca=71.0 gca peak = 0.15761 (71) mri peak = 0.23098 (72) Left_Caudate (11): linear fit = 0.99 x + 0.0 (438 voxels, overlap=0.720) Left_Caudate (11): linear fit = 0.99 x + 0.0 (438 voxels, peak = 70), gca=69.9 gca peak = 0.13537 (57) mri peak = 0.03661 (53) Left_Cerebellum_Cortex (8): linear fit = 1.02 x + 0.0 (18988 voxels, overlap=0.759) Left_Cerebellum_Cortex (8): linear fit = 1.02 x + 0.0 (18988 voxels, peak = 58), gca=58.4 gca peak = 0.13487 (56) mri peak = 0.03607 (58) Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (25351 voxels, overlap=0.747) Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (25351 voxels, peak = 57), gca=57.4 gca peak = 0.19040 (84) mri peak = 0.08996 (84) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (7599 voxels, overlap=0.938) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (7599 voxels, peak = 84), gca=83.6 gca peak = 0.18871 (83) mri peak = 0.08443 (75) Right_Cerebellum_White_Matter (46): linear fit = 0.93 x + 0.0 (6424 voxels, overlap=0.496) Right_Cerebellum_White_Matter (46): linear fit = 0.93 x + 0.0 (6424 voxels, peak = 77), gca=76.8 gca peak = 0.24248 (57) mri peak = 0.11043 (66) Left_Amygdala (18): linear fit = 1.08 x + 0.0 (325 voxels, overlap=0.482) Left_Amygdala (18): linear fit = 1.08 x + 0.0 (325 voxels, peak = 61), gca=61.3 gca peak = 0.35833 (56) mri peak = 0.11262 (63) Right_Amygdala (54): linear fit = 1.12 x + 0.0 (429 voxels, overlap=0.682) Right_Amygdala (54): linear fit = 1.12 x + 0.0 (429 voxels, peak = 62), gca=62.4 gca peak = 0.12897 (85) mri peak = 0.09776 (81) Left_Thalamus (10): linear fit = 0.95 x + 0.0 (3816 voxels, overlap=0.918) Left_Thalamus (10): linear fit = 0.95 x + 0.0 (3816 voxels, peak = 81), gca=81.2 gca peak = 0.13127 (83) mri peak = 0.08166 (82) Right_Thalamus (49): linear fit = 1.03 x + 0.0 (3142 voxels, overlap=0.918) Right_Thalamus (49): linear fit = 1.03 x + 0.0 (3142 voxels, peak = 86), gca=85.9 gca peak = 0.12974 (78) mri peak = 0.09892 (82) Left_Putamen (12): linear fit = 1.02 x + 0.0 (1883 voxels, overlap=0.924) Left_Putamen (12): linear fit = 1.02 x + 0.0 (1883 voxels, peak = 80), gca=79.9 gca peak = 0.17796 (79) mri peak = 0.08643 (83) Right_Putamen (51): linear fit = 1.01 x + 0.0 (1962 voxels, overlap=0.988) Right_Putamen (51): linear fit = 1.01 x + 0.0 (1962 voxels, peak = 80), gca=80.2 gca peak = 0.10999 (80) mri peak = 0.12907 (85) Brain_Stem (16): linear fit = 1.07 x + 0.0 (9023 voxels, overlap=0.415) Brain_Stem (16): linear fit = 1.07 x + 0.0 (9023 voxels, peak = 85), gca=85.2 gca peak = 0.13215 (88) mri peak = 0.11025 (92) Right_VentralDC (60): linear fit = 1.08 x + 0.0 (823 voxels, overlap=0.565) Right_VentralDC (60): linear fit = 1.08 x + 0.0 (823 voxels, peak = 95), gca=94.6 gca peak = 0.11941 (89) mri peak = 0.10214 (91) Left_VentralDC (28): linear fit = 1.04 x + 0.0 (945 voxels, overlap=0.666) Left_VentralDC (28): linear fit = 1.04 x + 0.0 (945 voxels, peak = 93), gca=93.0 gca peak = 0.20775 (25) mri peak = 0.22093 (24) Third_Ventricle (14): linear fit = 0.90 x + 0.0 (86 voxels, overlap=0.822) Third_Ventricle (14): linear fit = 0.90 x + 0.0 (86 voxels, peak = 23), gca=22.6 gca peak = 0.13297 (21) mri peak = 0.19114 (23) Fourth_Ventricle (15): linear fit = 1.20 x + 0.0 (281 voxels, overlap=0.503) Fourth_Ventricle (15): linear fit = 1.20 x + 0.0 (281 voxels, peak = 25), gca=25.1 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.19087 (28) 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 1.18 x + 0.0 estimating mean wm scale to be 1.01 x + 0.0 estimating mean csf scale to be 1.20 x + 0.0 saving intensity scales to talairach.label_intensities.txt GCAmapRenormalizeWithAlignment() took 3.44405 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 0.843615 #GCAMreg# pass 0 level1 5 level2 1 tsec 988.175 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 0.695149 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 0.663203 #GCAMreg# pass 0 level1 4 level2 1 tsec 1233.78 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 0.564078 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 0.567813 #GCAMreg# pass 0 level1 3 level2 1 tsec 444.623 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 0.541548 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 0.55888 #GCAMreg# pass 0 level1 2 level2 1 tsec 47.474 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 0.55888 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 0.613782 #GCAMreg# pass 0 level1 1 level2 1 tsec 46.235 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 0.609555 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 0.539906 #GCAMreg# pass 0 level1 0 level2 1 tsec 386.513 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 0.507575 GCAMregister done in 74.7858 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 0.500091 #GCAMreg# pass 0 level1 5 level2 1 tsec 65.55 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 0.50009 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 0.498113 #GCAMreg# pass 0 level1 4 level2 1 tsec 61.871 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 0.496985 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 0.488189 iter 0, gcam->neg = 2 after 7 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 3 after 4 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 5 after 8 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 5 after 15 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 9 after 5 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 10 after 13 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 19 after 12 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 25 after 17 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 16 after 14 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 24 after 12 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 40 after 15 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 27 after 17 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 1 after 2 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 3 after 2 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 3 after 7 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 1 after 5 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 4 after 4 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 4 after 2 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 5 after 12 iterations, nbhd size=1, neg = 0 #GCAMreg# pass 0 level1 3 level2 1 tsec 323.367 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 0.469655 iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 2 after 0 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, 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_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 0.47039 #GCAMreg# pass 0 level1 2 level2 1 tsec 46.912 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 0.470338 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 0.480424 #GCAMreg# pass 0 level1 1 level2 1 tsec 45.669 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 0.48038 iter 0, gcam->neg = 1 after 3 iterations, nbhd size=0, neg = 0 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 0.467878 iter 0, gcam->neg = 1009 after 16 iterations, nbhd size=1, neg = 0 #GCAMreg# pass 0 level1 0 level2 1 tsec 53.439 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 0.43536 label assignment complete, 0 changed (0.00%) GCAMregister done in 18.484 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 0.418627 #GCAMreg# pass 0 level1 5 level2 1 tsec 19.894 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 0.418627 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 0.418823 #GCAMreg# pass 0 level1 4 level2 1 tsec 18.259 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 0.418823 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 0.418787 iter 0, gcam->neg = 2 after 1 iterations, nbhd size=0, neg = 0 #GCAMreg# pass 0 level1 3 level2 1 tsec 45.01 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 0.418207 iter 0, gcam->neg = 2 after 1 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 1 after 2 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 5 after 14 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 6 after 9 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 13 after 14 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 6 after 4 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 4 after 7 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 9 after 14 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 11 after 14 iterations, nbhd size=1, neg = 0 iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 iter 0, gcam->neg = 1 after 3 iterations, nbhd size=0, 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 0.413472 #GCAMreg# pass 0 level1 2 level2 1 tsec 34.294 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 0.413446 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, 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 0.421282 #GCAMreg# pass 0 level1 1 level2 1 tsec 17.586 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 0.421282 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 0.407885 iter 0, gcam->neg = 830 after 21 iterations, nbhd size=1, neg = 0 #GCAMreg# pass 0 level1 0 level2 1 tsec 49.335 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 0.400386 GCAMregister done in 8.61408 min writing output transformation to transforms/talairach.m3z... GCAMwrite Calls to gcamLogLikelihoodEnergy 5171 tmin = 19.0427 Calls to gcamLabelEnergy 4647 tmin = 1.32523 Calls to gcamJacobianEnergy 5171 tmin = 12.3971 Calls to gcamSmoothnessEnergy 5171 tmin = 12.2434 Calls to gcamLogLikelihoodTerm 613 tmin = 4.40807 Calls to gcamLabelTerm 567 tmin = 6.91383 Calls to gcamJacobianTerm 613 tmin = 8.7306 Calls to gcamSmoothnessTerm 613 tmin = 3.31233 Calls to gcamComputeGradient 613 tmin = 42.6237 Calls to gcamComputeMetricProperties 7165 tmin = 21.7087 mri_ca_register took 2 hours, 4 minutes and 20 seconds. #VMPC# mri_ca_register VmPeak 2025300 FSRUNTIME@ mri_ca_register 2.0721 hours 1 threads @#@FSTIME 2023:09:11:18:18:52 mri_ca_register N 9 e 7459.71 S 12.78 U 7446.46 P 99% M 1326480 F 0 R 1001371 W 0 c 10988 w 1 I 0 O 63448 L 4.00 4.30 4.08 @#@FSLOADPOST 2023:09:11:20:23:12 mri_ca_register N 9 4.15 4.10 4.09 #-------------------------------------- #@# SubCort Seg Mon Sep 11 20:23:12 +08 2023 mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /usr/local/freesurfer/7.4.1/average/RB_all_2020-01-02.gca aseg.auto_noCCseg.mgz sysname Linux hostname mtubuntu machine x86_64 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /usr/local/freesurfer/7.4.1/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 /usr/local/freesurfer/7.4.1/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 5.67 Atlas used for the 3D morph was /usr/local/freesurfer/7.4.1/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 = 0.20385 (24) Left_Lateral_Ventricle (4): linear fit = 1.16 x + 0.0 (8877 voxels, overlap=0.598) Left_Lateral_Ventricle (4): linear fit = 1.16 x + 0.0 (8877 voxels, peak = 23), gca=23.3 gca peak = 0.20380 (13) mri peak = 0.18671 (24) Right_Lateral_Ventricle (43): linear fit = 1.64 x + 0.0 (6336 voxels, overlap=0.317) Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (6336 voxels, peak = 21), gca=19.5 gca peak = 0.26283 (96) mri peak = 0.16426 (91) Right_Pallidum (52): linear fit = 0.94 x + 0.0 (475 voxels, overlap=0.893) Right_Pallidum (52): linear fit = 0.94 x + 0.0 (475 voxels, peak = 91), gca=90.7 gca peak = 0.15814 (97) mri peak = 0.12230 (91) Left_Pallidum (13): linear fit = 0.94 x + 0.0 (413 voxels, overlap=0.533) Left_Pallidum (13): linear fit = 0.94 x + 0.0 (413 voxels, peak = 92), gca=91.7 gca peak = 0.27624 (56) mri peak = 0.10076 (64) Right_Hippocampus (53): linear fit = 1.12 x + 0.0 (941 voxels, overlap=0.760) Right_Hippocampus (53): linear fit = 1.12 x + 0.0 (941 voxels, peak = 63), gca=63.0 gca peak = 0.28723 (59) mri peak = 0.07896 (62) Left_Hippocampus (17): linear fit = 1.10 x + 0.0 (890 voxels, overlap=0.882) Left_Hippocampus (17): linear fit = 1.10 x + 0.0 (890 voxels, peak = 65), gca=64.6 gca peak = 0.07623 (103) mri peak = 0.09196 (101) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (22910 voxels, overlap=0.825) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (22910 voxels, peak = 102), gca=102.5 gca peak = 0.07837 (105) mri peak = 0.09483 (101) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (14316 voxels, overlap=0.759) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (14316 voxels, peak = 104), gca=104.5 gca peak = 0.10165 (58) mri peak = 0.03880 (83) Left_Cerebral_Cortex (3): linear fit = 1.35 x + 0.0 (17084 voxels, overlap=0.005) Left_Cerebral_Cortex (3): linear fit = 1.35 x + 0.0 (17084 voxels, peak = 78), gca=78.0 gca peak = 0.11113 (58) mri peak = 0.03497 (70) Right_Cerebral_Cortex (42): linear fit = 1.25 x + 0.0 (12639 voxels, overlap=0.317) Right_Cerebral_Cortex (42): linear fit = 1.25 x + 0.0 (12639 voxels, peak = 72), gca=72.2 gca peak = 0.27796 (67) mri peak = 0.20667 (72) Right_Caudate (50): linear fit = 1.07 x + 0.0 (906 voxels, overlap=0.417) Right_Caudate (50): linear fit = 1.07 x + 0.0 (906 voxels, peak = 71), gca=71.4 gca peak = 0.14473 (69) mri peak = 0.19400 (74) Left_Caudate (11): linear fit = 0.96 x + 0.0 (995 voxels, overlap=0.773) Left_Caudate (11): linear fit = 0.96 x + 0.0 (995 voxels, peak = 67), gca=66.6 gca peak = 0.14301 (56) mri peak = 0.06150 (60) Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (16433 voxels, overlap=0.887) Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (16433 voxels, peak = 59), gca=58.5 gca peak = 0.14610 (55) mri peak = 0.06313 (58) Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (19066 voxels, overlap=0.889) Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (19066 voxels, peak = 56), gca=56.4 gca peak = 0.16309 (85) mri peak = 0.15362 (84) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4609 voxels, overlap=0.914) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4609 voxels, peak = 85), gca=84.6 gca peak = 0.15172 (84) mri peak = 0.10337 (78) Right_Cerebellum_White_Matter (46): linear fit = 0.94 x + 0.0 (3838 voxels, overlap=0.638) Right_Cerebellum_White_Matter (46): linear fit = 0.94 x + 0.0 (3838 voxels, peak = 79), gca=79.4 gca peak = 0.30461 (58) mri peak = 0.12518 (66) Left_Amygdala (18): linear fit = 1.16 x + 0.0 (349 voxels, overlap=0.206) Left_Amygdala (18): linear fit = 1.16 x + 0.0 (349 voxels, peak = 68), gca=67.6 gca peak = 0.32293 (57) mri peak = 0.09168 (63) Right_Amygdala (54): linear fit = 1.18 x + 0.0 (441 voxels, overlap=0.625) Right_Amygdala (54): linear fit = 1.18 x + 0.0 (441 voxels, peak = 68), gca=67.5 gca peak = 0.11083 (90) mri peak = 0.11356 (81) Left_Thalamus (10): linear fit = 0.95 x + 0.0 (2983 voxels, overlap=0.710) Left_Thalamus (10): linear fit = 0.95 x + 0.0 (2983 voxels, peak = 86), gca=85.9 gca peak = 0.11393 (83) mri peak = 0.08851 (87) Right_Thalamus (49): linear fit = 1.01 x + 0.0 (3112 voxels, overlap=0.945) Right_Thalamus (49): linear fit = 1.01 x + 0.0 (3112 voxels, peak = 84), gca=84.2 gca peak = 0.08575 (81) mri peak = 0.11382 (82) Left_Putamen (12): linear fit = 1.01 x + 0.0 (1352 voxels, overlap=0.816) Left_Putamen (12): linear fit = 1.01 x + 0.0 (1352 voxels, peak = 82), gca=82.2 gca peak = 0.08618 (78) mri peak = 0.10530 (81) Right_Putamen (51): linear fit = 1.04 x + 0.0 (1452 voxels, overlap=0.755) Right_Putamen (51): linear fit = 1.04 x + 0.0 (1452 voxels, peak = 82), gca=81.5 gca peak = 0.08005 (78) mri peak = 0.12866 (80) Brain_Stem (16): linear fit = 1.03 x + 0.0 (8095 voxels, overlap=0.491) Brain_Stem (16): linear fit = 1.03 x + 0.0 (8095 voxels, peak = 81), gca=80.7 gca peak = 0.12854 (88) mri peak = 0.11087 (93) Right_VentralDC (60): linear fit = 1.07 x + 0.0 (1009 voxels, overlap=0.565) Right_VentralDC (60): linear fit = 1.07 x + 0.0 (1009 voxels, peak = 94), gca=93.7 gca peak = 0.15703 (87) mri peak = 0.10639 (92) Left_VentralDC (28): linear fit = 1.07 x + 0.0 (1015 voxels, overlap=0.787) Left_VentralDC (28): linear fit = 1.07 x + 0.0 (1015 voxels, peak = 93), gca=92.7 gca peak = 0.17522 (25) mri peak = 0.17339 (27) Third_Ventricle (14): linear fit = 1.00 x + 0.0 (248 voxels, overlap=0.991) Third_Ventricle (14): linear fit = 1.00 x + 0.0 (248 voxels, peak = 25), gca=25.0 gca peak = 0.17113 (14) mri peak = 0.16957 (22) Fourth_Ventricle (15): linear fit = 1.38 x + 0.0 (197 voxels, overlap=0.506) Fourth_Ventricle (15): linear fit = 1.38 x + 0.0 (197 voxels, peak = 19), gca=19.2 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.16627 (28) 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 1.19 x + 0.0 estimating mean wm scale to be 1.00 x + 0.0 estimating mean csf scale to be 1.26 x + 0.0 saving intensity scales to aseg.auto_noCCseg.label_intensities.txt renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.14720 (24) mri peak = 0.20385 (24) Left_Lateral_Ventricle (4): linear fit = 0.98 x + 0.0 (8877 voxels, overlap=0.770) Left_Lateral_Ventricle (4): linear fit = 0.98 x + 0.0 (8877 voxels, peak = 23), gca=23.4 gca peak = 0.16334 (19) mri peak = 0.18671 (24) Right_Lateral_Ventricle (43): linear fit = 1.09 x + 0.0 (6336 voxels, overlap=0.615) Right_Lateral_Ventricle (43): linear fit = 1.09 x + 0.0 (6336 voxels, peak = 21), gca=20.6 gca peak = 0.28555 (90) mri peak = 0.16426 (91) Right_Pallidum (52): linear fit = 1.00 x + 0.0 (475 voxels, overlap=1.004) Right_Pallidum (52): linear fit = 1.00 x + 0.0 (475 voxels, peak = 90), gca=89.6 gca peak = 0.18804 (91) mri peak = 0.12230 (91) Left_Pallidum (13): linear fit = 1.00 x + 0.0 (413 voxels, overlap=1.002) Left_Pallidum (13): linear fit = 1.00 x + 0.0 (413 voxels, peak = 91), gca=90.5 gca peak = 0.23012 (62) mri peak = 0.10076 (64) Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (941 voxels, overlap=1.002) Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (941 voxels, peak = 61), gca=61.1 gca peak = 0.29528 (62) mri peak = 0.07896 (62) Left_Hippocampus (17): linear fit = 0.95 x + 0.0 (890 voxels, overlap=0.713) Left_Hippocampus (17): linear fit = 0.95 x + 0.0 (890 voxels, peak = 59), gca=59.2 gca peak = 0.08109 (103) mri peak = 0.09196 (101) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (22910 voxels, overlap=0.815) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (22910 voxels, peak = 102), gca=102.5 gca peak = 0.08124 (104) mri peak = 0.09483 (101) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (14316 voxels, overlap=0.737) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (14316 voxels, peak = 103), gca=103.5 gca peak = 0.07318 (78) mri peak = 0.03880 (83) Left_Cerebral_Cortex (3): linear fit = 1.04 x + 0.0 (17084 voxels, overlap=0.758) Left_Cerebral_Cortex (3): linear fit = 1.04 x + 0.0 (17084 voxels, peak = 82), gca=81.5 gca peak = 0.09028 (73) mri peak = 0.03497 (70) Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (12639 voxels, overlap=0.830) Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (12639 voxels, peak = 72), gca=71.9 gca peak = 0.22830 (72) mri peak = 0.20667 (72) Right_Caudate (50): linear fit = 1.00 x + 0.0 (906 voxels, overlap=0.998) Right_Caudate (50): linear fit = 1.00 x + 0.0 (906 voxels, peak = 72), gca=72.0 gca peak = 0.15637 (75) mri peak = 0.19400 (74) Left_Caudate (11): linear fit = 1.01 x + 0.0 (995 voxels, overlap=0.715) Left_Caudate (11): linear fit = 1.01 x + 0.0 (995 voxels, peak = 76), gca=76.1 gca peak = 0.13218 (58) mri peak = 0.06150 (60) Left_Cerebellum_Cortex (8): linear fit = 1.02 x + 0.0 (16433 voxels, overlap=0.888) Left_Cerebellum_Cortex (8): linear fit = 1.02 x + 0.0 (16433 voxels, peak = 59), gca=59.4 gca peak = 0.15431 (57) mri peak = 0.06313 (58) Right_Cerebellum_Cortex (47): linear fit = 0.96 x + 0.0 (19066 voxels, overlap=0.905) Right_Cerebellum_Cortex (47): linear fit = 0.96 x + 0.0 (19066 voxels, peak = 55), gca=55.0 gca peak = 0.16849 (84) mri peak = 0.15362 (84) Left_Cerebellum_White_Matter (7): linear fit = 1.01 x + 0.0 (4609 voxels, overlap=0.898) Left_Cerebellum_White_Matter (7): linear fit = 1.01 x + 0.0 (4609 voxels, peak = 85), gca=85.3 gca peak = 0.17062 (80) mri peak = 0.10337 (78) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (3838 voxels, overlap=0.944) Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (3838 voxels, peak = 80), gca=80.0 gca peak = 0.24891 (68) mri peak = 0.12518 (66) Left_Amygdala (18): linear fit = 1.00 x + 0.0 (349 voxels, overlap=0.970) Left_Amygdala (18): linear fit = 1.00 x + 0.0 (349 voxels, peak = 68), gca=68.0 gca peak = 0.30365 (68) mri peak = 0.09168 (63) Right_Amygdala (54): linear fit = 1.01 x + 0.0 (441 voxels, overlap=0.856) Right_Amygdala (54): linear fit = 1.01 x + 0.0 (441 voxels, peak = 69), gca=69.0 gca peak = 0.12072 (86) mri peak = 0.11356 (81) Left_Thalamus (10): linear fit = 0.99 x + 0.0 (2983 voxels, overlap=0.955) Left_Thalamus (10): linear fit = 0.99 x + 0.0 (2983 voxels, peak = 85), gca=84.7 gca peak = 0.10364 (82) mri peak = 0.08851 (87) Right_Thalamus (49): linear fit = 1.00 x + 0.0 (3112 voxels, overlap=0.966) Right_Thalamus (49): linear fit = 1.00 x + 0.0 (3112 voxels, peak = 82), gca=82.0 gca peak = 0.08227 (82) mri peak = 0.11382 (82) Left_Putamen (12): linear fit = 1.00 x + 0.0 (1352 voxels, overlap=0.819) Left_Putamen (12): linear fit = 1.00 x + 0.0 (1352 voxels, peak = 82), gca=82.0 gca peak = 0.11252 (79) mri peak = 0.10530 (81) Right_Putamen (51): linear fit = 0.99 x + 0.0 (1452 voxels, overlap=0.810) Right_Putamen (51): linear fit = 0.99 x + 0.0 (1452 voxels, peak = 78), gca=77.8 gca peak = 0.08548 (81) mri peak = 0.12866 (80) Brain_Stem (16): linear fit = 1.01 x + 0.0 (8095 voxels, overlap=0.625) Brain_Stem (16): linear fit = 1.01 x + 0.0 (8095 voxels, peak = 82), gca=82.2 gca peak = 0.12327 (95) mri peak = 0.11087 (93) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1009 voxels, overlap=0.809) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1009 voxels, peak = 95), gca=94.5 gca peak = 0.14024 (91) mri peak = 0.10639 (92) Left_VentralDC (28): linear fit = 0.99 x + 0.0 (1015 voxels, overlap=0.838) Left_VentralDC (28): linear fit = 0.99 x + 0.0 (1015 voxels, peak = 90), gca=89.6 gca peak = 0.17532 (25) mri peak = 0.17339 (27) Third_Ventricle (14): linear fit = 1.00 x + 0.0 (248 voxels, overlap=0.991) Third_Ventricle (14): linear fit = 1.00 x + 0.0 (248 voxels, peak = 25), gca=25.0 gca peak = 0.14864 (22) mri peak = 0.16957 (22) Fourth_Ventricle (15): linear fit = 1.02 x + 0.0 (197 voxels, overlap=0.703) Fourth_Ventricle (15): linear fit = 1.02 x + 0.0 (197 voxels, peak = 23), gca=22.5 gca peak Unknown = 0.94777 ( 0) gca peak Left_Inf_Lat_Vent = 0.17102 (31) gca peak CSF = 0.16965 (46) gca peak Left_Accumbens_area = 0.43878 (60) gca peak Left_undetermined = 1.00000 (28) gca peak Left_vessel = 0.89917 (53) gca peak Left_choroid_plexus = 0.10623 (35) gca peak Right_Inf_Lat_Vent = 0.23584 (26) gca peak Right_Accumbens_area = 0.32026 (70) gca peak Right_vessel = 0.77268 (52) gca peak Right_choroid_plexus = 0.13305 (38) gca peak Fifth_Ventricle = 0.77755 (40) gca peak WM_hypointensities = 0.11672 (76) gca peak non_WM_hypointensities = 0.08214 (41) gca peak Optic_Chiasm = 0.52805 (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 1.02 x + 0.0 saving intensity scales to aseg.auto_noCCseg.label_intensities.txt saving sequentially combined intensity scales to aseg.auto_noCCseg.label_intensities.txt 43628 voxels changed in iteration 0 of unlikely voxel relabeling 156 voxels changed in iteration 1 of unlikely voxel relabeling 5 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 55462 gm and wm labels changed (%23 to gray, %77 to white out of all changed labels) 422 hippocampal voxels changed. 0 amygdala voxels changed. Reclassifying using Gibbs Priors pass 1: 56396 changed. image ll: -2.071, PF=0.500 pass 2: 13640 changed. image ll: -2.070, PF=0.500 pass 3: 4024 changed. 42396 voxels changed in iteration 0 of unlikely voxel relabeling 270 voxels changed in iteration 1 of unlikely voxel relabeling 78 voxels changed in iteration 2 of unlikely voxel relabeling 8 voxels changed in iteration 3 of unlikely voxel relabeling 0 voxels changed in iteration 4 of unlikely voxel relabeling 6099 voxels changed in iteration 0 of unlikely voxel relabeling 58 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 4484 voxels changed in iteration 0 of unlikely voxel relabeling 46 voxels changed in iteration 1 of unlikely voxel relabeling 5 voxels changed in iteration 2 of unlikely voxel relabeling 1 voxels changed in iteration 3 of unlikely voxel relabeling 0 voxels changed in iteration 4 of unlikely voxel relabeling 4670 voxels changed in iteration 0 of unlikely voxel relabeling 33 voxels changed in iteration 1 of unlikely voxel relabeling 0 voxels changed in iteration 2 of unlikely voxel relabeling !!!!!!!!! ventricle segment 0 with volume 19252 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 0 with volume 1067 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 1 with volume 15722 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 0 with volume 208 above threshold 100 - not erasing !!!!!!!!!! !!!!!!!!! ventricle segment 1 with volume 483 above threshold 100 - not erasing !!!!!!!!!! writing labeled volume to aseg.auto_noCCseg.mgz mri_ca_label utimesec 1680.905438 mri_ca_label stimesec 2.767883 mri_ca_label ru_maxrss 2090220 mri_ca_label ru_ixrss 0 mri_ca_label ru_idrss 0 mri_ca_label ru_isrss 0 mri_ca_label ru_minflt 2002328 mri_ca_label ru_majflt 0 mri_ca_label ru_nswap 0 mri_ca_label ru_inblock 2232 mri_ca_label ru_oublock 656 mri_ca_label ru_msgsnd 0 mri_ca_label ru_msgrcv 0 mri_ca_label ru_nsignals 0 mri_ca_label ru_nvcsw 3 mri_ca_label ru_nivcsw 4196 mri_ca_label took 28 minutes and 4 seconds. mri_ca_label done @#@FSTIME 2023:09:11:20:23:12 mri_ca_label N 10 e 1683.91 S 2.89 U 1680.90 P 99% M 2090220 F 0 R 2002332 W 0 c 4196 w 4 I 2232 O 656 L 4.15 4.10 4.09 @#@FSLOADPOST 2023:09:11:20:51:16 mri_ca_label N 10 4.01 4.05 4.01 #-------------------------------------- #@# CC Seg Mon Sep 11 20:51:16 +08 2023 mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/transforms/cc_up.lta ED751_SAG_MPRAGE_p2_NON-SSc.nii will read input aseg from aseg.auto_noCCseg.mgz writing aseg with cc labels to aseg.auto.mgz will write lta as /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/transforms/cc_up.lta reading aseg from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/aseg.auto_noCCseg.mgz reading norm from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/norm.mgz 51931 voxels in left wm, 52550 in right wm, xrange [119, 136] searching rotation angles z=[-0 14], y=[-2 12] searching scale 1 Z rot -0.1 searching scale 1 Z rot 0.2 searching scale 1 Z rot 0.4 searching scale 1 Z rot 0.7 searching scale 1 Z rot 0.9 searching scale 1 Z rot 1.2 searching scale 1 Z rot 1.4 searching scale 1 Z rot 1.7 searching scale 1 Z rot 1.9 searching scale 1 Z rot 2.2 searching scale 1 Z rot 2.4 searching scale 1 Z rot 2.7 searching scale 1 Z rot 2.9 searching scale 1 Z rot 3.2 searching scale 1 Z rot 3.4 searching scale 1 Z rot 3.7 searching scale 1 Z rot 3.9 searching scale 1 Z rot 4.2 searching scale 1 Z rot 4.4 searching scale 1 Z rot 4.7 searching scale 1 Z rot 4.9 searching scale 1 Z rot 5.2 searching scale 1 Z rot 5.4 searching scale 1 Z rot 5.7 searching scale 1 Z rot 5.9 searching scale 1 Z rot 6.2 searching scale 1 Z rot 6.4 searching scale 1 Z rot 6.7 searching scale 1 Z rot 6.9 searching scale 1 Z rot 7.2 searching scale 1 Z rot 7.4 searching scale 1 Z rot 7.7 searching scale 1 Z rot 7.9 searching scale 1 Z rot 8.2 searching scale 1 Z rot 8.4 searching scale 1 Z rot 8.7 searching scale 1 Z rot 8.9 searching scale 1 Z rot 9.2 searching scale 1 Z rot 9.4 searching scale 1 Z rot 9.7 searching scale 1 Z rot 9.9 searching scale 1 Z rot 10.2 searching scale 1 Z rot 10.4 searching scale 1 Z rot 10.7 searching scale 1 Z rot 10.9 searching scale 1 Z rot 11.2 searching scale 1 Z rot 11.4 searching scale 1 Z rot 11.7 searching scale 1 Z rot 11.9 searching scale 1 Z rot 12.2 searching scale 1 Z rot 12.4 searching scale 1 Z rot 12.7 searching scale 1 Z rot 12.9 searching scale 1 Z rot 13.2 searching scale 1 Z rot 13.4 searching scale 1 Z rot 13.7 searching scale 1 Z rot 13.9 global minimum found at slice 128.0, rotations (5.60, 7.16) final transformation (x=128.0, yr=5.596, zr=7.162): 0.98747 -0.12468 0.09674 1.98988; 0.12409 0.99220 0.01216 21.45749; -0.09751 0.00000 0.99523 29.01443; 0.00000 0.00000 0.00000 1.00000; updating x range to be [126, 132] in xformed coordinates best xformed slice 127 min_x_fornix = 125 min_x_fornix = 126 min_x_fornix = 127 min_x_fornix = 126 min_x_fornix = 125 cc center is found at 127 90 112 eigenvectors: 0.00294 0.00804 0.99996; 0.05978 -0.99818 0.00785; 0.99821 0.05975 -0.00342; error in mid anterior detected - correcting... writing aseg with callosum to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/aseg.auto.mgz... corpus callosum segmentation took 0.6 minutes #VMPC# mri_cc VmPeak 446716 mri_cc done @#@FSTIME 2023:09:11:20:51:16 mri_cc N 7 e 35.66 S 0.31 U 35.34 P 99% M 345872 F 0 R 277713 W 0 c 110 w 1 I 0 O 608 L 4.01 4.05 4.01 @#@FSLOADPOST 2023:09:11:20:51:51 mri_cc N 7 4.00 4.04 4.01 #-------------------------------------- #@# Merge ASeg Mon Sep 11 20:51:51 +08 2023 cp aseg.auto.mgz aseg.presurf.mgz #-------------------------------------------- #@# Intensity Normalization2 Mon Sep 11 20:51:51 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_normalize -seed 1234 -mprage -aseg aseg.presurf.mgz -mask brainmask.mgz norm.mgz brain.mgz 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 aseg read with width 256 (src width 256) ************** resampling aseg to account for mismatch with source image *************** normalizing image... NOT doing gentle normalization with control points/label processing with aseg removing outliers in the aseg WM... 309 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 109 gm peak at 85 (85), valley at 71 (71) csf peak at 26, setting threshold to 65 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 81 (81), valley at 37 (37) csf peak at 41, setting threshold to 67 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to brain.mgz 3D bias adjustment took 2 minutes and 7 seconds. @#@FSTIME 2023:09:11:20:51:51 mri_normalize N 9 e 131.91 S 1.27 U 130.64 P 99% M 1204560 F 0 R 666881 W 0 c 180 w 1 I 0 O 2112 L 4.00 4.04 4.01 @#@FSLOADPOST 2023:09:11:20:54:03 mri_normalize N 9 4.15 4.10 4.03 #-------------------------------------------- #@# Mask BFS Mon Sep 11 20:54:03 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz threshold mask volume at 5 DoAbs = 0 Found 1250969 voxels in mask (pct= 7.46) maskval=0, outval=0 Writing masked volume to brain.finalsurfs.mgz...done. @#@FSTIME 2023:09:11:20:54:03 mri_mask N 5 e 1.21 S 0.02 U 1.18 P 99% M 73984 F 0 R 17256 W 0 c 11 w 1 I 0 O 2096 L 4.15 4.10 4.03 @#@FSLOADPOST 2023:09:11:20:54:05 mri_mask N 5 4.30 4.13 4.04 cp brain.finalsurfs.mgz brain.finalsurfs.manedit.mgz #-------------------------------------------- #@# WM Segmentation Mon Sep 11 20:54:05 +08 2023 AntsDenoiseImageFs -i brain.mgz -o antsdn.brain.mgz @#@FSTIME 2023:09:11:20:54:05 AntsDenoiseImageFs N 4 e 33.04 S 0.14 U 32.89 P 99% M 350592 F 0 R 86497 W 0 c 142 w 1 I 0 O 2112 L 4.30 4.13 4.04 @#@FSLOADPOST 2023:09:11:20:54:38 AntsDenoiseImageFs N 4 4.25 4.14 4.04 mri_segment -wsizemm 13 -mprage antsdn.brain.mgz wm.seg.mgz 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 MRIintensitySegmentation() wm_low=79, wm_hi=125, gray_hi=99 white = 273162, nonwhite = 16223546, ambig = 280508, nmask = 0 Using local statistics to label ambiguous voxels Autodetecting stats Computing class statistics for intensity windows... CCS WM (102.0): 101.6 +- 5.6 [79.0 --> 125.0] CCS GM (75.0) : 73.3 +- 11.5 [30.0 --> 95.0] white_mean 101.648 white_sigma 5.64649 gray_mean 73.2989 gray_sigma 11.5037 setting bottom of white matter range wm_low to 84.8 setting top of gray matter range gray_hi to 96.3 wm_low 84.8026 wm_hi 125 gray_low 30 gray_hi 96.3063 Redoing initial intensity segmentation... MRIintensitySegmentation() wm_low=84.8026, wm_hi=125, gray_hi=96.3063 white = 310551, nonwhite = 16314126, ambig = 152539, nmask = 0 Recomputing local statistics to label ambiguous voxels... wm_low 84.8026 wm_hi 125 gray_low 30 gray_hi 96.3063 using local geometry to label remaining ambiguous voxels... polvwsize = 5, polvlen = 3, gray_hi = 96.3063, wm_low = 84.8026 MRIcpolvMedianCurveSegment(): wsize=5, len=3, gmhi=96.3063, wmlow=84.8026 136527 voxels processed (0.81%) 66059 voxels white (0.39%) 70468 voxels non-white (0.42%) Reclassifying voxels using Gaussian border classifier niter=1 MRIreclassify(): wm_low=79.8026, gray_hi=96.3063, wsize=13 227815 voxels tested (1.36%) 40045 voxels changed (0.24%) 38415 multi-scale searches (0.23%) Recovering bright white MRIrecoverBrightWhite() wm_low 84.8026 wm_hi 125 slack 5.64649 pct_thresh 0.33 intensity_thresh 130.646 nvox_thresh 8.58 112 voxels tested (0.00%) 34 voxels changed (0.00%) removing voxels with positive offset direction... MRIremoveWrongDirection() wsize=3, lowthr=79.8026, hithr=96.3063 smoothing input volume with sigma = 0.250 95612 voxels tested (0.57%) 12718 voxels changed (0.08%) thicken = 1 removing 1-dimensional structures... MRIremove1dStructures(): max_iter=10000, thresh=2, WM_MIN_VAL=5 1540 sparsely connected voxels removed in 1 iterations thickening thin strands.... thickness 4 nsegments 20 wm_hi 125 904 diagonally connected voxels added... MRIthickenThinWMStrands(): thickness=4, nsegments=20 20 segments, 2010 filled MRIfindBrightNonWM(): 1318 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 2023:09:11:20:54:38 mri_segment N 5 e 58.12 S 0.31 U 57.77 P 99% M 142924 F 0 R 287282 W 0 c 294 w 1 I 0 O 664 L 4.25 4.14 4.04 @#@FSLOADPOST 2023:09:11:20:55:36 mri_segment N 5 4.13 4.12 4.04 mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz preserving editing changes in input volume... auto filling took 0.45 minutes reading wm segmentation from wm.seg.mgz... 0 voxels added to wm to prevent paths from MTL structures to cortex 3817 additional wm voxels added 0 additional wm voxels added SEG EDIT: 72867 voxels turned on, 21219 voxels turned off. propagating editing to output volume from wm.seg.mgz writing edited volume to wm.asegedit.mgz.... @#@FSTIME 2023:09:11:20:55:36 mri_edit_wm_with_aseg N 5 e 26.95 S 0.32 U 26.62 P 99% M 463624 F 0 R 315079 W 0 c 50 w 1 I 0 O 640 L 4.13 4.12 4.04 @#@FSLOADPOST 2023:09:11:20:56:03 mri_edit_wm_with_aseg N 5 4.08 4.11 4.04 mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz Iteration Number : 1 pass 1 (xy+): 10 found - 10 modified | TOTAL: 10 pass 2 (xy+): 0 found - 10 modified | TOTAL: 10 pass 1 (xy-): 13 found - 13 modified | TOTAL: 23 pass 2 (xy-): 0 found - 13 modified | TOTAL: 23 pass 1 (yz+): 11 found - 11 modified | TOTAL: 34 pass 2 (yz+): 0 found - 11 modified | TOTAL: 34 pass 1 (yz-): 17 found - 17 modified | TOTAL: 51 pass 2 (yz-): 0 found - 17 modified | TOTAL: 51 pass 1 (xz+): 8 found - 8 modified | TOTAL: 59 pass 2 (xz+): 0 found - 8 modified | TOTAL: 59 pass 1 (xz-): 13 found - 13 modified | TOTAL: 72 pass 2 (xz-): 0 found - 13 modified | TOTAL: 72 Iteration Number : 1 pass 1 (+++): 8 found - 8 modified | TOTAL: 8 pass 2 (+++): 0 found - 8 modified | TOTAL: 8 pass 1 (+++): 2 found - 2 modified | TOTAL: 10 pass 2 (+++): 0 found - 2 modified | TOTAL: 10 pass 1 (+++): 4 found - 4 modified | TOTAL: 14 pass 2 (+++): 0 found - 4 modified | TOTAL: 14 pass 1 (+++): 1 found - 1 modified | TOTAL: 15 pass 2 (+++): 0 found - 1 modified | TOTAL: 15 Iteration Number : 1 pass 1 (++): 28 found - 28 modified | TOTAL: 28 pass 2 (++): 0 found - 28 modified | TOTAL: 28 pass 1 (+-): 15 found - 15 modified | TOTAL: 43 pass 2 (+-): 0 found - 15 modified | TOTAL: 43 pass 1 (--): 26 found - 26 modified | TOTAL: 69 pass 2 (--): 0 found - 26 modified | TOTAL: 69 pass 1 (-+): 38 found - 38 modified | TOTAL: 107 pass 2 (-+): 0 found - 38 modified | TOTAL: 107 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 2 found - 2 modified | TOTAL: 2 pass 2 (xy-): 0 found - 2 modified | TOTAL: 2 pass 1 (yz+): 1 found - 1 modified | TOTAL: 3 pass 2 (yz+): 0 found - 1 modified | TOTAL: 3 pass 1 (yz-): 1 found - 1 modified | TOTAL: 4 pass 2 (yz-): 0 found - 1 modified | TOTAL: 4 pass 1 (xz+): 2 found - 2 modified | TOTAL: 6 pass 2 (xz+): 0 found - 2 modified | TOTAL: 6 pass 1 (xz-): 0 found - 0 modified | TOTAL: 6 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 (+-): 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 Iteration Number : 3 pass 1 (xy+): 1 found - 1 modified | TOTAL: 1 pass 2 (xy+): 0 found - 1 modified | TOTAL: 1 pass 1 (xy-): 0 found - 0 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 = 202 (out of 430382: 0.046935) binarizing input wm segmentation... Ambiguous edge configurations... mri_pretess done @#@FSTIME 2023:09:11:20:56:03 mri_pretess N 4 e 3.70 S 0.02 U 3.66 P 99% M 56704 F 0 R 12944 W 0 c 65 w 1 I 0 O 624 L 4.08 4.11 4.04 @#@FSLOADPOST 2023:09:11:20:56:07 mri_pretess N 4 4.08 4.11 4.04 #-------------------------------------------- #@# Fill Mon Sep 11 20:56:07 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.presurf.mgz -ctab /usr/local/freesurfer/7.4.1/SubCorticalMassLUT.txt wm.mgz filled.mgz 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... done. searching for cutting planes...voxel to talairach voxel transform 1.04930 -0.12886 0.13235 -12.28242; 0.11690 1.12602 0.21134 -39.06715; -0.16371 -0.19325 1.12179 17.12989; 0.00000 0.00000 0.00000 1.00000; reading input volume... wm.mgzvoxel to talairach voxel transform 1.04930 -0.12886 0.13235 -12.28242; 0.11690 1.12602 0.21134 -39.06715; -0.16371 -0.19325 1.12179 17.12989; 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] = 1771 (min = 350, max = 1400), aspect = 0.55 (min = 0.10, max = 0.75) need search nearby using seed (124, 110, 92), TAL = (4.0, -36.0, 18.0) talairach voxel to voxel transform 0.92413 0.08432 -0.12492 16.78456; -0.11746 0.84955 -0.14619 34.25116; 0.11463 0.15865 0.84802 -6.92036; 0.00000 0.00000 0.00000 1.00000; segmentation indicates cc at (124, 110, 92) --> (4.0, -36.0, 18.0) done. filling took 1.0 minutes talairach cc position changed to (4.00, -36.00, 18.00) Erasing brainstem...done. seed_search_size = 9, min_neighbors = 5 search rh wm seed point around talairach space:(22.00, -36.00, 18.00) SRC: (112.53, 101.80, 100.70) search lh wm seed point around talairach space (-14.00, -36.00, 18.00), SRC: (145.79, 97.57, 104.83) 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 2023:09:11:20:56:07 mri_fill N 10 e 57.86 S 0.80 U 57.05 P 99% M 938104 F 0 R 492448 W 0 c 420 w 1 I 0 O 240 L 4.08 4.11 4.04 @#@FSLOADPOST 2023:09:11:20:57:04 mri_fill N 10 4.06 4.10 4.04 cp filled.mgz filled.auto.mgz #-------------------------------------------- #@# Tessellate lh Mon Sep 11 20:57:04 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz Iteration Number : 1 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-): 3 found - 3 modified | TOTAL: 4 pass 2 (xz-): 0 found - 3 modified | TOTAL: 4 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 (++): 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 : 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 = 5 (out of 208588: 0.002397) Ambiguous edge configurations... mri_pretess done @#@FSTIME 2023:09:11:20:57:04 mri_pretess N 4 e 1.76 S 0.01 U 1.75 P 99% M 40320 F 0 R 8787 W 0 c 14 w 1 I 0 O 208 L 4.06 4.10 4.04 @#@FSLOADPOST 2023:09:11:20:57:06 mri_pretess N 4 4.06 4.10 4.04 mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix 7.4.1 7.4.1 slice 60: 561 vertices, 643 faces slice 70: 5539 vertices, 5739 faces slice 80: 13138 vertices, 13425 faces slice 90: 22216 vertices, 22538 faces slice 100: 31027 vertices, 31318 faces slice 110: 40160 vertices, 40471 faces slice 120: 49926 vertices, 50277 faces slice 130: 59958 vertices, 60306 faces slice 140: 69379 vertices, 69704 faces slice 150: 77540 vertices, 77801 faces slice 160: 84622 vertices, 84858 faces slice 170: 90456 vertices, 90658 faces slice 180: 96138 vertices, 96335 faces slice 190: 99784 vertices, 99852 faces slice 200: 100096 vertices, 100112 faces slice 210: 100096 vertices, 100112 faces slice 220: 100096 vertices, 100112 faces slice 230: 100096 vertices, 100112 faces slice 240: 100096 vertices, 100112 faces slice 250: 100096 vertices, 100112 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 2023:09:11:20:57:06 mri_tessellate N 3 e 1.50 S 0.02 U 1.47 P 99% M 34304 F 0 R 7584 W 0 c 10 w 1 I 0 O 4704 L 4.06 4.10 4.04 @#@FSLOADPOST 2023:09:11:20:57:08 mri_tessellate N 3 4.06 4.10 4.04 rm -f ../mri/filled-pretess255.mgz mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix counting number of connected components... 100096 voxel in cpt #1: X=-16 [v=100096,e=300336,f=200224] located at (-26.220459, -7.983706, 34.175091) For the whole surface: X=-16 [v=100096,e=300336,f=200224] One single component has been found nothing to do done @#@FSTIME 2023:09:11:20:57:08 mris_extract_main_component N 2 e 0.53 S 0.05 U 0.47 P 99% M 200720 F 0 R 52235 W 0 c 3 w 1 I 0 O 7040 L 4.06 4.10 4.04 @#@FSLOADPOST 2023:09:11:20:57:08 mris_extract_main_component N 2 4.06 4.10 4.04 #-------------------------------------------- #@# Tessellate rh Mon Sep 11 20:57:08 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz 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+): 3 found - 3 modified | TOTAL: 5 pass 2 (yz+): 0 found - 3 modified | TOTAL: 5 pass 1 (yz-): 1 found - 1 modified | TOTAL: 6 pass 2 (yz-): 0 found - 1 modified | TOTAL: 6 pass 1 (xz+): 4 found - 4 modified | TOTAL: 10 pass 2 (xz+): 0 found - 4 modified | TOTAL: 10 pass 1 (xz-): 0 found - 0 modified | TOTAL: 10 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 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 (+++): 0 found - 0 modified | TOTAL: 3 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 (-+): 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+): 1 found - 1 modified | TOTAL: 1 pass 2 (xz+): 0 found - 1 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+): 1 found - 1 modified | TOTAL: 1 pass 2 (yz+): 0 found - 1 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 = 17 (out of 208786: 0.008142) Ambiguous edge configurations... mri_pretess done @#@FSTIME 2023:09:11:20:57:08 mri_pretess N 4 e 2.84 S 0.02 U 2.81 P 99% M 40192 F 0 R 8788 W 0 c 21 w 1 I 0 O 208 L 4.06 4.10 4.04 @#@FSLOADPOST 2023:09:11:20:57:11 mri_pretess N 4 4.05 4.10 4.04 mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix 7.4.1 7.4.1 slice 60: 3359 vertices, 3540 faces slice 70: 11003 vertices, 11322 faces slice 80: 21233 vertices, 21626 faces slice 90: 31637 vertices, 31930 faces slice 100: 41247 vertices, 41597 faces slice 110: 51575 vertices, 51911 faces slice 120: 61130 vertices, 61456 faces slice 130: 69571 vertices, 69867 faces slice 140: 77764 vertices, 78036 faces slice 150: 84311 vertices, 84526 faces slice 160: 90336 vertices, 90546 faces slice 170: 95590 vertices, 95764 faces slice 180: 99662 vertices, 99810 faces slice 190: 101939 vertices, 101982 faces slice 200: 102086 vertices, 102092 faces slice 210: 102086 vertices, 102092 faces slice 220: 102086 vertices, 102092 faces slice 230: 102086 vertices, 102092 faces slice 240: 102086 vertices, 102092 faces slice 250: 102086 vertices, 102092 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 2023:09:11:20:57:11 mri_tessellate N 3 e 1.53 S 0.00 U 1.52 P 99% M 34432 F 0 R 7630 W 0 c 19 w 1 I 0 O 4792 L 4.05 4.10 4.04 @#@FSLOADPOST 2023:09:11:20:57:13 mri_tessellate N 3 4.05 4.10 4.04 rm -f ../mri/filled-pretess127.mgz mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix counting number of connected components... 102086 voxel in cpt #1: X=-6 [v=102086,e=306276,f=204184] located at (25.955351, -16.307594, 25.965647) For the whole surface: X=-6 [v=102086,e=306276,f=204184] One single component has been found nothing to do done @#@FSTIME 2023:09:11:20:57:13 mris_extract_main_component N 2 e 0.57 S 0.09 U 0.48 P 99% M 204464 F 0 R 53710 W 0 c 4 w 1 I 0 O 7184 L 4.05 4.10 4.04 @#@FSLOADPOST 2023:09:11:20:57:13 mris_extract_main_component N 2 4.05 4.10 4.04 #-------------------------------------------- #@# Smooth1 lh Mon Sep 11 20:57:13 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:09:11:20:57:13 mris_smooth N 5 e 1.66 S 0.06 U 1.59 P 99% M 160504 F 0 R 44628 W 0 c 10 w 1 I 0 O 7048 L 4.05 4.10 4.04 @#@FSLOADPOST 2023:09:11:20:57:15 mris_smooth N 5 4.05 4.10 4.04 #-------------------------------------------- #@# Smooth1 rh Mon Sep 11 20:57:15 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... @#@FSTIME 2023:09:11:20:57:15 mris_smooth N 5 e 1.74 S 0.07 U 1.66 P 99% M 163480 F 0 R 48589 W 0 c 11 w 1 I 0 O 7184 L 4.05 4.10 4.04 @#@FSLOADPOST 2023:09:11:20:57:17 mris_smooth N 5 4.05 4.10 4.04 #-------------------------------------------- #@# Inflation1 lh Mon Sep 11 20:57:17 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix Not saving sulc Reading ../surf/lh.smoothwm.nofix avg radius = 41.9 mm, total surface area = 53837 mm^2 step 000: RMS=0.147 (target=0.015) step 005: RMS=0.110 (target=0.015) step 010: RMS=0.078 (target=0.015) step 015: RMS=0.063 (target=0.015) step 020: RMS=0.054 (target=0.015) step 025: RMS=0.046 (target=0.015) step 030: RMS=0.040 (target=0.015) step 035: RMS=0.036 (target=0.015) step 040: RMS=0.033 (target=0.015) step 045: RMS=0.029 (target=0.015) step 050: RMS=0.027 (target=0.015) step 055: RMS=0.027 (target=0.015) step 060: RMS=0.026 (target=0.015) writing inflated surface to ../surf/lh.inflated.nofix inflation took 0.2 minutes inflation complete. Not saving sulc mris_inflate utimesec 10.737090 mris_inflate stimesec 0.599837 mris_inflate ru_maxrss 160624 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 425854 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 7048 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 94 @#@FSTIME 2023:09:11:20:57:17 mris_inflate N 3 e 11.35 S 0.60 U 10.73 P 99% M 160624 F 0 R 425859 W 0 c 94 w 1 I 0 O 7048 L 4.05 4.10 4.04 @#@FSLOADPOST 2023:09:11:20:57:28 mris_inflate N 3 4.44 4.18 4.07 #-------------------------------------------- #@# Inflation1 rh Mon Sep 11 20:57:28 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix Not saving sulc Reading ../surf/rh.smoothwm.nofix avg radius = 42.8 mm, total surface area = 55291 mm^2 step 000: RMS=0.144 (target=0.015) step 005: RMS=0.108 (target=0.015) step 010: RMS=0.077 (target=0.015) step 015: RMS=0.063 (target=0.015) step 020: RMS=0.053 (target=0.015) step 025: RMS=0.045 (target=0.015) step 030: RMS=0.040 (target=0.015) step 035: RMS=0.034 (target=0.015) step 040: RMS=0.030 (target=0.015) step 045: RMS=0.027 (target=0.015) step 050: RMS=0.025 (target=0.015) step 055: RMS=0.024 (target=0.015) step 060: RMS=0.023 (target=0.015) writing inflated surface to ../surf/rh.inflated.nofix inflation took 0.2 minutes inflation complete. Not saving sulc mris_inflate utimesec 11.009653 mris_inflate stimesec 0.044022 mris_inflate ru_maxrss 164312 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 43518 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 7200 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 45 @#@FSTIME 2023:09:11:20:57:28 mris_inflate N 3 e 11.06 S 0.05 U 11.01 P 99% M 164440 F 0 R 43523 W 0 c 45 w 1 I 0 O 7200 L 4.44 4.18 4.07 @#@FSLOADPOST 2023:09:11:20:57:39 mris_inflate N 3 4.34 4.17 4.06 #-------------------------------------------- #@# QSphere lh Mon Sep 11 20:57:39 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_sphere -q -p 6 -a 128 -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix doing quick spherical unfolding. limitting unfolding to 6 passes using n_averages = 128 setting seed for random number genererator to 1234 version: 7.4.1 available threads: 1 scaling brain by 0.384... inflating... projecting onto sphere... surface projected - minimizing metric distortion... vertex spacing 1.16 +- 0.59 (0.01-->6.33) (max @ vno 38904 --> 39876) face area 0.04 +- 0.04 (-0.03-->0.83) Entering MRISinflateToSphere() inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=174.998, avgs=0 005/300: dt: 0.9000, rms radial error=174.743, avgs=0 010/300: dt: 0.9000, rms radial error=174.193, avgs=0 015/300: dt: 0.9000, rms radial error=173.471, avgs=0 020/300: dt: 0.9000, rms radial error=172.648, avgs=0 025/300: dt: 0.9000, rms radial error=171.768, avgs=0 030/300: dt: 0.9000, rms radial error=170.855, avgs=0 035/300: dt: 0.9000, rms radial error=169.925, avgs=0 040/300: dt: 0.9000, rms radial error=168.987, avgs=0 045/300: dt: 0.9000, rms radial error=168.047, avgs=0 050/300: dt: 0.9000, rms radial error=167.107, avgs=0 055/300: dt: 0.9000, rms radial error=166.170, avgs=0 060/300: dt: 0.9000, rms radial error=165.236, avgs=0 065/300: dt: 0.9000, rms radial error=164.308, avgs=0 070/300: dt: 0.9000, rms radial error=163.384, avgs=0 075/300: dt: 0.9000, rms radial error=162.465, avgs=0 080/300: dt: 0.9000, rms radial error=161.552, avgs=0 085/300: dt: 0.9000, rms radial error=160.643, avgs=0 090/300: dt: 0.9000, rms radial error=159.740, avgs=0 095/300: dt: 0.9000, rms radial error=158.842, avgs=0 100/300: dt: 0.9000, rms radial error=157.949, avgs=0 105/300: dt: 0.9000, rms radial error=157.060, avgs=0 110/300: dt: 0.9000, rms radial error=156.177, avgs=0 115/300: dt: 0.9000, rms radial error=155.298, avgs=0 120/300: dt: 0.9000, rms radial error=154.424, avgs=0 125/300: dt: 0.9000, rms radial error=153.555, avgs=0 130/300: dt: 0.9000, rms radial error=152.691, avgs=0 135/300: dt: 0.9000, rms radial error=151.831, avgs=0 140/300: dt: 0.9000, rms radial error=150.977, avgs=0 145/300: dt: 0.9000, rms radial error=150.127, avgs=0 150/300: dt: 0.9000, rms radial error=149.281, avgs=0 155/300: dt: 0.9000, rms radial error=148.441, avgs=0 160/300: dt: 0.9000, rms radial error=147.605, avgs=0 165/300: dt: 0.9000, rms radial error=146.774, avgs=0 170/300: dt: 0.9000, rms radial error=145.947, avgs=0 175/300: dt: 0.9000, rms radial error=145.125, avgs=0 180/300: dt: 0.9000, rms radial error=144.308, avgs=0 185/300: dt: 0.9000, rms radial error=143.495, avgs=0 190/300: dt: 0.9000, rms radial error=142.687, avgs=0 195/300: dt: 0.9000, rms radial error=141.884, avgs=0 200/300: dt: 0.9000, rms radial error=141.085, avgs=0 205/300: dt: 0.9000, rms radial error=140.291, avgs=0 210/300: dt: 0.9000, rms radial error=139.501, avgs=0 215/300: dt: 0.9000, rms radial error=138.715, avgs=0 220/300: dt: 0.9000, rms radial error=137.935, avgs=0 225/300: dt: 0.9000, rms radial error=137.158, avgs=0 230/300: dt: 0.9000, rms radial error=136.386, avgs=0 235/300: dt: 0.9000, rms radial error=135.618, avgs=0 240/300: dt: 0.9000, rms radial error=134.855, avgs=0 245/300: dt: 0.9000, rms radial error=134.096, avgs=0 250/300: dt: 0.9000, rms radial error=133.341, avgs=0 255/300: dt: 0.9000, rms radial error=132.590, avgs=0 260/300: dt: 0.9000, rms radial error=131.843, avgs=0 265/300: dt: 0.9000, rms radial error=131.101, avgs=0 270/300: dt: 0.9000, rms radial error=130.362, avgs=0 275/300: dt: 0.9000, rms radial error=129.628, avgs=0 280/300: dt: 0.9000, rms radial error=128.898, avgs=0 285/300: dt: 0.9000, rms radial error=128.173, avgs=0 290/300: dt: 0.9000, rms radial error=127.451, avgs=0 295/300: dt: 0.9000, rms radial error=126.733, avgs=0 300/300: dt: 0.9000, rms radial error=126.019, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 10679.50 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00065 epoch 2 (K=40.0), pass 1, starting sse = 1399.77 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.02/13 = 0.00145 epoch 3 (K=160.0), pass 1, starting sse = 76.30 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.27/21 = 0.01269 epoch 4 (K=640.0), pass 1, starting sse = 1.55 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.17/21 = 0.00830 final distance error %100000.00 writing spherical brain to ../surf/lh.qsphere.nofix spherical transformation took 0.0234 hours FSRUNTIME@ mris_sphere 0.0234 hours 1 threads #VMPC# mris_sphere VmPeak 429432 mris_sphere done @#@FSTIME 2023:09:11:20:57:39 mris_sphere N 9 e 84.13 S 3.85 U 80.26 P 99% M 164024 F 0 R 2730641 W 0 c 319 w 1 I 0 O 7064 L 4.34 4.17 4.06 @#@FSLOADPOST 2023:09:11:20:59:03 mris_sphere N 9 4.20 4.16 4.07 #-------------------------------------------- #@# QSphere rh Mon Sep 11 20:59:03 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_sphere -q -p 6 -a 128 -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix doing quick spherical unfolding. limitting unfolding to 6 passes using n_averages = 128 setting seed for random number genererator to 1234 version: 7.4.1 available threads: 1 scaling brain by 0.371... inflating... projecting onto sphere... surface projected - minimizing metric distortion... vertex spacing 1.14 +- 0.61 (0.00-->6.79) (max @ vno 45186 --> 46200) face area 0.04 +- 0.04 (-0.07-->0.68) Entering MRISinflateToSphere() inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=175.264, avgs=0 005/300: dt: 0.9000, rms radial error=175.007, avgs=0 010/300: dt: 0.9000, rms radial error=174.453, avgs=0 015/300: dt: 0.9000, rms radial error=173.728, avgs=0 020/300: dt: 0.9000, rms radial error=172.903, avgs=0 025/300: dt: 0.9000, rms radial error=172.027, avgs=0 030/300: dt: 0.9000, rms radial error=171.120, avgs=0 035/300: dt: 0.9000, rms radial error=170.198, avgs=0 040/300: dt: 0.9000, rms radial error=169.267, avgs=0 045/300: dt: 0.9000, rms radial error=168.333, avgs=0 050/300: dt: 0.9000, rms radial error=167.401, avgs=0 055/300: dt: 0.9000, rms radial error=166.471, avgs=0 060/300: dt: 0.9000, rms radial error=165.545, avgs=0 065/300: dt: 0.9000, rms radial error=164.622, avgs=0 070/300: dt: 0.9000, rms radial error=163.704, avgs=0 075/300: dt: 0.9000, rms radial error=162.790, avgs=0 080/300: dt: 0.9000, rms radial error=161.881, avgs=0 085/300: dt: 0.9000, rms radial error=160.977, avgs=0 090/300: dt: 0.9000, rms radial error=160.077, avgs=0 095/300: dt: 0.9000, rms radial error=159.182, avgs=0 100/300: dt: 0.9000, rms radial error=158.292, avgs=0 105/300: dt: 0.9000, rms radial error=157.407, avgs=0 110/300: dt: 0.9000, rms radial error=156.525, avgs=0 115/300: dt: 0.9000, rms radial error=155.649, avgs=0 120/300: dt: 0.9000, rms radial error=154.777, avgs=0 125/300: dt: 0.9000, rms radial error=153.910, avgs=0 130/300: dt: 0.9000, rms radial error=153.048, avgs=0 135/300: dt: 0.9000, rms radial error=152.190, avgs=0 140/300: dt: 0.9000, rms radial error=151.337, avgs=0 145/300: dt: 0.9000, rms radial error=150.489, avgs=0 150/300: dt: 0.9000, rms radial error=149.645, avgs=0 155/300: dt: 0.9000, rms radial error=148.805, avgs=0 160/300: dt: 0.9000, rms radial error=147.971, avgs=0 165/300: dt: 0.9000, rms radial error=147.140, avgs=0 170/300: dt: 0.9000, rms radial error=146.314, avgs=0 175/300: dt: 0.9000, rms radial error=145.493, avgs=0 180/300: dt: 0.9000, rms radial error=144.676, avgs=0 185/300: dt: 0.9000, rms radial error=143.864, avgs=0 190/300: dt: 0.9000, rms radial error=143.057, avgs=0 195/300: dt: 0.9000, rms radial error=142.254, avgs=0 200/300: dt: 0.9000, rms radial error=141.455, avgs=0 205/300: dt: 0.9000, rms radial error=140.661, avgs=0 210/300: dt: 0.9000, rms radial error=139.871, avgs=0 215/300: dt: 0.9000, rms radial error=139.085, avgs=0 220/300: dt: 0.9000, rms radial error=138.304, avgs=0 225/300: dt: 0.9000, rms radial error=137.527, avgs=0 230/300: dt: 0.9000, rms radial error=136.755, avgs=0 235/300: dt: 0.9000, rms radial error=135.986, avgs=0 240/300: dt: 0.9000, rms radial error=135.222, avgs=0 245/300: dt: 0.9000, rms radial error=134.462, avgs=0 250/300: dt: 0.9000, rms radial error=133.706, avgs=0 255/300: dt: 0.9000, rms radial error=132.954, avgs=0 260/300: dt: 0.9000, rms radial error=132.207, avgs=0 265/300: dt: 0.9000, rms radial error=131.464, avgs=0 270/300: dt: 0.9000, rms radial error=130.724, avgs=0 275/300: dt: 0.9000, rms radial error=129.989, avgs=0 280/300: dt: 0.9000, rms radial error=129.258, avgs=0 285/300: dt: 0.9000, rms radial error=128.531, avgs=0 290/300: dt: 0.9000, rms radial error=127.808, avgs=0 295/300: dt: 0.9000, rms radial error=127.090, avgs=0 300/300: dt: 0.9000, rms radial error=126.375, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 11082.55 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/13 = 0.00061 epoch 2 (K=40.0), pass 1, starting sse = 1523.76 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.02/13 = 0.00127 epoch 3 (K=160.0), pass 1, starting sse = 94.14 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.27/20 = 0.01327 epoch 4 (K=640.0), pass 1, starting sse = 1.62 taking momentum steps... taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.17/25 = 0.00691 final distance error %100000.00 writing spherical brain to ../surf/rh.qsphere.nofix spherical transformation took 0.0247 hours FSRUNTIME@ mris_sphere 0.0247 hours 1 threads #VMPC# mris_sphere VmPeak 432572 mris_sphere done @#@FSTIME 2023:09:11:20:59:04 mris_sphere N 9 e 88.98 S 4.17 U 84.80 P 99% M 167508 F 0 R 2907664 W 0 c 222 w 1 I 0 O 7200 L 4.20 4.16 4.07 @#@FSLOADPOST 2023:09:11:21:00:32 mris_sphere N 9 4.12 4.13 4.06 #@# Fix Topology lh Mon Sep 11 21:00:33 +08 2023 mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh 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' 7.4.1 7.4.1 before topology correction, eno=-16 (nv=100096, nf=200224, ne=300336, g=9) 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... 505 ambiguous faces found in tessellation segmenting defects... 11 defects found, arbitrating ambiguous regions... analyzing neighboring defects... 11 defects to be corrected 0 vertices coincident reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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: -9.2279 (-4.6139) -vertex loglikelihood: -6.2769 (-3.1384) -normal dot loglikelihood: -3.6570 (-3.6570) -quad curv loglikelihood: -6.3219 (-3.1610) Total Loglikelihood : -25.4836 CORRECTING DEFECT 0 (vertices=28, convex hull=79, v0=3518) After retessellation of defect 0 (v0=3518), euler #=-8 (99757,299053,199288) : difference with theory (-8) = 0 CORRECTING DEFECT 1 (vertices=20, convex hull=51, v0=8164) After retessellation of defect 1 (v0=8164), euler #=-7 (99766,299097,199324) : difference with theory (-7) = 0 CORRECTING DEFECT 2 (vertices=24, convex hull=56, v0=45630) After retessellation of defect 2 (v0=45630), euler #=-6 (99782,299166,199378) : difference with theory (-6) = 0 CORRECTING DEFECT 3 (vertices=6, convex hull=15, v0=62285) After retessellation of defect 3 (v0=62285), euler #=-5 (99782,299172,199385) : difference with theory (-5) = 0 CORRECTING DEFECT 4 (vertices=65, convex hull=85, v0=64405) After retessellation of defect 4 (v0=64405), euler #=-4 (99817,299315,199494) : difference with theory (-4) = 0 CORRECTING DEFECT 5 (vertices=56, convex hull=78, v0=78032) After retessellation of defect 5 (v0=78032), euler #=-3 (99833,299395,199559) : difference with theory (-3) = 0 CORRECTING DEFECT 6 (vertices=7, convex hull=17, v0=78058) After retessellation of defect 6 (v0=78058), euler #=-2 (99833,299401,199566) : difference with theory (-2) = 0 CORRECTING DEFECT 7 (vertices=56, convex hull=78, v0=78202) After retessellation of defect 7 (v0=78202), euler #=-1 (99866,299531,199664) : difference with theory (-1) = 0 CORRECTING DEFECT 8 (vertices=51, convex hull=71, v0=84611) After retessellation of defect 8 (v0=84611), euler #=0 (99885,299616,199731) : difference with theory (0) = 0 CORRECTING DEFECT 9 (vertices=17, convex hull=52, v0=87426) After retessellation of defect 9 (v0=87426), euler #=1 (99895,299666,199772) : difference with theory (1) = 0 CORRECTING DEFECT 10 (vertices=18, convex hull=38, v0=99345) After retessellation of defect 10 (v0=99345), euler #=2 (99903,299703,199802) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.88 +- 0.21 (0.08-->5.29) (max @ vno 79435 --> 82255) face area -nan +- -nan (1000.00-->-1.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.88 +- 0.21 (0.08-->5.29) (max @ vno 79435 --> 82255) face area -nan +- -nan (1000.00-->-1.00) tessellation finished, orienting corrected surface... 20 mutations (32.8%), 41 crossovers (67.2%), 12 vertices were eliminated building final representation... 193 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=99903, nf=199802, ne=299703, g=0) writing corrected surface to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.orig.premesh... 0.000 % of the vertices (0 vertices) exhibit an orientation change removing intersecting faces 000: 53 intersecting terminating search with 0 intersecting topology fixing took 0.5 minutes FSRUNTIME@ mris_fix_topology lh 0.0083 hours 1 threads #VMPC# mris_fix_topology VmPeak 726776 @#@FSTIME 2023:09:11:21:00:33 mris_fix_topology N 14 e 29.97 S 0.32 U 29.63 P 99% M 700712 F 0 R 203352 W 0 c 122 w 1 I 0 O 9400 L 4.12 4.13 4.06 @#@FSLOADPOST 2023:09:11:21:01:02 mris_fix_topology N 14 4.07 4.12 4.06 #@# Fix Topology rh Mon Sep 11 21:01:02 +08 2023 mris_fix_topology -mgz -sphere qsphere.nofix -inflated inflated.nofix -orig orig.nofix -out orig.premesh -ga -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh 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' 7.4.1 7.4.1 before topology correction, eno=-6 (nv=102086, nf=204184, ne=306276, g=4) 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 12 iterations marking ambiguous vertices... 183 ambiguous faces found in tessellation segmenting defects... 5 defects found, arbitrating ambiguous regions... analyzing neighboring defects... 5 defects to be corrected 0 vertices coincident reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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: -9.1008 (-4.5504) -vertex loglikelihood: -6.2512 (-3.1256) -normal dot loglikelihood: -3.6679 (-3.6679) -quad curv loglikelihood: -6.2872 (-3.1436) Total Loglikelihood : -25.3072 CORRECTING DEFECT 0 (vertices=19, convex hull=53, v0=40400) After retessellation of defect 0 (v0=40400), euler #=-2 (101970,305825,203853) : difference with theory (-2) = 0 CORRECTING DEFECT 1 (vertices=21, convex hull=44, v0=48986) After retessellation of defect 1 (v0=48986), euler #=-1 (101979,305865,203885) : difference with theory (-1) = 0 CORRECTING DEFECT 2 (vertices=22, convex hull=78, v0=77005) After retessellation of defect 2 (v0=77005), euler #=0 (101988,305924,203936) : difference with theory (0) = 0 CORRECTING DEFECT 3 (vertices=46, convex hull=39, v0=77539) After retessellation of defect 3 (v0=77539), euler #=1 (101994,305956,203963) : difference with theory (1) = 0 CORRECTING DEFECT 4 (vertices=17, convex hull=47, v0=87205) After retessellation of defect 4 (v0=87205), euler #=2 (102002,306000,204000) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.89 +- 0.20 (0.12-->4.96) (max @ vno 39462 --> 43719) face area -nan +- -nan (1000.00-->-1.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.89 +- 0.20 (0.12-->4.96) (max @ vno 39462 --> 43719) face area -nan +- -nan (1000.00-->-1.00) tessellation finished, orienting corrected surface... 14 mutations (25.9%), 40 crossovers (74.1%), 10 vertices were eliminated building final representation... 84 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=102002, nf=204000, ne=306000, g=0) writing corrected surface to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.orig.premesh... 0.000 % of the vertices (0 vertices) exhibit an orientation change removing intersecting faces 000: 29 intersecting terminating search with 0 intersecting topology fixing took 0.3 minutes FSRUNTIME@ mris_fix_topology rh 0.0054 hours 1 threads #VMPC# mris_fix_topology VmPeak 728680 @#@FSTIME 2023:09:11:21:01:03 mris_fix_topology N 14 e 19.32 S 0.29 U 19.02 P 99% M 702448 F 0 R 205377 W 0 c 88 w 1 I 0 O 9576 L 4.07 4.12 4.06 @#@FSLOADPOST 2023:09:11:21:01:22 mris_fix_topology N 14 4.05 4.11 4.06 mris_euler_number ../surf/lh.orig.premesh euler # = v-e+f = 2g-2: 99903 - 299703 + 199802 = 2 --> 0 holes F =2V-4: 199802 = 199806-4 (0) 2E=3F: 599406 = 599406 (0) total defect index = 0 mris_euler_number ../surf/rh.orig.premesh euler # = v-e+f = 2g-2: 102002 - 306000 + 204000 = 2 --> 0 holes F =2V-4: 204000 = 204004-4 (0) 2E=3F: 612000 = 612000 (0) total defect index = 0 Mon Sep 11 21:01:23 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts /usr/local/freesurfer/7.4.1/bin/defect2seg --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 defect2seg 7.4.1 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux pid 939641 mri_label2label --label-cortex /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.orig.nofix /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/aseg.presurf.mgz 0 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.nofix.cortex.label Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 12 non-cortical segments detected only using segment with 6770 vertices erasing segment 0 (vno[0] = 23897) erasing segment 2 (vno[0] = 66367) erasing segment 3 (vno[0] = 66386) erasing segment 4 (vno[0] = 69913) erasing segment 5 (vno[0] = 70858) erasing segment 6 (vno[0] = 71760) erasing segment 7 (vno[0] = 71897) erasing segment 8 (vno[0] = 78740) erasing segment 9 (vno[0] = 80411) erasing segment 10 (vno[0] = 81828) erasing segment 11 (vno[0] = 87947) mri_label2vol --defects /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.orig.nofix /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.defect_labels /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz 1000 0 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/surface.defects.mgz /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.nofix.cortex.label mri_label2vol supposed to be reproducible but seed not set Contraining to label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.nofix.cortex.label Changing input type 0 to MRI_INT Converting defects to volume: offset=1000, merge=0 Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/surface.defects.mgz mris_defects_pointset -s /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.orig.nofix -d /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.defect_labels -o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.defects.pointset --label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.nofix.cortex.label Reading in surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.orig.nofix Reading in defect segmentation /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.defect_labels Reading in label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.nofix.cortex.label #VMPC# mris_defects_pointset 136752 mris_defects_pointset done mri_label2label --label-cortex /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.orig.nofix /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/aseg.presurf.mgz 0 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.nofix.cortex.label Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 19 non-cortical segments detected only using segment with 6956 vertices erasing segment 0 (vno[0] = 25393) erasing segment 2 (vno[0] = 39619) erasing segment 3 (vno[0] = 43893) erasing segment 4 (vno[0] = 44967) erasing segment 5 (vno[0] = 45940) erasing segment 6 (vno[0] = 46146) erasing segment 7 (vno[0] = 48900) erasing segment 8 (vno[0] = 49886) erasing segment 9 (vno[0] = 61670) erasing segment 10 (vno[0] = 75150) erasing segment 11 (vno[0] = 75207) erasing segment 12 (vno[0] = 77274) erasing segment 13 (vno[0] = 77474) erasing segment 14 (vno[0] = 78260) erasing segment 15 (vno[0] = 84718) erasing segment 16 (vno[0] = 90187) erasing segment 17 (vno[0] = 91226) erasing segment 18 (vno[0] = 92277) mri_label2vol --defects /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.orig.nofix /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.defect_labels /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/surface.defects.mgz 2000 1 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/surface.defects.mgz /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.nofix.cortex.label mri_label2vol supposed to be reproducible but seed not set Contraining to label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.nofix.cortex.label Converting defects to volume: offset=2000, merge=1 Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/surface.defects.mgz mris_defects_pointset -s /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.orig.nofix -d /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.defect_labels -o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.defects.pointset --label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.nofix.cortex.label Reading in surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.orig.nofix Reading in defect segmentation /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.defect_labels Reading in label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.nofix.cortex.label #VMPC# mris_defects_pointset 139024 mris_defects_pointset done Started at Mon Sep 11 21:01:23 +08 2023 Ended at Mon Sep 11 21:01:45 +08 2023 Defect2seg-Run-Time-Sec 22 Defect2seg-Run-Time-Min 0.44 Defect2seg-Run-Time-Hours 0.01 tkmeditfv ED751_SAG_MPRAGE_p2_NON-SSc.nii brain.finalsurfs.mgz -defect defect2seg Done @#@FSTIME 2023:09:11:21:01:23 defect2seg N 3 e 22.07 S 0.61 U 21.47 P 100% M 328748 F 0 R 363532 W 0 c 130 w 219 I 0 O 16904 L 4.05 4.11 4.06 @#@FSLOADPOST 2023:09:11:21:01:45 defect2seg N 3 4.03 4.10 4.06 mris_remesh --remesh --iters 3 --input /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.orig.premesh --output /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.orig iters = 3 standard remeshing without target adjusted l: 0.706813 remeshing to edge length 0.706813 with 3 iterations avg qual before : 0.892693 after: 0.970981 Removing intersections Remeshed surface quality stats nv0 = 99903 nv = 104549 1.04651 Area 209094 0.29940 0.03345 0.079769 0.4599 Corner 627282 60.00000 8.83609 17.104014 144.6389 Edge 313641 0.83951 0.08221 0.461476 1.2339 Hinge 313641 9.56624 9.74518 0.000085 120.6804 mris_remesh done @#@FSTIME 2023:09:11:21:01:45 mris_remesh N 7 e 17.63 S 0.34 U 17.27 P 99% M 567540 F 0 R 223028 W 0 c 142 w 1 I 0 O 7360 L 4.03 4.10 4.06 @#@FSLOADPOST 2023:09:11:21:02:02 mris_remesh N 7 4.02 4.09 4.06 mris_remesh --remesh --iters 3 --input /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.orig.premesh --output /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.orig iters = 3 standard remeshing without target adjusted l: 0.708041 remeshing to edge length 0.708041 with 3 iterations avg qual before : 0.89428 after: 0.971161 Removing intersections Remeshed surface quality stats nv0 = 102002 nv = 106948 1.04849 Area 213892 0.30057 0.03345 0.102588 0.4687 Corner 641676 60.00000 8.80644 25.021976 128.3352 Edge 320838 0.84110 0.08209 0.457173 1.2587 Hinge 320838 9.47376 9.53620 0.000059 119.7446 mris_remesh done @#@FSTIME 2023:09:11:21:02:02 mris_remesh N 7 e 18.42 S 0.31 U 18.11 P 99% M 576400 F 0 R 226528 W 0 c 63 w 1 I 0 O 7528 L 4.02 4.09 4.06 @#@FSLOADPOST 2023:09:11:21:02:21 mris_remesh N 7 4.02 4.08 4.05 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_remove_intersection ../surf/lh.orig ../surf/lh.orig intersection removal took 0.00 hours Found 0 intersections writing corrected surface to ../surf/lh.orig @#@FSTIME 2023:09:11:21:02:21 mris_remove_intersection N 2 e 3.12 S 0.13 U 2.99 P 99% M 274712 F 0 R 80025 W 0 c 14 w 1 I 0 O 7360 L 4.02 4.08 4.05 @#@FSLOADPOST 2023:09:11:21:02:24 mris_remove_intersection N 2 4.02 4.08 4.05 rm -f ../surf/lh.inflated /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_remove_intersection ../surf/rh.orig ../surf/rh.orig intersection removal took 0.00 hours Found 0 intersections writing corrected surface to ../surf/rh.orig @#@FSTIME 2023:09:11:21:02:24 mris_remove_intersection N 2 e 3.14 S 0.12 U 3.00 P 99% M 276476 F 0 R 80082 W 0 c 104 w 1 I 0 O 7528 L 4.02 4.08 4.05 @#@FSLOADPOST 2023:09:11:21:02:27 mris_remove_intersection N 2 4.33 4.15 4.08 rm -f ../surf/rh.inflated #-------------------------------------------- #@# AutoDetGWStats lh Mon Sep 11 21:02:27 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh 7.4.1 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 mris_autodet_gwstats --o ../surf/autodet.gw.stats.lh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/lh.orig.premesh border white: 190492 voxels (1.14%) border gray 206826 voxels (1.23%) 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=15897, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (99.0): 99.0 +- 7.1 [70.0 --> 110.0] CCS GM (79.0) : 76.8 +- 11.3 [30.0 --> 110.0] white_mean = 98.9943 +/- 7.05579, gray_mean = 76.7786 +/- 11.2777 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=255 nbins=256 intensity peaks found at WM=102+-4.3, GM=70+-13.0 white_mode = 102, gray_mode = 70 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 58.7 (was 70.000000) setting MAX_BORDER_WHITE to 109.1 (was 105.000000) setting MIN_BORDER_WHITE to 70.0 (was 85.000000) setting MAX_CSF to 47.4 (was 40.000000) setting MAX_GRAY to 94.9 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 58.7 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 36.2 (was 40.000000) When placing the white surface white_border_hi = 109.056; white_border_low = 70; white_outside_low = 58.7223; white_inside_hi = 120; white_outside_hi = 109.056; When placing the pial surface pial_border_hi = 58.7223; pial_border_low = 36.167; pial_outside_low = 10; pial_inside_hi = 94.9442; pial_outside_hi = 53.0835; #VMPC# mris_autodet_gwstats VmPeak 219724 mris_autodet_gwstats done @#@FSTIME 2023:09:11:21:02:27 mris_autodet_gwstats N 8 e 3.84 S 0.09 U 3.74 P 99% M 193276 F 0 R 57260 W 0 c 24 w 1 I 0 O 8 L 4.33 4.15 4.08 @#@FSLOADPOST 2023:09:11:21:02:31 mris_autodet_gwstats N 8 4.31 4.15 4.08 #-------------------------------------------- #@# AutoDetGWStats rh Mon Sep 11 21:02:31 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh 7.4.1 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 mris_autodet_gwstats --o ../surf/autodet.gw.stats.rh.dat --i brain.finalsurfs.mgz --wm wm.mgz --surf ../surf/rh.orig.premesh border white: 190492 voxels (1.14%) border gray 206826 voxels (1.23%) 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=15897, wmmin=5, clip=110 Binarizing thresholding at 5 computing class statistics... low=30, hi=110.000000 CCS WM (99.0): 99.0 +- 7.1 [70.0 --> 110.0] CCS GM (79.0) : 76.8 +- 11.3 [30.0 --> 110.0] white_mean = 98.9943 +/- 7.05579, gray_mean = 76.7786 +/- 11.2777 using class modes intead of means, discounting robust sigmas.... MRIScomputeClassModes(): min=0 max=255 nbins=256 intensity peaks found at WM=102+-4.3, GM=72+-11.3 white_mode = 102, gray_mode = 72 std_scale = 1 Applying sanity checks, max_scale_down = 0.2 setting MIN_GRAY_AT_WHITE_BORDER to 60.7 (was 70.000000) setting MAX_BORDER_WHITE to 109.1 (was 105.000000) setting MIN_BORDER_WHITE to 72.0 (was 85.000000) setting MAX_CSF to 49.4 (was 40.000000) setting MAX_GRAY to 94.9 (was 95.000000) setting MAX_GRAY_AT_CSF_BORDER to 60.7 (was 75.000000) setting MIN_GRAY_AT_CSF_BORDER to 38.2 (was 40.000000) When placing the white surface white_border_hi = 109.056; white_border_low = 72; white_outside_low = 60.7223; white_inside_hi = 120; white_outside_hi = 109.056; When placing the pial surface pial_border_hi = 60.7223; pial_border_low = 38.167; pial_outside_low = 10; pial_inside_hi = 94.9442; pial_outside_hi = 55.0835; #VMPC# mris_autodet_gwstats VmPeak 222512 mris_autodet_gwstats done @#@FSTIME 2023:09:11:21:02:31 mris_autodet_gwstats N 8 e 3.78 S 0.11 U 3.67 P 99% M 196096 F 0 R 55076 W 0 c 28 w 1 I 0 O 8 L 4.31 4.15 4.08 @#@FSLOADPOST 2023:09:11:21:02:35 mris_autodet_gwstats N 8 4.28 4.14 4.07 #-------------------------------------------- #@# WhitePreAparc lh Mon Sep 11 21:02:35 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 7.4.1 7.4.1 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 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 209094 0.26539 0.06164 0.000749 0.5414 Corner 627282 60.00000 9.34406 6.319076 149.1054 Edge 313641 0.78659 0.11232 0.037402 1.2596 Hinge 313641 6.35502 6.26616 0.000007 136.8541 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in seg volume aseg.presurf.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=15897, wmmin=5, clip=110 MRIfindBrightNonWM(): 1386 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 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 removing 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=5993, nmarked2=0, nripped=5993 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 52275: xyz = (-47.8885,1.97693,-3.14864) oxyz = (-47.8885,1.97693,-3.14864) wxzy = (-47.8885,1.97693,-3.14864) pxyz = (0,0,0) CBVO Creating mask 104549 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=5993 removing 3 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 #FML# MRISripMidline(): nmarked=5993, nmarked2=0, nripped=5993 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 = 109.0557940; border_low = 70.0000000; outside_low = 58.7223320; outside_hi = 109.0557940; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=104549 Gdiag_no=-1 vno start=0, stop=104549 Replacing 255s with 0s #SI# sigma=2 had to be increased for 161 vertices, nripped=5993 mean border=81.7, 166 (166) missing vertices, mean dist 0.5 [0.7 (%27.9)->1.0 (%72.1))] %52 local maxima, %42 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1212 min Finding expansion regions mean absolute distance = 0.92 +- 1.05 3786 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 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=mtubu, 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=2264180.8, rms=10.458 001: dt: 0.5000, sse=1327177.2, rms=7.865 (24.791%) 002: dt: 0.5000, sse=841868.8, rms=6.101 (22.428%) 003: dt: 0.5000, sse=574514.2, rms=4.859 (20.363%) 004: dt: 0.5000, sse=427877.4, rms=4.010 (17.466%) 005: dt: 0.5000, sse=344229.3, rms=3.435 (14.339%) 006: dt: 0.5000, sse=299043.1, rms=3.074 (10.527%) 007: dt: 0.5000, sse=273451.8, rms=2.847 (7.390%) 008: dt: 0.5000, sse=261531.6, rms=2.727 (4.212%) 009: dt: 0.5000, sse=253789.8, rms=2.646 (2.947%) rms = 2.6169/2.6463, sse=251443.3/253789.8, time step reduction 1 of 3 to 0.250 0 0 1 010: dt: 0.5000, sse=251443.3, rms=2.617 (1.110%) 011: dt: 0.2500, sse=163894.4, rms=1.510 (42.298%) 012: dt: 0.2500, sse=153046.9, rms=1.309 (13.306%) 013: dt: 0.2500, sse=151258.0, rms=1.257 (3.942%) rms = 1.2316/1.2575, sse=149735.8/151258.0, time step reduction 2 of 3 to 0.125 0 0 1 014: dt: 0.2500, sse=149735.8, rms=1.232 (2.059%) rms = 1.2088/1.2316, sse=148625.5/149735.8, time step reduction 3 of 3 to 0.062 0 0 1 015: dt: 0.1250, sse=148625.5, rms=1.209 (1.847%) maximum number of reductions reached, breaking from loop positioning took 1.0 minutes done positioning surface 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=5993 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 #FML# MRISripMidline(): nmarked=6272, nmarked2=0, nripped=6272 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 = 109.0557940; border_low = 70.0000000; outside_low = 58.7223320; outside_hi = 109.0557940; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=104549 Gdiag_no=-1 vno start=0, stop=104549 Replacing 255s with 0s #SI# sigma=1 had to be increased for 83 vertices, nripped=6272 mean border=84.2, 150 (70) missing vertices, mean dist -0.3 [0.7 (%64.0)->0.2 (%36.0))] %57 local maxima, %37 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0860 min Finding expansion regions mean absolute distance = 0.50 +- 0.89 3646 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 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=mtubu, 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=550378.9, rms=4.436 016: dt: 0.5000, sse=331199.3, rms=2.927 (34.026%) 017: dt: 0.5000, sse=279552.0, rms=2.456 (16.065%) 018: dt: 0.5000, sse=262330.8, rms=2.274 (7.441%) rms = 2.2719/2.2736, sse=263040.5/262330.8, time step reduction 1 of 3 to 0.250 0 1 1 019: dt: 0.5000, sse=263040.5, rms=2.272 (0.075%) 020: dt: 0.2500, sse=202645.8, rms=1.407 (38.055%) 021: dt: 0.2500, sse=190223.3, rms=1.194 (15.126%) 022: dt: 0.2500, sse=186867.0, rms=1.115 (6.690%) rms = 1.0670/1.1145, sse=185083.9/186867.0, time step reduction 2 of 3 to 0.125 0 0 1 023: dt: 0.2500, sse=185083.8, rms=1.067 (4.268%) rms = 1.0421/1.0670, sse=183839.5/185083.9, time step reduction 3 of 3 to 0.062 0 0 1 024: dt: 0.1250, sse=183839.5, rms=1.042 (2.335%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes done positioning surface 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=6272 removing 4 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 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=6306, nmarked2=0, nripped=6306 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 = 109.0557940; border_low = 70.0000000; outside_low = 58.7223320; outside_hi = 109.0557940; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=104549 Gdiag_no=-1 vno start=0, stop=104549 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 115 vertices, nripped=6306 mean border=87.2, 144 (52) missing vertices, mean dist -0.3 [0.5 (%69.4)->0.2 (%30.6))] %73 local maxima, %21 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0499 min Finding expansion regions mean absolute distance = 0.45 +- 0.60 4130 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 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=mtubu, 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=503300.6, rms=4.207 025: dt: 0.5000, sse=280098.0, rms=2.504 (40.479%) 026: dt: 0.5000, sse=241886.1, rms=2.084 (16.760%) 027: dt: 0.5000, sse=235884.5, rms=1.988 (4.632%) rms = 2.1410/1.9877, sse=247291.2/235884.5, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=194783.2, rms=1.380 (30.596%) 029: dt: 0.2500, sse=180734.9, rms=1.071 (22.378%) 030: dt: 0.2500, sse=177702.5, rms=0.982 (8.253%) rms = 0.9618/0.9824, sse=176444.5/177702.5, time step reduction 2 of 3 to 0.125 0 0 1 031: dt: 0.2500, sse=176444.5, rms=0.962 (2.105%) rms = 0.9363/0.9618, sse=175485.2/176444.5, time step reduction 3 of 3 to 0.062 0 0 1 032: dt: 0.1250, sse=175485.2, rms=0.936 (2.647%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes done positioning surface 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=6306 removing 3 vertices from ripped group in thread:0 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=6357, nmarked2=0, nripped=6357 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 = 109.0557940; border_low = 70.0000000; outside_low = 58.7223320; outside_hi = 109.0557940; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=104549 Gdiag_no=-1 vno start=0, stop=104549 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 144 vertices, nripped=6357 mean border=88.5, 133 (41) missing vertices, mean dist -0.1 [0.4 (%61.3)->0.3 (%38.7))] %81 local maxima, %13 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0345 min Finding expansion regions mean absolute distance = 0.33 +- 0.44 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 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=mtubu, 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=235186.3, rms=2.061 033: dt: 0.5000, sse=192766.7, rms=1.320 (35.950%) rms = 1.5279/1.3198, sse=202315.4/192766.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 034: dt: 0.2500, sse=172827.5, rms=0.927 (29.750%) 035: dt: 0.2500, sse=168760.3, rms=0.768 (17.191%) rms = 0.7303/0.7678, sse=167754.2/168760.3, time step reduction 2 of 3 to 0.125 0 0 1 036: dt: 0.2500, sse=167754.2, rms=0.730 (4.884%) rms = 0.7164/0.7303, sse=166588.8/167754.2, time step reduction 3 of 3 to 0.062 0 0 1 037: dt: 0.1250, sse=166588.8, rms=0.716 (1.907%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes done positioning surface Removing intersections #ET# mris_place_surface 2.72 minutes Writing output to ../surf/lh.white.preaparc #VMPC# mris_place_surfaces VmPeak 1841624 mris_place_surface done @#@FSTIME 2023:09:11:21:02:35 mris_place_surface N 18 e 169.23 S 0.70 U 168.52 P 99% M 1576892 F 0 R 417032 W 0 c 236 w 1 I 0 O 7376 L 4.28 4.14 4.07 @#@FSLOADPOST 2023:09:11:21:05:24 mris_place_surface N 18 4.06 4.10 4.06 #-------------------------------------------- #@# WhitePreAparc rh Mon Sep 11 21:05:24 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 7.4.1 7.4.1 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 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 213892 0.26681 0.06115 0.004413 0.5714 Corner 641676 60.00000 9.24537 8.366443 134.2477 Edge 320838 0.78875 0.11110 0.066868 1.3000 Hinge 320838 6.30043 6.12429 0.000024 101.9132 Not reading in aparc Reading in input volume brain.finalsurfs.mgz Reading in seg volume aseg.presurf.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=15897, wmmin=5, clip=110 MRIfindBrightNonWM(): 1386 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 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 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=6585, nmarked2=2, nripped=6585 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 53474: xyz = (41.5986,-7.65394,52.9914) oxyz = (41.5986,-7.65394,52.9914) wxzy = (41.5986,-7.65394,52.9914) pxyz = (0,0,0) CBVO Creating mask 106948 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=6585 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=6585, nmarked2=2, nripped=6585 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 = 109.0557940; border_low = 72.0000000; outside_low = 60.7223320; outside_hi = 109.0557940; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=106948 Gdiag_no=-1 vno start=0, stop=106948 Replacing 255s with 0s #SI# sigma=2 had to be increased for 39 vertices, nripped=6585 mean border=82.4, 29 (29) missing vertices, mean dist 0.4 [0.7 (%30.0)->1.0 (%70.0))] %47 local maxima, %47 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1139 min Finding expansion regions mean absolute distance = 0.89 +- 1.03 3346 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 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=mtubu, 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=2128882.2, rms=10.020 001: dt: 0.5000, sse=1216134.1, rms=7.417 (25.976%) 002: dt: 0.5000, sse=755942.2, rms=5.666 (23.614%) 003: dt: 0.5000, sse=511475.8, rms=4.460 (21.283%) 004: dt: 0.5000, sse=381623.5, rms=3.654 (18.063%) 005: dt: 0.5000, sse=314219.4, rms=3.153 (13.709%) 006: dt: 0.5000, sse=278245.9, rms=2.844 (9.813%) 007: dt: 0.5000, sse=260567.8, rms=2.676 (5.896%) 008: dt: 0.5000, sse=250971.0, rms=2.575 (3.769%) 009: dt: 0.5000, sse=246359.3, rms=2.524 (1.988%) rms = 2.4940/2.5242, sse=248376.0/246359.3, time step reduction 1 of 3 to 0.250 0 1 1 010: dt: 0.5000, sse=248376.0, rms=2.494 (1.195%) 011: dt: 0.2500, sse=165393.2, rms=1.367 (45.185%) 012: dt: 0.2500, sse=148973.1, rms=1.161 (15.071%) rms = 1.1179/1.1610, sse=147036.9/148973.1, time step reduction 2 of 3 to 0.125 0 0 1 013: dt: 0.2500, sse=147036.9, rms=1.118 (3.715%) rms = 1.0914/1.1179, sse=145601.1/147036.9, time step reduction 3 of 3 to 0.062 0 0 1 014: dt: 0.1250, sse=145601.1, rms=1.091 (2.368%) maximum number of reductions reached, breaking from loop positioning took 0.9 minutes done positioning surface 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=6585 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=6820, nmarked2=39, nripped=6820 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 = 109.0557940; border_low = 72.0000000; outside_low = 60.7223320; outside_hi = 109.0557940; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=106948 Gdiag_no=-1 vno start=0, stop=106948 Replacing 255s with 0s #SI# sigma=1 had to be increased for 62 vertices, nripped=6820 mean border=84.8, 43 (7) missing vertices, mean dist -0.3 [0.6 (%65.5)->0.2 (%34.5))] %53 local maxima, %40 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0824 min Finding expansion regions mean absolute distance = 0.46 +- 0.86 3679 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 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=mtubu, 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=514301.9, rms=4.181 015: dt: 0.5000, sse=313852.8, rms=2.738 (34.514%) 016: dt: 0.5000, sse=270369.2, rms=2.309 (15.674%) 017: dt: 0.5000, sse=250399.5, rms=2.107 (8.737%) rms = 2.1525/2.1069, sse=253704.8/250399.5, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 018: dt: 0.2500, sse=213485.5, rms=1.601 (24.031%) 019: dt: 0.2500, sse=195686.2, rms=1.289 (19.494%) 020: dt: 0.2500, sse=188805.3, rms=1.145 (11.117%) 021: dt: 0.2500, sse=185533.0, rms=1.062 (7.313%) 022: dt: 0.2500, sse=183891.7, rms=1.007 (5.161%) rms = 0.9742/1.0068, sse=184041.0/183891.7, time step reduction 2 of 3 to 0.125 0 1 1 023: dt: 0.2500, sse=184041.0, rms=0.974 (3.234%) rms = 0.9542/0.9742, sse=182808.9/184041.0, time step reduction 3 of 3 to 0.062 0 0 1 024: dt: 0.1250, sse=182808.9, rms=0.954 (2.058%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes done positioning surface 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=6820 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 2 vertices from ripped group in thread:0 removing 3 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=6839, nmarked2=39, nripped=6839 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 = 109.0557940; border_low = 72.0000000; outside_low = 60.7223320; outside_hi = 109.0557940; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=106948 Gdiag_no=-1 vno start=0, stop=106948 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 119 vertices, nripped=6839 mean border=87.7, 43 (6) missing vertices, mean dist -0.3 [0.5 (%69.7)->0.2 (%30.3))] %70 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0509 min Finding expansion regions mean absolute distance = 0.42 +- 0.58 3750 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 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=mtubu, 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=486855.3, rms=4.049 025: dt: 0.5000, sse=276191.3, rms=2.383 (41.147%) 026: dt: 0.5000, sse=236815.3, rms=1.954 (17.995%) 027: dt: 0.5000, sse=228676.5, rms=1.874 (4.088%) rms = 2.0428/1.8744, sse=242307.8/228676.5, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=191420.5, rms=1.272 (32.145%) 029: dt: 0.2500, sse=178100.5, rms=0.960 (24.484%) 030: dt: 0.2500, sse=174745.0, rms=0.886 (7.800%) rms = 0.8722/0.8855, sse=174599.9/174745.0, time step reduction 2 of 3 to 0.125 0 0 1 031: dt: 0.2500, sse=174599.9, rms=0.872 (1.512%) rms = 0.8528/0.8722, sse=173727.8/174599.9, time step reduction 3 of 3 to 0.062 0 0 1 032: dt: 0.1250, sse=173727.8, rms=0.853 (2.223%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes done positioning surface 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=6839 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 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 removing 2 vertices from ripped group in thread:0 #FML# MRISripMidline(): nmarked=6881, nmarked2=39, nripped=6881 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 = 109.0557940; border_low = 72.0000000; outside_low = 60.7223320; outside_hi = 109.0557940; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=106948 Gdiag_no=-1 vno start=0, stop=106948 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 141 vertices, nripped=6881 mean border=89.0, 74 (6) missing vertices, mean dist -0.1 [0.4 (%60.5)->0.2 (%39.5))] %78 local maxima, %15 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0337 min Finding expansion regions mean absolute distance = 0.31 +- 0.43 3183 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 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=mtubu, 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=227904.6, rms=1.938 033: dt: 0.5000, sse=192889.0, rms=1.270 (34.440%) rms = 1.4625/1.2702, sse=199942.5/192889.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 034: dt: 0.2500, sse=172064.9, rms=0.881 (30.621%) 035: dt: 0.2500, sse=167812.0, rms=0.711 (19.360%) rms = 0.6743/0.7107, sse=167348.4/167812.0, time step reduction 2 of 3 to 0.125 0 0 1 036: dt: 0.2500, sse=167348.4, rms=0.674 (5.115%) rms = 0.6683/0.6743, sse=165577.1/167348.4, time step reduction 3 of 3 to 0.062 0 0 1 037: dt: 0.1250, sse=165577.0, rms=0.668 (0.898%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes done positioning surface Removing intersections #ET# mris_place_surface 2.75 minutes Writing output to ../surf/rh.white.preaparc #VMPC# mris_place_surfaces VmPeak 1873896 mris_place_surface done @#@FSTIME 2023:09:11:21:05:24 mris_place_surface N 18 e 170.51 S 0.59 U 169.90 P 99% M 1609156 F 0 R 422002 W 0 c 752 w 1 I 0 O 7544 L 4.06 4.10 4.06 @#@FSLOADPOST 2023:09:11:21:08:15 mris_place_surface N 18 4.08 4.07 4.05 #-------------------------------------------- #@# CortexLabel lh Mon Sep 11 21:08:15 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 0 ../label/lh.cortex.label Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 5 non-cortical segments detected only using segment with 7702 vertices erasing segment 0 (vno[0] = 19469) erasing segment 2 (vno[0] = 61658) erasing segment 3 (vno[0] = 63785) erasing segment 4 (vno[0] = 85867) @#@FSTIME 2023:09:11:21:08:15 mri_label2label N 5 e 10.16 S 0.10 U 10.04 P 99% M 278472 F 0 R 81195 W 0 c 45 w 1 I 0 O 8328 L 4.08 4.07 4.05 @#@FSLOADPOST 2023:09:11:21:08:25 mri_label2label N 5 4.06 4.06 4.05 #-------------------------------------------- #@# CortexLabel+HipAmyg lh Mon Sep 11 21:08:25 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_label2label --label-cortex ../surf/lh.white.preaparc aseg.presurf.mgz 1 ../label/lh.cortex+hipamyg.label Generating cortex label... RemoveHipAmgy=1 NucAccIsMedialWall=0 mris->useRealRAS=0 7 non-cortical segments detected only using segment with 6422 vertices erasing segment 0 (vno[0] = 19469) erasing segment 2 (vno[0] = 33377) erasing segment 3 (vno[0] = 35017) erasing segment 4 (vno[0] = 61658) erasing segment 5 (vno[0] = 63785) erasing segment 6 (vno[0] = 85867) @#@FSTIME 2023:09:11:21:08:25 mri_label2label N 5 e 10.36 S 0.10 U 10.25 P 99% M 285892 F 0 R 83050 W 0 c 51 w 1 I 0 O 8416 L 4.06 4.06 4.05 @#@FSLOADPOST 2023:09:11:21:08:35 mri_label2label N 5 4.05 4.06 4.05 #-------------------------------------------- #@# CortexLabel rh Mon Sep 11 21:08:35 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 0 ../label/rh.cortex.label Generating cortex label... RemoveHipAmgy=0 NucAccIsMedialWall=0 mris->useRealRAS=0 11 non-cortical segments detected only using segment with 7845 vertices erasing segment 0 (vno[0] = 21630) erasing segment 1 (vno[0] = 22496) erasing segment 3 (vno[0] = 38611) erasing segment 4 (vno[0] = 41123) erasing segment 5 (vno[0] = 52971) erasing segment 6 (vno[0] = 61841) erasing segment 7 (vno[0] = 64148) erasing segment 8 (vno[0] = 70347) erasing segment 9 (vno[0] = 70921) erasing segment 10 (vno[0] = 95005) @#@FSTIME 2023:09:11:21:08:35 mri_label2label N 5 e 9.82 S 0.13 U 9.69 P 99% M 303992 F 0 R 87423 W 0 c 44 w 1 I 0 O 8352 L 4.05 4.06 4.05 @#@FSLOADPOST 2023:09:11:21:08:45 mri_label2label N 5 4.04 4.06 4.05 #-------------------------------------------- #@# CortexLabel+HipAmyg rh Mon Sep 11 21:08:45 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_label2label --label-cortex ../surf/rh.white.preaparc aseg.presurf.mgz 1 ../label/rh.cortex+hipamyg.label Generating cortex label... RemoveHipAmgy=1 NucAccIsMedialWall=0 mris->useRealRAS=0 13 non-cortical segments detected only using segment with 6274 vertices erasing segment 0 (vno[0] = 21630) erasing segment 1 (vno[0] = 22496) erasing segment 3 (vno[0] = 35092) erasing segment 4 (vno[0] = 38611) erasing segment 5 (vno[0] = 41123) erasing segment 6 (vno[0] = 52971) erasing segment 7 (vno[0] = 58967) erasing segment 8 (vno[0] = 64148) erasing segment 9 (vno[0] = 64831) erasing segment 10 (vno[0] = 70347) erasing segment 11 (vno[0] = 70921) erasing segment 12 (vno[0] = 95005) @#@FSTIME 2023:09:11:21:08:45 mri_label2label N 5 e 9.85 S 0.14 U 9.70 P 99% M 311804 F 0 R 91118 W 0 c 47 w 1 I 0 O 8472 L 4.04 4.06 4.05 @#@FSLOADPOST 2023:09:11:21:08:55 mri_label2label N 5 4.04 4.06 4.05 #-------------------------------------------- #@# Smooth2 lh Mon Sep 11 21:08:55 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm 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 2023:09:11:21:08:55 mris_smooth N 7 e 1.94 S 0.07 U 1.86 P 99% M 162144 F 0 R 48483 W 0 c 15 w 1 I 0 O 7360 L 4.04 4.06 4.05 @#@FSLOADPOST 2023:09:11:21:08:57 mris_smooth N 7 4.04 4.06 4.05 #-------------------------------------------- #@# Smooth2 rh Mon Sep 11 21:08:57 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm 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 2023:09:11:21:08:57 mris_smooth N 7 e 1.95 S 0.05 U 1.89 P 99% M 165564 F 0 R 49564 W 0 c 16 w 1 I 0 O 7528 L 4.04 4.06 4.05 @#@FSLOADPOST 2023:09:11:21:08:59 mris_smooth N 7 4.04 4.06 4.05 #-------------------------------------------- #@# Inflation2 lh Mon Sep 11 21:08:59 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_inflate ../surf/lh.smoothwm ../surf/lh.inflated Reading ../surf/lh.smoothwm avg radius = 41.8 mm, total surface area = 62908 mm^2 step 000: RMS=0.166 (target=0.015) step 005: RMS=0.113 (target=0.015) step 010: RMS=0.083 (target=0.015) step 015: RMS=0.068 (target=0.015) step 020: RMS=0.057 (target=0.015) step 025: RMS=0.047 (target=0.015) step 030: RMS=0.039 (target=0.015) step 035: RMS=0.032 (target=0.015) step 040: RMS=0.027 (target=0.015) step 045: RMS=0.024 (target=0.015) step 050: RMS=0.021 (target=0.015) step 055: RMS=0.020 (target=0.015) step 060: RMS=0.018 (target=0.015) writing inflated surface to ../surf/lh.inflated writing sulcal depths to ../surf/lh.sulc inflation complete. inflation took 0.2 minutes mris_inflate utimesec 12.794862 mris_inflate stimesec 0.047995 mris_inflate ru_maxrss 163152 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 42823 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 8184 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 105 @#@FSTIME 2023:09:11:21:08:59 mris_inflate N 2 e 12.85 S 0.05 U 12.79 P 99% M 163408 F 0 R 42829 W 0 c 105 w 1 I 0 O 8184 L 4.04 4.06 4.05 @#@FSLOADPOST 2023:09:11:21:09:12 mris_inflate N 2 4.03 4.05 4.05 #-------------------------------------------- #@# Inflation2 rh Mon Sep 11 21:09:12 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_inflate ../surf/rh.smoothwm ../surf/rh.inflated Reading ../surf/rh.smoothwm avg radius = 42.7 mm, total surface area = 64253 mm^2 step 000: RMS=0.164 (target=0.015) step 005: RMS=0.111 (target=0.015) step 010: RMS=0.083 (target=0.015) step 015: RMS=0.068 (target=0.015) step 020: RMS=0.057 (target=0.015) step 025: RMS=0.047 (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/rh.inflated writing sulcal depths to ../surf/rh.sulc inflation complete. inflation took 0.2 minutes mris_inflate utimesec 13.024462 mris_inflate stimesec 0.092003 mris_inflate ru_maxrss 165792 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 43511 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 8384 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 0 mris_inflate ru_nivcsw 105 @#@FSTIME 2023:09:11:21:09:12 mris_inflate N 2 e 13.13 S 0.09 U 13.02 P 99% M 165920 F 0 R 43516 W 0 c 105 w 1 I 0 O 8384 L 4.03 4.05 4.05 @#@FSLOADPOST 2023:09:11:21:09:25 mris_inflate N 2 4.18 4.08 4.06 #-------------------------------------------- #@# Curv .H and .K lh Mon Sep 11 21:09:25 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_curvature -w -seed 1234 lh.white.preaparc setting seed for random number generator to 1234 total integrated curvature = 16.398*4pi (206.066) --> -15 handles ICI = 124.2, FI = 1086.3, variation=17598.165 writing Gaussian curvature to ./lh.white.preaparc.K...done. writing mean curvature to ./lh.white.preaparc.H...mris_curvature done. @#@FSTIME 2023:09:11:21:09:25 mris_curvature N 4 e 1.01 S 0.04 U 0.97 P 99% M 121012 F 0 R 32771 W 0 c 14 w 1 I 0 O 1648 L 4.18 4.08 4.06 @#@FSLOADPOST 2023:09:11:21:09:26 mris_curvature N 4 4.18 4.08 4.06 rm -f lh.white.H ln -s lh.white.preaparc.H lh.white.H Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux recon-all -s ED751_SAG_MPRAGE_p2_NON-SSc.nii exited with ERRORS at Mon Sep 11 21:09:26 +08 2023 To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting #New# invocation of recon-all Wed Sep 13 11:21:28 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 /usr/local/freesurfer/7.4.1/bin/recon-all -s ED751/SAG_MPRAGE_p2_NON-SS/ED751_SAG_MPRAGE_p2_NON-SSc.nii -autorecon3 -qcache subjid ED751_SAG_MPRAGE_p2_NON-SSc.nii setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Actual FREESURFER_HOME /usr/local/freesurfer/7.4.1 build-stamp.txt: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 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 2021552 kbytes maxproc 62847 maxlocks unlimited maxsignal 62847 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 15Gi 3.6Gi 776Mi 374Mi 11Gi 11Gi Swap: 2.0Gi 93Mi 1.9Gi ######################################## program versions used 7.4.1 (freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460) 7.4.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 7.4.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 7.4.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.4.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-03:21:28-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-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 /usr/local/freesurfer/7.4.1/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 /usr/local/freesurfer/7.4.1/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### #-------------------------------------------- #@# Sphere lh Wed Sep 13 11:21:28 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_sphere -seed 1234 ../surf/lh.inflated ../surf/lh.sphere setting seed for random number genererator to 1234 version: 7.4.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.355... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=mtubu, 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 -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %38.44 pass 1: epoch 2 of 3 starting distance error %18.48 unfolding complete - removing small folds... starting distance error %18.43 removing remaining folds... final distance error %18.43 MRISunfold() return, current seed 1234 -01: dt=0.0000, 66 negative triangles VmPeak 481684 055: dt=0.9900, 66 negative triangles 056: dt=0.9900, 11 negative triangles 057: dt=0.9900, 5 negative triangles 058: dt=0.9900, 6 negative triangles 059: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/lh.sphere spherical transformation took 0.0520 hours FSRUNTIME@ mris_sphere 0.0520 hours 1 threads #VMPC# mris_sphere VmPeak 481684 mris_sphere done @#@FSTIME 2023:09:13:11:21:28 mris_sphere N 4 e 187.05 S 4.93 U 180.55 P 99% M 216356 F 0 R 3137241 W 0 c 3975 w 25 I 10108 O 7376 L 0.60 0.57 0.61 @#@FSLOADPOST 2023:09:13:11:24:35 mris_sphere N 4 4.46 2.81 1.51 #-------------------------------------------- #@# Sphere rh Wed Sep 13 11:24:35 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_sphere -seed 1234 ../surf/rh.inflated ../surf/rh.sphere setting seed for random number genererator to 1234 version: 7.4.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.344... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=mtubu, 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 %18.88 pass 1: epoch 2 of 3 starting distance error %18.88 unfolding complete - removing small folds... starting distance error %18.87 removing remaining folds... final distance error %18.87 MRISunfold() return, current seed 1234 -01: dt=0.0000, 59 negative triangles VmPeak 486556 087: dt=0.9900, 59 negative triangles 088: dt=0.9900, 12 negative triangles 089: dt=0.9900, 1 negative triangles 090: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 0.0788 hours FSRUNTIME@ mris_sphere 0.0788 hours 1 threads #VMPC# mris_sphere VmPeak 486556 mris_sphere done @#@FSTIME 2023:09:13:11:24:35 mris_sphere N 4 e 283.51 S 7.83 U 275.61 P 99% M 221388 F 0 R 5012175 W 0 c 1391 w 24 I 10276 O 7544 L 4.46 2.81 1.51 @#@FSLOADPOST 2023:09:13:11:29:19 mris_sphere N 4 4.10 3.60 2.20 #-------------------------------------------- #@# Surf Reg lh Wed Sep 13 11:29:19 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_register -curv ../surf/lh.sphere /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg using smoothwm curvature for final alignment cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts cmdline mris_register -curv ../surf/lh.sphere /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.4.1 7.4.1 reading surface from ../surf/lh.sphere... reading template parameterization from /usr/local/freesurfer/7.4.1/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=mtubu, 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=mtubu, 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=mtubu, 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 = 5.436 curvature mean = 0.028, std = 0.822 curvature mean = 0.011, std = 0.887 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (-3.00, 0.00, 4.50) sse = 165905.0, elapsed since starting=0.2915 min MRISrigidBodyAlignGlobal() done 0.29 min curvature mean = 0.019, std = 0.852 curvature mean = 0.004, std = 0.959 curvature mean = 0.018, std = 0.865 curvature mean = 0.002, std = 0.984 curvature mean = 0.018, std = 0.869 curvature mean = 0.000, std = 0.994 2 Reading smoothwm curvature mean = -0.019, std = 0.247 curvature mean = 0.043, std = 0.253 curvature mean = 0.050, std = 0.439 curvature mean = 0.041, std = 0.310 curvature mean = 0.018, std = 0.663 curvature mean = 0.041, std = 0.336 curvature mean = 0.008, std = 0.798 curvature mean = 0.041, std = 0.347 curvature mean = 0.001, std = 0.887 MRISregister() return, current seed 0 writing registered surface to ../surf/lh.sphere.reg... -01: dt=0.0000, 0 negative triangles VmPeak 478544 registration took 0.08 hours #VMPC# mris_register VmPeak 478544 FSRUNTIME@ mris_register 0.0815 hours 1 threads @#@FSTIME 2023:09:13:11:29:19 mris_register N 4 e 293.58 S 7.51 U 285.99 P 99% M 213856 F 19 R 4847039 W 0 c 1279 w 30 I 9129 O 7376 L 4.10 3.60 2.20 @#@FSLOADPOST 2023:09:13:11:34:12 mris_register N 4 4.02 3.89 2.71 ln -sf lh.sphere.reg lh.fsaverage.sphere.reg ln: failed to create symbolic link 'lh.fsaverage.sphere.reg': Operation not permitted Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux recon-all -s ED751_SAG_MPRAGE_p2_NON-SSc.nii exited with ERRORS at Wed Sep 13 11:34:12 +08 2023 To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting #New# invocation of recon-all Wed Sep 13 12:14:06 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 /usr/local/freesurfer/7.4.1/bin/recon-all -s ED751/SAG_MPRAGE_p2_NON-SS/ED751_SAG_MPRAGE_p2_NON-SSc.nii -autorecon3 -qcache subjid ED751_SAG_MPRAGE_p2_NON-SSc.nii setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Actual FREESURFER_HOME /usr/local/freesurfer/7.4.1 build-stamp.txt: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 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 2021552 kbytes maxproc 62847 maxlocks unlimited maxsignal 62847 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 15Gi 3.5Gi 2.0Gi 340Mi 9.9Gi 11Gi Swap: 2.0Gi 110Mi 1.9Gi ######################################## program versions used 7.4.1 (freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460) 7.4.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 7.4.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 7.4.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.4.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:14:06-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-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 /usr/local/freesurfer/7.4.1/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 /usr/local/freesurfer/7.4.1/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### #-------------------------------------------- #@# Sphere lh Wed Sep 13 12:14:06 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_sphere -seed 1234 ../surf/lh.inflated ../surf/lh.sphere setting seed for random number genererator to 1234 version: 7.4.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.355... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=mtubu, 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 -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %38.44 pass 1: epoch 2 of 3 starting distance error %18.48 unfolding complete - removing small folds... starting distance error %18.43 removing remaining folds... final distance error %18.43 MRISunfold() return, current seed 1234 -01: dt=0.0000, 66 negative triangles VmPeak 481684 055: dt=0.9900, 66 negative triangles 056: dt=0.9900, 11 negative triangles 057: dt=0.9900, 5 negative triangles 058: dt=0.9900, 6 negative triangles 059: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/lh.sphere spherical transformation took 0.0507 hours FSRUNTIME@ mris_sphere 0.0507 hours 1 threads #VMPC# mris_sphere VmPeak 481684 mris_sphere done @#@FSTIME 2023:09:13:12:14:06 mris_sphere N 4 e 182.40 S 4.95 U 177.06 P 99% M 216440 F 0 R 3137211 W 0 c 1623 w 3 I 1 O 7392 L 5.48 5.16 4.51 @#@FSLOADPOST 2023:09:13:12:17:08 mris_sphere N 4 4.22 4.88 4.53 #-------------------------------------------- #@# Sphere rh Wed Sep 13 12:17:08 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_sphere -seed 1234 ../surf/rh.inflated ../surf/rh.sphere setting seed for random number genererator to 1234 version: 7.4.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.344... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=mtubu, 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 %18.88 pass 1: epoch 2 of 3 starting distance error %18.88 unfolding complete - removing small folds... starting distance error %18.87 removing remaining folds... final distance error %18.87 MRISunfold() return, current seed 1234 -01: dt=0.0000, 59 negative triangles VmPeak 486556 087: dt=0.9900, 59 negative triangles 088: dt=0.9900, 12 negative triangles 089: dt=0.9900, 1 negative triangles 090: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 0.0788 hours FSRUNTIME@ mris_sphere 0.0788 hours 1 threads #VMPC# mris_sphere VmPeak 486556 mris_sphere done @#@FSTIME 2023:09:13:12:17:08 mris_sphere N 4 e 283.59 S 7.46 U 275.97 P 99% M 221520 F 0 R 5012173 W 0 c 1527 w 1 I 0 O 7552 L 4.22 4.88 4.53 @#@FSLOADPOST 2023:09:13:12:21:52 mris_sphere N 4 4.01 4.36 4.40 #-------------------------------------------- #@# Surf Reg lh Wed Sep 13 12:21:52 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_register -curv ../surf/lh.sphere /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg using smoothwm curvature for final alignment cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts cmdline mris_register -curv ../surf/lh.sphere /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.4.1 7.4.1 reading surface from ../surf/lh.sphere... reading template parameterization from /usr/local/freesurfer/7.4.1/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=mtubu, 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=mtubu, 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=mtubu, 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 = 5.436 curvature mean = 0.028, std = 0.822 curvature mean = 0.011, std = 0.887 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (-3.00, 0.00, 4.50) sse = 165905.0, elapsed since starting=0.2933 min MRISrigidBodyAlignGlobal() done 0.29 min curvature mean = 0.019, std = 0.852 curvature mean = 0.004, std = 0.959 curvature mean = 0.018, std = 0.865 curvature mean = 0.002, std = 0.984 curvature mean = 0.018, std = 0.869 curvature mean = 0.000, std = 0.994 2 Reading smoothwm curvature mean = -0.019, std = 0.247 curvature mean = 0.043, std = 0.253 curvature mean = 0.050, std = 0.439 curvature mean = 0.041, std = 0.310 curvature mean = 0.018, std = 0.663 curvature mean = 0.041, std = 0.336 curvature mean = 0.008, std = 0.798 curvature mean = 0.041, std = 0.347 curvature mean = 0.001, std = 0.887 MRISregister() return, current seed 0 writing registered surface to ../surf/lh.sphere.reg... -01: dt=0.0000, 0 negative triangles VmPeak 478544 registration took 0.08 hours #VMPC# mris_register VmPeak 478544 FSRUNTIME@ mris_register 0.0813 hours 1 threads @#@FSTIME 2023:09:13:12:21:52 mris_register N 4 e 292.74 S 7.61 U 285.07 P 99% M 213700 F 0 R 4847039 W 0 c 918 w 0 I 0 O 7384 L 4.01 4.36 4.40 @#@FSLOADPOST 2023:09:13:12:26:45 mris_register N 4 4.00 4.13 4.27 cp -sf lh.sphere.reg lh.fsaverage.sphere.reg cp: cannot create symbolic link 'lh.fsaverage.sphere.reg' to 'lh.sphere.reg': Operation not permitted Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux recon-all -s ED751_SAG_MPRAGE_p2_NON-SSc.nii exited with ERRORS at Wed Sep 13 12:26:45 +08 2023 To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting #New# invocation of recon-all Wed Sep 13 12:41:25 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 /usr/local/freesurfer/7.4.1/bin/recon-all -s ED751/SAG_MPRAGE_p2_NON-SS/ED751_SAG_MPRAGE_p2_NON-SSc.nii -autorecon3 -qcache subjid ED751_SAG_MPRAGE_p2_NON-SSc.nii setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Actual FREESURFER_HOME /usr/local/freesurfer/7.4.1 build-stamp.txt: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 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 2021552 kbytes maxproc 62847 maxlocks unlimited maxsignal 62847 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 15Gi 3.2Gi 2.3Gi 284Mi 9.9Gi 11Gi Swap: 2.0Gi 110Mi 1.9Gi ######################################## program versions used 7.4.1 (freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460) 7.4.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 7.4.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 7.4.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:25-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.4.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-04:41:26-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-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 /usr/local/freesurfer/7.4.1/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 /usr/local/freesurfer/7.4.1/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### #-------------------------------------------- #@# Sphere lh Wed Sep 13 12:41:26 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_sphere -seed 1234 ../surf/lh.inflated ../surf/lh.sphere setting seed for random number genererator to 1234 version: 7.4.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.355... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=mtubu, 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 -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %38.44 pass 1: epoch 2 of 3 starting distance error %18.48 unfolding complete - removing small folds... starting distance error %18.43 removing remaining folds... final distance error %18.43 MRISunfold() return, current seed 1234 -01: dt=0.0000, 66 negative triangles VmPeak 481684 055: dt=0.9900, 66 negative triangles 056: dt=0.9900, 11 negative triangles 057: dt=0.9900, 5 negative triangles 058: dt=0.9900, 6 negative triangles 059: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/lh.sphere spherical transformation took 0.0521 hours FSRUNTIME@ mris_sphere 0.0521 hours 1 threads #VMPC# mris_sphere VmPeak 481684 mris_sphere done @#@FSTIME 2023:09:13:12:41:26 mris_sphere N 4 e 187.57 S 4.70 U 182.10 P 99% M 216580 F 0 R 3137198 W 0 c 3084 w 1 I 0 O 7376 L 5.74 5.06 4.54 @#@FSLOADPOST 2023:09:13:12:44:33 mris_sphere N 4 4.91 4.98 4.60 #-------------------------------------------- #@# Sphere rh Wed Sep 13 12:44:33 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_sphere -seed 1234 ../surf/rh.inflated ../surf/rh.sphere setting seed for random number genererator to 1234 version: 7.4.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.344... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=mtubu, 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 %18.88 pass 1: epoch 2 of 3 starting distance error %18.88 unfolding complete - removing small folds... starting distance error %18.87 removing remaining folds... final distance error %18.87 MRISunfold() return, current seed 1234 -01: dt=0.0000, 59 negative triangles VmPeak 486556 087: dt=0.9900, 59 negative triangles 088: dt=0.9900, 12 negative triangles 089: dt=0.9900, 1 negative triangles 090: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 0.0819 hours FSRUNTIME@ mris_sphere 0.0819 hours 1 threads #VMPC# mris_sphere VmPeak 486556 mris_sphere done @#@FSTIME 2023:09:13:12:44:33 mris_sphere N 4 e 295.01 S 7.77 U 287.11 P 99% M 221624 F 0 R 5012175 W 0 c 1137 w 1 I 0 O 7544 L 4.91 4.98 4.60 @#@FSLOADPOST 2023:09:13:12:49:28 mris_sphere N 4 4.67 4.79 4.63 #-------------------------------------------- #@# Surf Reg lh Wed Sep 13 12:49:28 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_register -curv ../surf/lh.sphere /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg using smoothwm curvature for final alignment cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts cmdline mris_register -curv ../surf/lh.sphere /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.4.1 7.4.1 reading surface from ../surf/lh.sphere... reading template parameterization from /usr/local/freesurfer/7.4.1/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=mtubu, 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=mtubu, 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=mtubu, 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 = 5.436 curvature mean = 0.028, std = 0.822 curvature mean = 0.011, std = 0.887 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (-3.00, 0.00, 4.50) sse = 165905.0, elapsed since starting=0.2974 min MRISrigidBodyAlignGlobal() done 0.30 min curvature mean = 0.019, std = 0.852 curvature mean = 0.004, std = 0.959 curvature mean = 0.018, std = 0.865 curvature mean = 0.002, std = 0.984 curvature mean = 0.018, std = 0.869 curvature mean = 0.000, std = 0.994 2 Reading smoothwm curvature mean = -0.019, std = 0.247 curvature mean = 0.043, std = 0.253 curvature mean = 0.050, std = 0.439 curvature mean = 0.041, std = 0.310 curvature mean = 0.018, std = 0.663 curvature mean = 0.041, std = 0.336 curvature mean = 0.008, std = 0.798 curvature mean = 0.041, std = 0.347 curvature mean = 0.001, std = 0.887 MRISregister() return, current seed 0 writing registered surface to ../surf/lh.sphere.reg... -01: dt=0.0000, 0 negative triangles VmPeak 478544 registration took 0.09 hours #VMPC# mris_register VmPeak 478544 FSRUNTIME@ mris_register 0.0850 hours 1 threads @#@FSTIME 2023:09:13:12:49:28 mris_register N 4 e 306.03 S 7.80 U 297.09 P 99% M 213768 F 0 R 4847056 W 0 c 4574 w 1 I 0 O 7376 L 4.67 4.79 4.63 @#@FSLOADPOST 2023:09:13:12:54:34 mris_register N 4 4.49 4.64 4.60 cp lh.sphere.reg lh.fsaverage.sphere.reg #-------------------------------------------- #@# Surf Reg rh Wed Sep 13 12:54:34 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_register -curv ../surf/rh.sphere /usr/local/freesurfer/7.4.1/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg using smoothwm curvature for final alignment cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts cmdline mris_register -curv ../surf/rh.sphere /usr/local/freesurfer/7.4.1/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.4.1 7.4.1 reading surface from ../surf/rh.sphere... reading template parameterization from /usr/local/freesurfer/7.4.1/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=mtubu, 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=mtubu, 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=mtubu, 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 = 5.504 curvature mean = 0.030, std = 0.819 curvature mean = 0.012, std = 0.887 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (7.50, 1.00, 5.00) sse = 221683.4, elapsed since starting=0.3168 min MRISrigidBodyAlignGlobal() done 0.32 min curvature mean = 0.021, std = 0.852 curvature mean = 0.004, std = 0.960 curvature mean = 0.021, std = 0.865 curvature mean = 0.002, std = 0.985 curvature mean = 0.021, std = 0.869 curvature mean = 0.000, std = 0.995 2 Reading smoothwm curvature mean = -0.020, std = 0.244 curvature mean = 0.038, std = 0.247 curvature mean = 0.049, std = 0.446 curvature mean = 0.036, std = 0.303 curvature mean = 0.016, std = 0.670 curvature mean = 0.036, std = 0.328 curvature mean = 0.006, std = 0.805 curvature mean = 0.036, std = 0.340 curvature mean = 0.000, std = 0.891 MRISregister() return, current seed 0 writing registered surface to ../surf/rh.sphere.reg... -01: dt=0.0000, 0 negative triangles VmPeak 482580 registration took 0.10 hours #VMPC# mris_register VmPeak 482580 FSRUNTIME@ mris_register 0.1042 hours 1 threads @#@FSTIME 2023:09:13:12:54:34 mris_register N 4 e 375.30 S 7.51 U 367.58 P 99% M 217700 F 0 R 4548910 W 0 c 2647 w 15 I 6388 O 7552 L 4.49 4.64 4.60 @#@FSLOADPOST 2023:09:13:13:00:50 mris_register N 4 4.52 4.45 4.51 cp rh.sphere.reg rh.fsaverage.sphere.reg #-------------------------------------------- #@# Jacobian white lh Wed Sep 13 13:00:50 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white reading surface from ../surf/lh.white.preaparc... writing curvature file ../surf/lh.jacobian_white @#@FSTIME 2023:09:13:13:00:50 mris_jacobian N 3 e 0.90 S 0.08 U 0.80 P 97% M 161748 F 8 R 48448 W 0 c 45 w 9 I 8385 O 824 L 4.52 4.45 4.51 @#@FSLOADPOST 2023:09:13:13:00:51 mris_jacobian N 3 4.52 4.45 4.51 #-------------------------------------------- #@# Jacobian white rh Wed Sep 13 13:00:51 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white reading surface from ../surf/rh.white.preaparc... writing curvature file ../surf/rh.jacobian_white @#@FSTIME 2023:09:13:13:00:51 mris_jacobian N 3 e 0.92 S 0.05 U 0.84 P 97% M 165292 F 0 R 49545 W 0 c 33 w 3 I 7490 O 840 L 4.52 4.45 4.51 @#@FSLOADPOST 2023:09:13:13:00:52 mris_jacobian N 3 4.52 4.45 4.51 #-------------------------------------------- #@# AvgCurv lh Wed Sep 13 13:00:52 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mrisp_paint -a 5 /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/lh.sphere.reg... reading template parameterization from /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/lh.avg_curv... @#@FSTIME 2023:09:13:13:00:52 mrisp_paint N 5 e 0.70 S 0.03 U 0.64 P 96% M 126172 F 10 R 33565 W 0 c 44 w 10 I 1560 O 824 L 4.52 4.45 4.51 @#@FSLOADPOST 2023:09:13:13:00:52 mrisp_paint N 5 4.52 4.45 4.51 #-------------------------------------------- #@# AvgCurv rh Wed Sep 13 13:00:52 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mrisp_paint -a 5 /usr/local/freesurfer/7.4.1/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/rh.sphere.reg... reading template parameterization from /usr/local/freesurfer/7.4.1/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/rh.avg_curv... @#@FSTIME 2023:09:13:13:00:52 mrisp_paint N 5 e 0.72 S 0.05 U 0.65 P 98% M 128460 F 0 R 34291 W 0 c 33 w 1 I 0 O 840 L 4.52 4.45 4.51 @#@FSLOADPOST 2023:09:13:13:00:53 mrisp_paint N 5 4.52 4.45 4.51 #----------------------------------------- #@# Cortical Parc lh Wed Sep 13 13:00:53 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh ../surf/lh.sphere.reg /usr/local/freesurfer/7.4.1/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 1098 labels changed using aseg relabeling using gibbs priors... 000: 2442 changed, 104549 examined... 001: 577 changed, 10470 examined... 002: 158 changed, 3273 examined... 003: 68 changed, 963 examined... 004: 26 changed, 398 examined... 005: 11 changed, 155 examined... 006: 1 changed, 71 examined... 007: 1 changed, 7 examined... 008: 0 changed, 7 examined... 255 labels changed using aseg 000: 97 total segments, 53 labels (130 vertices) changed 001: 44 total segments, 2 labels (5 vertices) changed 002: 42 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... 1503 vertices marked for relabeling... 1503 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2023:09:13:13:00:53 mris_ca_label N 11 e 8.37 S 0.56 U 7.72 P 98% M 990804 F 11 R 345004 W 0 c 133 w 17 I 78024 O 1648 L 4.52 4.45 4.51 @#@FSLOADPOST 2023:09:13:13:01:01 mris_ca_label N 11 4.52 4.45 4.51 #----------------------------------------- #@# Cortical Parc rh Wed Sep 13 13:01:01 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh ../surf/rh.sphere.reg /usr/local/freesurfer/7.4.1/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 972 labels changed using aseg relabeling using gibbs priors... 000: 2351 changed, 106948 examined... 001: 541 changed, 10280 examined... 002: 117 changed, 3079 examined... 003: 36 changed, 731 examined... 004: 14 changed, 209 examined... 005: 9 changed, 84 examined... 006: 7 changed, 46 examined... 007: 4 changed, 36 examined... 008: 3 changed, 21 examined... 009: 3 changed, 16 examined... 010: 1 changed, 14 examined... 011: 3 changed, 7 examined... 012: 1 changed, 18 examined... 013: 2 changed, 7 examined... 014: 3 changed, 13 examined... 015: 2 changed, 12 examined... 016: 1 changed, 12 examined... 017: 0 changed, 7 examined... 318 labels changed using aseg 000: 77 total segments, 38 labels (139 vertices) changed 001: 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... 1072 vertices marked for relabeling... 1072 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2023:09:13:13:01:02 mris_ca_label N 11 e 8.00 S 0.43 U 7.53 P 99% M 925016 F 0 R 285554 W 0 c 139 w 7 I 49411 O 1680 L 4.52 4.45 4.51 @#@FSLOADPOST 2023:09:13:13:01:10 mris_ca_label N 11 4.89 4.54 4.54 #-------------------------------------------- #@# WhiteSurfs lh Wed Sep 13 13:01:10 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 7.4.1 7.4.1 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 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 209094 0.33090 0.12622 0.000730 2.3230 Corner 627282 60.00000 15.11047 0.158041 179.6200 Edge 313641 0.88669 0.21119 0.030720 3.1957 Hinge 313641 10.52767 11.64812 0.000043 179.9669 Reading in aparc ../label/lh.aparc.annot [DEBUG] CTABreadFromBinaryV2(): ct->nentries=36, num_entries_to_read=36 Reading in input volume brain.finalsurfs.mgz Reading in seg volume aseg.presurf.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=15897, wmmin=5, clip=110 MRIfindBrightNonWM(): 1386 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex.label MRISripNotLabel() ripped 7886/104549 vertices (96663 unripped) Reading in ripping surface ../surf/lh.white.preaparc Reading in aparc ../label/lh.aparc.annot for ripsurf [DEBUG] CTABreadFromBinaryV2(): ct->nentries=36, num_entries_to_read=36 Ripping BG MRISripBasalGanglia(): 1 -2 2 0.5 ripped 326 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 52275: xyz = (-48.0895,2.01265,-3.26135) oxyz = (-48.0895,2.01265,-3.26135) wxzy = (-48.0895,2.01265,-3.26135) pxyz = (0,0,0) CBVO Creating mask 104549 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0557940; border_low = 70.0000000; outside_low = 58.7223320; outside_hi = 109.0557940; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=104549 Gdiag_no=-1 vno start=0, stop=104549 Replacing 255s with 0s #SI# sigma=2 had to be increased for 99 vertices, nripped=8212 mean border=81.8, 132 (132) missing vertices, mean dist 0.5 [1.2 (%15.2)->0.8 (%84.8))] %49 local maxima, %43 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1134 min Finding expansion regions mean absolute distance = 0.87 +- 1.04 2245 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 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=mtubu, 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=1539897.2, rms=8.496 001: dt: 0.5000, sse=790106.0, rms=5.796 (31.773%) 002: dt: 0.5000, sse=479174.6, rms=4.183 (27.837%) 003: dt: 0.5000, sse=357880.6, rms=3.344 (20.046%) 004: dt: 0.5000, sse=298426.8, rms=2.842 (15.029%) 005: dt: 0.5000, sse=276608.8, rms=2.628 (7.510%) 006: dt: 0.5000, sse=259751.8, rms=2.429 (7.593%) rms = 2.4264/2.4287, sse=258664.4/259751.8, time step reduction 1 of 3 to 0.250 0 0 1 007: dt: 0.5000, sse=258664.4, rms=2.426 (0.097%) 008: dt: 0.2500, sse=184747.3, rms=1.399 (42.328%) 009: dt: 0.2500, sse=176262.3, rms=1.227 (12.337%) rms = 1.1885/1.2267, sse=174771.8/176262.3, time step reduction 2 of 3 to 0.125 0 0 1 010: dt: 0.2500, sse=174771.8, rms=1.189 (3.112%) rms = 1.1666/1.1885, sse=173866.4/174771.8, time step reduction 3 of 3 to 0.062 0 0 1 011: dt: 0.1250, sse=173866.4, rms=1.167 (1.845%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes done positioning surface Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0557940; border_low = 70.0000000; outside_low = 58.7223320; outside_hi = 109.0557940; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=104549 Gdiag_no=-1 vno start=0, stop=104549 Replacing 255s with 0s #SI# sigma=1 had to be increased for 88 vertices, nripped=8212 mean border=84.1, 109 (54) missing vertices, mean dist -0.3 [0.7 (%60.7)->0.2 (%39.3))] %55 local maxima, %37 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0895 min Finding expansion regions mean absolute distance = 0.51 +- 0.91 3728 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 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=mtubu, 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=487669.3, rms=4.092 012: dt: 0.5000, sse=310279.3, rms=2.757 (32.617%) 013: dt: 0.5000, sse=267045.3, rms=2.326 (15.643%) 014: dt: 0.5000, sse=252466.7, rms=2.156 (7.310%) rms = 2.1476/2.1561, sse=252500.9/252466.7, time step reduction 1 of 3 to 0.250 0 1 1 015: dt: 0.5000, sse=252500.9, rms=2.148 (0.396%) 016: dt: 0.2500, sse=200848.7, rms=1.325 (38.307%) 017: dt: 0.2500, sse=189448.5, rms=1.116 (15.772%) 018: dt: 0.2500, sse=186190.6, rms=1.030 (7.665%) rms = 0.9872/1.0304, sse=184615.7/186190.6, time step reduction 2 of 3 to 0.125 0 0 1 019: dt: 0.2500, sse=184615.7, rms=0.987 (4.192%) rms = 0.9654/0.9872, sse=183619.7/184615.7, time step reduction 3 of 3 to 0.062 0 0 1 020: dt: 0.1250, sse=183619.7, rms=0.965 (2.209%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes done positioning surface Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0557940; border_low = 70.0000000; outside_low = 58.7223320; outside_hi = 109.0557940; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=104549 Gdiag_no=-1 vno start=0, stop=104549 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 101 vertices, nripped=8212 mean border=87.2, 117 (40) missing vertices, mean dist -0.3 [0.6 (%69.6)->0.2 (%30.4))] %72 local maxima, %20 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0529 min Finding expansion regions mean absolute distance = 0.47 +- 0.63 3600 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 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=mtubu, 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=507481.2, rms=4.259 021: dt: 0.5000, sse=284715.3, rms=2.537 (40.437%) 022: dt: 0.5000, sse=242677.9, rms=2.061 (18.738%) 023: dt: 0.5000, sse=232772.5, rms=1.923 (6.730%) rms = 2.0639/1.9226, sse=243930.1/232772.5, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 024: dt: 0.2500, sse=197040.6, rms=1.331 (30.748%) 025: dt: 0.2500, sse=182466.1, rms=1.014 (23.843%) 026: dt: 0.2500, sse=181469.2, rms=0.924 (8.849%) rms = 0.9006/0.9242, sse=179510.8/181469.2, time step reduction 2 of 3 to 0.125 0 0 1 027: dt: 0.2500, sse=179510.8, rms=0.901 (2.559%) rms = 0.8772/0.9006, sse=178615.2/179510.8, time step reduction 3 of 3 to 0.062 0 0 1 028: dt: 0.1250, sse=178615.2, rms=0.877 (2.590%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes done positioning surface Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0557940; border_low = 70.0000000; outside_low = 58.7223320; outside_hi = 109.0557940; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=104549 Gdiag_no=-1 vno start=0, stop=104549 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 169 vertices, nripped=8212 mean border=88.5, 132 (37) missing vertices, mean dist -0.1 [0.4 (%61.2)->0.3 (%38.8))] %80 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0355 min Finding expansion regions mean absolute distance = 0.34 +- 0.46 3420 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 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=mtubu, 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=235852.4, rms=2.020 029: dt: 0.5000, sse=198911.0, rms=1.289 (36.195%) rms = 1.4793/1.2887, sse=209237.0/198911.0, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 030: dt: 0.2500, sse=180941.5, rms=0.901 (30.094%) rms = 0.7346/0.9009, sse=182964.2/180941.5, time step reduction 2 of 3 to 0.125 0 1 0 031: dt: 0.2500, sse=182964.2, rms=0.735 (18.457%) rms = 0.7017/0.7346, sse=185740.6/182964.2, time step reduction 3 of 3 to 0.062 0 1 1 032: dt: 0.1250, sse=185740.6, rms=0.702 (4.479%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes done positioning surface Removing intersections #ET# mris_place_surface 2.79 minutes Writing output to ../surf/lh.white #VMPC# mris_place_surfaces VmPeak 1778500 mris_place_surface done @#@FSTIME 2023:09:13:13:01:10 mris_place_surface N 25 e 174.19 S 0.67 U 173.40 P 99% M 1513600 F 0 R 397833 W 0 c 944 w 3 I 2647 O 7368 L 4.89 4.54 4.54 @#@FSLOADPOST 2023:09:13:13:04:04 mris_place_surface N 25 4.24 4.44 4.50 #-------------------------------------------- #@# WhiteSurfs rh Wed Sep 13 13:04:04 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 7.4.1 7.4.1 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 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 213892 0.32894 0.12032 0.001590 2.0817 Corner 641676 60.00000 14.44076 0.112702 178.7617 Edge 320838 0.88299 0.20153 0.016925 3.6577 Hinge 320838 10.21106 11.12314 0.000005 179.8926 Reading in aparc ../label/rh.aparc.annot [DEBUG] CTABreadFromBinaryV2(): ct->nentries=36, num_entries_to_read=36 Reading in input volume brain.finalsurfs.mgz Reading in seg volume aseg.presurf.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=15897, wmmin=5, clip=110 MRIfindBrightNonWM(): 1386 bright non-wm voxels segmented. Masking bright non-wm for white surface MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex.label MRISripNotLabel() ripped 8083/106948 vertices (98865 unripped) Reading in ripping surface ../surf/rh.white.preaparc Reading in aparc ../label/rh.aparc.annot for ripsurf [DEBUG] CTABreadFromBinaryV2(): ct->nentries=36, num_entries_to_read=36 Ripping BG MRISripBasalGanglia(): 1 -2 2 0.5 ripped 416 Ripping segs (eg, WMSA, BG, frozen) Starting MRISripSegs() d = (-2 2 0.5) segnos: 247 MRISripSegs(): -2 2 0.5 ripped 0 vertex 53474: xyz = (41.852,-8.17083,53.3664) oxyz = (41.852,-8.17083,53.3664) wxzy = (41.852,-8.17083,53.3664) pxyz = (0,0,0) CBVO Creating mask 106948 n_averages 4 Iteration 0 ========================================= n_averages=4, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0557940; border_low = 72.0000000; outside_low = 60.7223320; outside_hi = 109.0557940; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=106948 Gdiag_no=-1 vno start=0, stop=106948 Replacing 255s with 0s #SI# sigma=2 had to be increased for 98 vertices, nripped=8499 mean border=82.6, 104 (104) missing vertices, mean dist 0.5 [1.3 (%14.2)->0.8 (%85.8))] %44 local maxima, %48 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1103 min Finding expansion regions mean absolute distance = 0.83 +- 1.05 2395 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 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=mtubu, 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=1457787.0, rms=8.150 001: dt: 0.5000, sse=727467.2, rms=5.443 (33.215%) 002: dt: 0.5000, sse=433825.6, rms=3.842 (29.420%) 003: dt: 0.5000, sse=326499.8, rms=3.041 (20.843%) 004: dt: 0.5000, sse=277310.3, rms=2.592 (14.774%) 005: dt: 0.5000, sse=263063.4, rms=2.450 (5.474%) 006: dt: 0.5000, sse=250657.6, rms=2.297 (6.236%) rms = 2.3215/2.2970, sse=252338.6/250657.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 007: dt: 0.2500, sse=199038.5, rms=1.625 (29.250%) 008: dt: 0.2500, sse=181187.4, rms=1.253 (22.870%) 009: dt: 0.2500, sse=174123.0, rms=1.157 (7.666%) rms = 1.1220/1.1574, sse=172710.3/174123.0, time step reduction 2 of 3 to 0.125 0 0 1 010: dt: 0.2500, sse=172710.3, rms=1.122 (3.055%) rms = 1.0992/1.1220, sse=171821.2/172710.3, time step reduction 3 of 3 to 0.062 0 0 1 011: dt: 0.1250, sse=171821.2, rms=1.099 (2.034%) maximum number of reductions reached, breaking from loop positioning took 0.8 minutes done positioning surface Iteration 1 ========================================= n_averages=2, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0557940; border_low = 72.0000000; outside_low = 60.7223320; outside_hi = 109.0557940; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=106948 Gdiag_no=-1 vno start=0, stop=106948 Replacing 255s with 0s #SI# sigma=1 had to be increased for 91 vertices, nripped=8499 mean border=84.8, 104 (60) missing vertices, mean dist -0.3 [0.6 (%61.6)->0.2 (%38.4))] %52 local maxima, %40 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0863 min Finding expansion regions mean absolute distance = 0.47 +- 0.87 3520 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 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=mtubu, 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=453223.0, rms=3.832 012: dt: 0.5000, sse=292433.5, rms=2.555 (33.318%) 013: dt: 0.5000, sse=252410.9, rms=2.135 (16.453%) 014: dt: 0.5000, sse=238826.8, rms=1.961 (8.124%) rms = 2.0066/1.9613, sse=241975.4/238826.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 015: dt: 0.2500, sse=207658.9, rms=1.494 (23.838%) 016: dt: 0.2500, sse=191713.4, rms=1.188 (20.478%) 017: dt: 0.2500, sse=186301.7, rms=1.051 (11.561%) 018: dt: 0.2500, sse=184508.4, rms=0.978 (6.883%) rms = 0.9425/0.9782, sse=183116.9/184508.4, time step reduction 2 of 3 to 0.125 0 0 1 019: dt: 0.2500, sse=183116.9, rms=0.942 (3.653%) rms = 0.9227/0.9425, sse=185694.0/183116.9, time step reduction 3 of 3 to 0.062 0 1 1 020: dt: 0.1250, sse=185694.0, rms=0.923 (2.105%) maximum number of reductions reached, breaking from loop positioning took 0.7 minutes done positioning surface Iteration 2 ========================================= n_averages=1, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0557940; border_low = 72.0000000; outside_low = 60.7223320; outside_hi = 109.0557940; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=106948 Gdiag_no=-1 vno start=0, stop=106948 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 103 vertices, nripped=8499 mean border=87.8, 106 (45) missing vertices, mean dist -0.3 [0.5 (%69.8)->0.2 (%30.2))] %70 local maxima, %22 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0512 min Finding expansion regions mean absolute distance = 0.44 +- 0.60 3997 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 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=mtubu, 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=490348.4, rms=4.082 021: dt: 0.5000, sse=278391.3, rms=2.406 (41.054%) 022: dt: 0.5000, sse=240462.9, rms=1.954 (18.794%) 023: dt: 0.5000, sse=233043.1, rms=1.837 (5.988%) rms = 2.0025/1.8370, sse=244578.7/233043.1, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 024: dt: 0.2500, sse=197276.3, rms=1.254 (31.710%) 025: dt: 0.2500, sse=184345.8, rms=0.948 (24.431%) 026: dt: 0.2500, sse=181592.0, rms=0.874 (7.820%) rms = 0.8590/0.8739, sse=180460.2/181592.0, time step reduction 2 of 3 to 0.125 0 0 1 027: dt: 0.2500, sse=180460.2, rms=0.859 (1.696%) rms = 0.8422/0.8590, sse=179597.1/180460.2, time step reduction 3 of 3 to 0.062 0 0 1 028: dt: 0.1250, sse=179597.1, rms=0.842 (1.957%) maximum number of reductions reached, breaking from loop positioning took 0.6 minutes done positioning surface Iteration 3 ========================================= n_averages=0, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 120.0000000; border_hi = 109.0557940; border_low = 72.0000000; outside_low = 60.7223320; outside_hi = 109.0557940; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 1 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=106948 Gdiag_no=-1 vno start=0, stop=106948 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 155 vertices, nripped=8499 mean border=89.1, 137 (40) missing vertices, mean dist -0.1 [0.4 (%60.7)->0.2 (%39.3))] %78 local maxima, %14 large gradients and % 0 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0338 min Finding expansion regions mean absolute distance = 0.32 +- 0.44 3264 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 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=mtubu, 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=233141.9, rms=1.935 029: dt: 0.5000, sse=194809.9, rms=1.260 (34.901%) rms = 1.4330/1.2600, sse=202607.3/194809.9, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 030: dt: 0.2500, sse=177352.1, rms=0.880 (30.172%) 031: dt: 0.2500, sse=172259.1, rms=0.706 (19.718%) rms = 0.6671/0.7063, sse=170555.7/172259.1, time step reduction 2 of 3 to 0.125 0 0 1 032: dt: 0.2500, sse=170555.7, rms=0.667 (5.550%) rms = 0.6635/0.6671, sse=170079.2/170555.7, time step reduction 3 of 3 to 0.062 0 0 1 033: dt: 0.1250, sse=170079.2, rms=0.663 (0.543%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes done positioning surface Removing intersections #ET# mris_place_surface 2.79 minutes Writing output to ../surf/rh.white #VMPC# mris_place_surfaces VmPeak 1806500 mris_place_surface done @#@FSTIME 2023:09:13:13:04:04 mris_place_surface N 25 e 174.19 S 0.91 U 173.01 P 99% M 1541408 F 2 R 404956 W 0 c 1479 w 6 I 370 O 7552 L 4.24 4.44 4.50 @#@FSLOADPOST 2023:09:13:13:06:58 mris_place_surface N 25 4.40 4.42 4.48 #-------------------------------------------- #@# T1PialSurf lh Wed Sep 13 13:06:58 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 7.4.1 7.4.1 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 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 209094 0.33357 0.14359 0.000749 2.3230 Corner 627282 60.00000 16.92794 0.463191 178.8128 Edge 313641 0.89270 0.23616 0.030451 4.1832 Hinge 313641 10.81553 12.39362 0.000043 179.9860 Reading white surface coordinates from ../surf/lh.white Reading repulsion surface coordinates from ../surf/lh.white Reading in aparc ../label/lh.aparc.annot [DEBUG] CTABreadFromBinaryV2(): ct->nentries=36, num_entries_to_read=36 Reading in input volume brain.finalsurfs.mgz Reading in seg volume aseg.presurf.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=15897, wmmin=5, clip=110 MRIfindBrightNonWM(): 1386 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 65.5556 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Ripping frozen voxels Ripping vertices not in label ../label/lh.cortex+hipamyg.label MRISripNotLabel() ripped 6700/104549 vertices (97849 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 52275: xyz = (-48.2285,1.98216,-3.39863) oxyz = (-48.2285,1.98216,-3.39863) wxzy = (-48.2285,1.98216,-3.39863) pxyz = (-48.2285,1.98216,-3.39863) CBVO Creating mask 104549 n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 94.9442060; border_hi = 58.7223320; border_low = 36.1670000; outside_low = 10.0000000; outside_hi = 53.0834960; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=104549 Gdiag_no=-1 vno start=0, stop=104549 Replacing 255s with 0s #SI# sigma=2 had to be increased for 166 vertices, nripped=6700 mean border=56.9, 174 (174) missing vertices, mean dist 2.0 [4.1 (%0.0)->2.7 (%100.0))] %17 local maxima, %50 large gradients and %27 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1042 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 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=mtubu, 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=20542590.0, rms=32.311 001: dt: 0.5000, sse=15887795.0, rms=28.385 (12.151%) 002: dt: 0.5000, sse=12246555.0, rms=24.885 (12.330%) 003: dt: 0.5000, sse=9533268.0, rms=21.915 (11.933%) 004: dt: 0.5000, sse=7565986.0, rms=19.480 (11.112%) 005: dt: 0.5000, sse=6041238.5, rms=17.359 (10.890%) 006: dt: 0.5000, sse=4713835.5, rms=15.274 (12.011%) 007: dt: 0.5000, sse=3525551.0, rms=13.129 (14.043%) 008: dt: 0.5000, sse=2507173.8, rms=10.961 (16.510%) 009: dt: 0.5000, sse=1711210.4, rms=8.906 (18.752%) 010: dt: 0.5000, sse=1175884.0, rms=7.200 (19.155%) 011: dt: 0.5000, sse=866221.2, rms=5.994 (16.751%) 012: dt: 0.5000, sse=702816.8, rms=5.245 (12.490%) 013: dt: 0.5000, sse=614006.8, rms=4.788 (8.719%) 014: dt: 0.5000, sse=567024.9, rms=4.525 (5.484%) 015: dt: 0.5000, sse=538242.2, rms=4.355 (3.759%) 016: dt: 0.5000, sse=522577.6, rms=4.258 (2.224%) 017: dt: 0.5000, sse=508968.2, rms=4.172 (2.030%) 018: dt: 0.5000, sse=500373.6, rms=4.115 (1.358%) 019: dt: 0.5000, sse=491949.4, rms=4.060 (1.351%) rms = 4.0207/4.0596, sse=486315.8/491949.4, time step reduction 1 of 3 to 0.250 0 0 1 020: dt: 0.5000, sse=486315.8, rms=4.021 (0.959%) 021: dt: 0.2500, sse=348298.4, rms=2.987 (25.711%) 022: dt: 0.2500, sse=320485.3, rms=2.734 (8.468%) 023: dt: 0.2500, sse=312594.4, rms=2.657 (2.810%) rms = 2.6198/2.6572, sse=308851.7/312594.4, time step reduction 2 of 3 to 0.125 0 0 1 024: dt: 0.2500, sse=308851.7, rms=2.620 (1.406%) 025: dt: 0.1250, sse=301561.4, rms=2.544 (2.878%) rms = 2.5315/2.5444, sse=300336.4/301561.4, time step reduction 3 of 3 to 0.062 0 0 1 026: dt: 0.1250, sse=300336.3, rms=2.532 (0.507%) maximum number of reductions reached, breaking from loop positioning took 1.6 minutes done positioning surface Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 94.9442060; border_hi = 58.7223320; border_low = 36.1670000; outside_low = 10.0000000; outside_hi = 53.0834960; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=104549 Gdiag_no=-1 vno start=0, stop=104549 Replacing 255s with 0s #SI# sigma=1 had to be increased for 4761 vertices, nripped=6700 mean border=56.1, 869 (28) missing vertices, mean dist 0.1 [0.1 (%55.6)->0.5 (%44.4))] %28 local maxima, %43 large gradients and %22 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0350 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 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=mtubu, 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=418568.9, rms=3.277 027: dt: 0.5000, sse=410304.3, rms=3.214 (1.897%) rms = 3.5541/3.2145, sse=452900.4/410304.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 028: dt: 0.2500, sse=361934.6, rms=2.799 (12.915%) 029: dt: 0.2500, sse=344465.1, rms=2.636 (5.852%) rms = 2.5931/2.6355, sse=340250.3/344465.1, time step reduction 2 of 3 to 0.125 0 0 1 030: dt: 0.2500, sse=340250.3, rms=2.593 (1.608%) 031: dt: 0.1250, sse=335357.0, rms=2.541 (1.991%) rms = 2.5332/2.5415, sse=334561.6/335357.0, time step reduction 3 of 3 to 0.062 0 0 1 032: dt: 0.1250, sse=334561.7, rms=2.533 (0.327%) maximum number of reductions reached, breaking from loop positioning took 0.4 minutes done positioning surface Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 94.9442060; border_hi = 58.7223320; border_low = 36.1670000; outside_low = 10.0000000; outside_hi = 53.0834960; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=104549 Gdiag_no=-1 vno start=0, stop=104549 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 5427 vertices, nripped=6700 mean border=55.5, 973 (21) missing vertices, mean dist 0.1 [0.1 (%54.8)->0.4 (%45.2))] %38 local maxima, %32 large gradients and %22 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0210 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 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=mtubu, 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=370622.6, rms=2.861 rms = 3.1432/2.8607, sse=403448.4/370622.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 033: dt: 0.2500, sse=348392.7, rms=2.653 (7.274%) 034: dt: 0.2500, sse=341790.5, rms=2.588 (2.416%) rms = 2.5701/2.5885, sse=339748.2/341790.5, time step reduction 2 of 3 to 0.125 0 0 1 035: dt: 0.2500, sse=339748.2, rms=2.570 (0.712%) rms = 2.5315/2.5701, sse=336064.5/339748.2, time step reduction 3 of 3 to 0.062 0 0 1 036: dt: 0.1250, sse=336064.5, rms=2.532 (1.499%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes done positioning surface Iteration 3 ========================================= n_averages=2, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 94.9442060; border_hi = 58.7223320; border_low = 36.1670000; outside_low = 10.0000000; outside_hi = 53.0834960; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=104549 Gdiag_no=-1 vno start=0, stop=104549 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 4514 vertices, nripped=6700 mean border=54.7, 2210 (19) missing vertices, mean dist 0.1 [0.1 (%53.8)->0.4 (%46.2))] %44 local maxima, %26 large gradients and %21 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0141 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 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=mtubu, 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=359644.6, rms=2.757 rms = 2.9876/2.7572, sse=384916.7/359644.6, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 037: dt: 0.2500, sse=341984.9, rms=2.587 (6.188%) 038: dt: 0.2500, sse=333060.6, rms=2.499 (3.371%) rms = 2.4510/2.4994, sse=328033.9/333060.6, time step reduction 2 of 3 to 0.125 0 0 1 039: dt: 0.2500, sse=328033.9, rms=2.451 (1.934%) 040: dt: 0.1250, sse=323133.9, rms=2.398 (2.153%) rms = 2.3751/2.3983, sse=320887.3/323133.9, time step reduction 3 of 3 to 0.062 0 0 1 041: dt: 0.1250, sse=320887.3, rms=2.375 (0.963%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes done positioning surface Pinning medial wall to white surface Removing intersections removing intersecting faces 000: 10 intersecting terminating search with 0 intersecting #ET# mris_place_surface 2.88 minutes Writing output to ../surf/lh.pial.T1 #VMPC# mris_place_surfaces VmPeak 1198748 mris_place_surface done @#@FSTIME 2023:09:13:13:06:58 mris_place_surface N 28 e 178.89 S 0.43 U 178.31 P 99% M 932988 F 5 R 251177 W 0 c 925 w 18 I 16263 O 7384 L 4.40 4.42 4.48 @#@FSLOADPOST 2023:09:13:13:09:57 mris_place_surface N 28 4.53 4.42 4.46 #-------------------------------------------- #@# T1PialSurf rh Wed Sep 13 13:09:57 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 7.4.1 7.4.1 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 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 213892 0.33087 0.13706 0.001321 3.1325 Corner 641676 60.00000 16.05048 0.112702 178.7617 Edge 320838 0.88741 0.22625 0.018926 4.1305 Hinge 320838 10.39462 11.49888 0.000005 179.9950 Reading white surface coordinates from ../surf/rh.white Reading repulsion surface coordinates from ../surf/rh.white Reading in aparc ../label/rh.aparc.annot [DEBUG] CTABreadFromBinaryV2(): ct->nentries=36, num_entries_to_read=36 Reading in input volume brain.finalsurfs.mgz Reading in seg volume aseg.presurf.mgz Reading in wm volume wm.mgz MRIclipBrightWM(): nthresh=15897, wmmin=5, clip=110 MRIfindBrightNonWM(): 1386 bright non-wm voxels segmented. Masking bright non-wm for pial surface mid_gray = 66.5556 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 MRImask(): AllowDiffGeom = 1 Ripping frozen voxels Ripping vertices not in label ../label/rh.cortex+hipamyg.label MRISripNotLabel() ripped 6788/106948 vertices (100160 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 53474: xyz = (41.9139,-8.37823,53.6556) oxyz = (41.9139,-8.37823,53.6556) wxzy = (41.9139,-8.37823,53.6556) pxyz = (41.9139,-8.37823,53.6556) CBVO Creating mask 106948 n_averages 16 Iteration 0 ========================================= n_averages=16, current_sigma=2 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 94.9442060; border_hi = 60.7223320; border_low = 38.1670000; outside_low = 10.0000000; outside_hi = 55.0834960; sigma = 2; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=106948 Gdiag_no=-1 vno start=0, stop=106948 Replacing 255s with 0s #SI# sigma=2 had to be increased for 146 vertices, nripped=6788 mean border=58.5, 177 (177) missing vertices, mean dist 2.0 [1.5 (%0.0)->2.6 (%100.0))] %19 local maxima, %52 large gradients and %22 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.1068 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 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=mtubu, 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=19633172.0, rms=31.215 001: dt: 0.5000, sse=14976399.0, rms=27.230 (12.765%) 002: dt: 0.5000, sse=11338080.0, rms=23.654 (13.134%) 003: dt: 0.5000, sse=8633472.0, rms=20.596 (12.929%) 004: dt: 0.5000, sse=6691797.0, rms=18.083 (12.201%) 005: dt: 0.5000, sse=5226301.5, rms=15.925 (11.933%) 006: dt: 0.5000, sse=3993128.0, rms=13.851 (13.023%) 007: dt: 0.5000, sse=2936631.8, rms=11.787 (14.904%) 008: dt: 0.5000, sse=2074781.4, rms=9.784 (16.988%) 009: dt: 0.5000, sse=1435604.0, rms=7.980 (18.438%) 010: dt: 0.5000, sse=1011803.1, rms=6.513 (18.391%) 011: dt: 0.5000, sse=772733.4, rms=5.514 (15.340%) 012: dt: 0.5000, sse=641032.9, rms=4.875 (11.585%) 013: dt: 0.5000, sse=572625.9, rms=4.505 (7.584%) 014: dt: 0.5000, sse=533875.2, rms=4.280 (4.989%) 015: dt: 0.5000, sse=513353.2, rms=4.154 (2.944%) 016: dt: 0.5000, sse=497069.0, rms=4.051 (2.484%) 017: dt: 0.5000, sse=487691.5, rms=3.989 (1.534%) 018: dt: 0.5000, sse=479435.1, rms=3.933 (1.393%) rms = 3.9060/3.9334, sse=475636.1/479435.1, time step reduction 1 of 3 to 0.250 0 0 1 019: dt: 0.5000, sse=475636.1, rms=3.906 (0.696%) 020: dt: 0.2500, sse=334689.6, rms=2.834 (27.442%) 021: dt: 0.2500, sse=306662.5, rms=2.572 (9.261%) 022: dt: 0.2500, sse=299479.1, rms=2.498 (2.850%) rms = 2.4575/2.4984, sse=295502.8/299479.1, time step reduction 2 of 3 to 0.125 0 0 1 023: dt: 0.2500, sse=295502.8, rms=2.458 (1.636%) 024: dt: 0.1250, sse=289151.6, rms=2.389 (2.784%) rms = 2.3784/2.3891, sse=288195.9/289151.6, time step reduction 3 of 3 to 0.062 0 0 1 025: dt: 0.1250, sse=288195.9, rms=2.378 (0.446%) maximum number of reductions reached, breaking from loop positioning took 1.5 minutes done positioning surface Iteration 1 ========================================= n_averages=8, current_sigma=1 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 94.9442060; border_hi = 60.7223320; border_low = 38.1670000; outside_low = 10.0000000; outside_hi = 55.0834960; sigma = 1; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=106948 Gdiag_no=-1 vno start=0, stop=106948 Replacing 255s with 0s #SI# sigma=1 had to be increased for 3753 vertices, nripped=6788 mean border=57.4, 636 (15) missing vertices, mean dist 0.1 [0.1 (%53.5)->0.5 (%46.5))] %33 local maxima, %42 large gradients and %18 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0371 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 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=mtubu, 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=445953.1, rms=3.447 026: dt: 0.5000, sse=422874.8, rms=3.276 (4.953%) rms = 3.5164/3.2764, sse=453332.7/422874.8, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 027: dt: 0.2500, sse=360841.7, rms=2.759 (15.776%) 028: dt: 0.2500, sse=336405.4, rms=2.530 (8.322%) 029: dt: 0.2500, sse=328670.0, rms=2.452 (3.095%) rms = 2.4109/2.4515, sse=324794.6/328670.0, time step reduction 2 of 3 to 0.125 0 0 1 030: dt: 0.2500, sse=324794.6, rms=2.411 (1.659%) 031: dt: 0.1250, sse=319816.7, rms=2.356 (2.275%) rms = 2.3419/2.3560, sse=318528.1/319816.7, time step reduction 3 of 3 to 0.062 0 0 1 032: dt: 0.1250, sse=318528.2, rms=2.342 (0.599%) maximum number of reductions reached, breaking from loop positioning took 0.5 minutes done positioning surface Iteration 2 ========================================= n_averages=4, current_sigma=0.5 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 94.9442060; border_hi = 60.7223320; border_low = 38.1670000; outside_low = 10.0000000; outside_hi = 55.0834960; sigma = 0.5; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=106948 Gdiag_no=-1 vno start=0, stop=106948 Replacing 255s with 0s #SI# sigma=0.5 had to be increased for 4222 vertices, nripped=6788 mean border=56.5, 895 (9) missing vertices, mean dist 0.1 [0.1 (%50.9)->0.4 (%49.1))] %45 local maxima, %30 large gradients and %17 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 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=mtubu, 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=371995.3, rms=2.839 rms = 3.1181/2.8387, sse=405396.1/371995.3, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 033: dt: 0.2500, sse=338421.0, rms=2.523 (11.110%) 034: dt: 0.2500, sse=325006.0, rms=2.386 (5.428%) rms = 2.3477/2.3864, sse=321151.3/325006.0, time step reduction 2 of 3 to 0.125 0 0 1 035: dt: 0.2500, sse=321151.3, rms=2.348 (1.622%) rms = 2.3012/2.3477, sse=316956.4/321151.3, time step reduction 3 of 3 to 0.062 0 0 1 036: dt: 0.1250, sse=316956.4, rms=2.301 (1.979%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes done positioning surface Iteration 3 ========================================= n_averages=2, current_sigma=0.25 Computing target border values Entering MRIScomputeBorderValues_new(): inside_hi = 94.9442060; border_hi = 60.7223320; border_low = 38.1670000; outside_low = 10.0000000; outside_hi = 55.0834960; sigma = 0.25; max_thickness = 10; step_size=0.5; STEP_SIZE=0.1; which = 2 thresh = 0.5 flags = 0 CBVfindFirstPeakD1=0 CBVfindFirstPeakD2=0 nvertices=106948 Gdiag_no=-1 vno start=0, stop=106948 Replacing 255s with 0s #SI# sigma=0.25 had to be increased for 3578 vertices, nripped=6788 mean border=55.7, 1857 (7) missing vertices, mean dist 0.1 [0.1 (%52.2)->0.3 (%47.8))] %51 local maxima, %24 large gradients and %17 min vals, 0 gradients ignored nFirstPeakD1 0 MRIScomputeBorderValues_new() finished in 0.0148 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 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=mtubu, 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=344441.7, rms=2.583 rms = 2.8478/2.5826, sse=372895.3/344441.7, time step reduction 1 of 3 to 0.250 0 1 1 RMS increased, rejecting step 037: dt: 0.2500, sse=324491.3, rms=2.380 (7.849%) 038: dt: 0.2500, sse=315448.6, rms=2.286 (3.967%) rms = 2.2432/2.2855, sse=311298.7/315448.6, time step reduction 2 of 3 to 0.125 0 0 1 039: dt: 0.2500, sse=311298.8, rms=2.243 (1.853%) 040: dt: 0.1250, sse=306379.0, rms=2.187 (2.508%) rms = 2.1686/2.1869, sse=304674.7/306379.0, time step reduction 3 of 3 to 0.062 0 0 1 041: dt: 0.1250, sse=304674.7, rms=2.169 (0.836%) maximum number of reductions reached, breaking from loop positioning took 0.3 minutes done positioning surface Pinning medial wall to white surface Removing intersections removing intersecting faces 000: 16 intersecting step 1 with no progress (num=20, old_num=16) 001: 20 intersecting step 2 with no progress (num=52, old_num=20) 002: 52 intersecting 003: 28 intersecting 004: 17 intersecting terminating search with 0 intersecting #ET# mris_place_surface 2.99 minutes Writing output to ../surf/rh.pial.T1 #VMPC# mris_place_surfaces VmPeak 1196168 mris_place_surface done @#@FSTIME 2023:09:13:13:09:57 mris_place_surface N 28 e 185.72 S 0.43 U 185.22 P 99% M 930752 F 0 R 250607 W 0 c 630 w 4 I 8461 O 7536 L 4.53 4.42 4.46 @#@FSLOADPOST 2023:09:13:13:13:03 mris_place_surface N 28 4.40 4.47 4.47 #@# white curv lh Wed Sep 13 13:13:03 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv insurf ../surf/lh.white, nbrs 2, curvature_avgs 10 writing curvature file ../surf/lh.curv @#@FSTIME 2023:09:13:13:13:03 mris_place_surface N 5 e 1.35 S 0.06 U 1.29 P 99% M 145564 F 0 R 38853 W 0 c 10 w 1 I 0 O 824 L 4.40 4.47 4.47 @#@FSLOADPOST 2023:09:13:13:13:04 mris_place_surface N 5 4.40 4.47 4.47 #@# white area lh Wed Sep 13 13:13:04 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area writing curvature file ../surf/lh.area @#@FSTIME 2023:09:13:13:13:04 mris_place_surface N 3 e 0.63 S 0.07 U 0.56 P 99% M 145312 F 0 R 38848 W 0 c 9 w 1 I 0 O 824 L 4.40 4.47 4.47 @#@FSLOADPOST 2023:09:13:13:13:05 mris_place_surface N 3 4.40 4.47 4.47 #@# pial curv lh Wed Sep 13 13:13:05 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial insurf ../surf/lh.pial, nbrs 2, curvature_avgs 10 writing curvature file ../surf/lh.curv.pial @#@FSTIME 2023:09:13:13:13:05 mris_place_surface N 5 e 1.26 S 0.07 U 1.18 P 99% M 145436 F 0 R 38849 W 0 c 14 w 1 I 0 O 824 L 4.40 4.47 4.47 @#@FSLOADPOST 2023:09:13:13:13:06 mris_place_surface N 5 4.52 4.50 4.48 #@# pial area lh Wed Sep 13 13:13:06 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial writing curvature file ../surf/lh.area.pial @#@FSTIME 2023:09:13:13:13:06 mris_place_surface N 3 e 0.60 S 0.06 U 0.53 P 99% M 145276 F 0 R 38850 W 0 c 14 w 1 I 0 O 824 L 4.52 4.50 4.48 @#@FSLOADPOST 2023:09:13:13:13:07 mris_place_surface N 3 4.52 4.50 4.48 #@# thickness lh Wed Sep 13 13:13:07 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness 0 of 104549 vertices processed 25000 of 104549 vertices processed 50000 of 104549 vertices processed 75000 of 104549 vertices processed 100000 of 104549 vertices processed 0 of 104549 vertices processed 25000 of 104549 vertices processed 50000 of 104549 vertices processed 75000 of 104549 vertices processed 100000 of 104549 vertices processed thickness calculation complete, 161:633 truncations. 53087 vertices at 0 distance 89365 vertices at 1 distance 42634 vertices at 2 distance 15377 vertices at 3 distance 5608 vertices at 4 distance 1827 vertices at 5 distance 657 vertices at 6 distance 254 vertices at 7 distance 112 vertices at 8 distance 60 vertices at 9 distance 28 vertices at 10 distance 32 vertices at 11 distance 25 vertices at 12 distance 11 vertices at 13 distance 2 vertices at 14 distance 2 vertices at 15 distance 6 vertices at 16 distance 3 vertices at 17 distance 4 vertices at 18 distance 2 vertices at 19 distance 2 vertices at 20 distance writing curvature file ../surf/lh.thickness @#@FSTIME 2023:09:13:13:13:07 mris_place_surface N 6 e 21.19 S 0.09 U 21.08 P 99% M 145312 F 0 R 44374 W 0 c 192 w 1 I 0 O 832 L 4.52 4.50 4.48 @#@FSLOADPOST 2023:09:13:13:13:28 mris_place_surface N 6 4.45 4.48 4.48 #@# area and vertex vol lh Wed Sep 13 13:13:28 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.volume masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Total face volume 171742 Total vertex volume 171482 (mask=0) #@# ED751_SAG_MPRAGE_p2_NON-SSc.nii lh 171482 vertexvol Done @#@FSTIME 2023:09:13:13:13:28 vertexvol N 4 e 1.14 S 0.13 U 0.98 P 98% M 241016 F 13 R 68438 W 0 c 58 w 34 I 1536 O 2472 L 4.45 4.48 4.48 @#@FSLOADPOST 2023:09:13:13:13:29 vertexvol N 4 4.45 4.48 4.48 #@# white curv rh Wed Sep 13 13:13:29 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv insurf ../surf/rh.white, nbrs 2, curvature_avgs 10 writing curvature file ../surf/rh.curv @#@FSTIME 2023:09:13:13:13:29 mris_place_surface N 5 e 1.29 S 0.05 U 1.23 P 99% M 148516 F 0 R 39230 W 0 c 5 w 1 I 0 O 840 L 4.45 4.48 4.48 @#@FSLOADPOST 2023:09:13:13:13:30 mris_place_surface N 5 4.50 4.49 4.48 #@# white area rh Wed Sep 13 13:13:30 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area writing curvature file ../surf/rh.area @#@FSTIME 2023:09:13:13:13:30 mris_place_surface N 3 e 0.60 S 0.07 U 0.52 P 98% M 148460 F 0 R 39228 W 0 c 23 w 0 I 0 O 840 L 4.50 4.49 4.48 @#@FSLOADPOST 2023:09:13:13:13:31 mris_place_surface N 3 4.50 4.49 4.48 #@# pial curv rh Wed Sep 13 13:13:31 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial insurf ../surf/rh.pial, nbrs 2, curvature_avgs 10 writing curvature file ../surf/rh.curv.pial @#@FSTIME 2023:09:13:13:13:31 mris_place_surface N 5 e 1.27 S 0.03 U 1.22 P 99% M 148424 F 0 R 39722 W 0 c 23 w 1 I 0 O 840 L 4.50 4.49 4.48 @#@FSLOADPOST 2023:09:13:13:13:32 mris_place_surface N 5 4.50 4.49 4.48 #@# pial area rh Wed Sep 13 13:13:32 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial writing curvature file ../surf/rh.area.pial @#@FSTIME 2023:09:13:13:13:32 mris_place_surface N 3 e 0.65 S 0.06 U 0.58 P 98% M 148328 F 0 R 39226 W 0 c 30 w 1 I 0 O 840 L 4.50 4.49 4.48 @#@FSLOADPOST 2023:09:13:13:13:33 mris_place_surface N 3 4.50 4.49 4.48 #@# thickness rh Wed Sep 13 13:13:33 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness 0 of 106948 vertices processed 25000 of 106948 vertices processed 50000 of 106948 vertices processed 75000 of 106948 vertices processed 100000 of 106948 vertices processed 0 of 106948 vertices processed 25000 of 106948 vertices processed 50000 of 106948 vertices processed 75000 of 106948 vertices processed 100000 of 106948 vertices processed thickness calculation complete, 49:697 truncations. 57699 vertices at 0 distance 93304 vertices at 1 distance 41353 vertices at 2 distance 14375 vertices at 3 distance 4795 vertices at 4 distance 1485 vertices at 5 distance 504 vertices at 6 distance 176 vertices at 7 distance 74 vertices at 8 distance 27 vertices at 9 distance 25 vertices at 10 distance 9 vertices at 11 distance 11 vertices at 12 distance 6 vertices at 13 distance 11 vertices at 14 distance 10 vertices at 15 distance 6 vertices at 16 distance 15 vertices at 17 distance 6 vertices at 18 distance 3 vertices at 19 distance 2 vertices at 20 distance writing curvature file ../surf/rh.thickness @#@FSTIME 2023:09:13:13:13:33 mris_place_surface N 6 e 21.61 S 0.08 U 21.52 P 99% M 148512 F 0 R 42135 W 0 c 107 w 1 I 0 O 856 L 4.50 4.49 4.48 @#@FSLOADPOST 2023:09:13:13:13:55 mris_place_surface N 6 4.42 4.48 4.47 #@# area and vertex vol rh Wed Sep 13 13:13:55 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.volume masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Total face volume 170482 Total vertex volume 170241 (mask=0) #@# ED751_SAG_MPRAGE_p2_NON-SSc.nii rh 170241 vertexvol Done @#@FSTIME 2023:09:13:13:13:55 vertexvol N 4 e 1.23 S 0.12 U 1.10 P 99% M 246268 F 0 R 69423 W 0 c 21 w 22 I 0 O 2520 L 4.42 4.48 4.47 @#@FSLOADPOST 2023:09:13:13:13:56 vertexvol N 4 4.39 4.47 4.47 #----------------------------------------- #@# Curvature Stats lh Wed Sep 13 13:13:56 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm ED751_SAG_MPRAGE_p2_NON-SSc.nii lh curv sulc Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/lh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 [ 201 ] Gb_filter = 0 WARN: S lookup min: -0.002288 WARN: S explicit min: 0.000000 vertex = 199 @#@FSTIME 2023:09:13:13:13:56 mris_curvature_stats N 11 e 1.84 S 0.04 U 1.78 P 99% M 145152 F 12 R 39043 W 0 c 42 w 16 I 6672 O 6640 L 4.39 4.47 4.47 @#@FSLOADPOST 2023:09:13:13:13:58 mris_curvature_stats N 11 4.39 4.47 4.47 #----------------------------------------- #@# Curvature Stats rh Wed Sep 13 13:13:58 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm ED751_SAG_MPRAGE_p2_NON-SSc.nii rh curv sulc Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/rh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 [ 188 ] Gb_filter = 0 WARN: S lookup min: -0.004290 WARN: S explicit min: 0.000000 vertex = 643 @#@FSTIME 2023:09:13:13:13:58 mris_curvature_stats N 11 e 2.25 S 0.06 U 2.12 P 97% M 148452 F 0 R 39371 W 0 c 63 w 12 I 5815 O 6768 L 4.39 4.47 4.47 @#@FSLOADPOST 2023:09:13:13:14:00 mris_curvature_stats N 11 4.35 4.46 4.47 #-------------------------------------------- #@# Cortical ribbon mask Wed Sep 13 13:14:00 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii SUBJECTS_DIR is /media/mt/Expansion/Disk9/EDIS_751 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 = 31 writing volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/ribbon.mgz mris_volmask took 4.78 minutes writing ribbon files @#@FSTIME 2023:09:13:13:14:00 mris_volmask N 12 e 286.58 S 1.06 U 285.17 P 99% M 844320 F 9 R 470009 W 0 c 1885 w 8 I 1432 O 712 L 4.35 4.46 4.47 @#@FSLOADPOST 2023:09:13:13:18:47 mris_volmask N 12 4.48 4.42 4.44 #----------------------------------------- #@# Cortical Parc 2 lh Wed Sep 13 13:18:47 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh ../surf/lh.sphere.reg /usr/local/freesurfer/7.4.1/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 152 labels changed using aseg relabeling using gibbs priors... 000: 7021 changed, 104549 examined... 001: 1595 changed, 27161 examined... 002: 451 changed, 8584 examined... 003: 207 changed, 2654 examined... 004: 98 changed, 1170 examined... 005: 37 changed, 565 examined... 006: 25 changed, 230 examined... 007: 16 changed, 155 examined... 008: 14 changed, 94 examined... 009: 4 changed, 86 examined... 010: 2 changed, 25 examined... 011: 1 changed, 14 examined... 012: 0 changed, 7 examined... 83 labels changed using aseg 000: 186 total segments, 101 labels (844 vertices) changed 001: 89 total segments, 5 labels (288 vertices) changed 002: 84 total segments, 1 labels (95 vertices) changed 003: 83 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... relabeling unknown label... 1033 vertices marked for relabeling... 1033 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 0 minutes and 10 seconds. @#@FSTIME 2023:09:13:13:18:47 mris_ca_label N 11 e 10.05 S 0.83 U 9.21 P 99% M 1336148 F 0 R 588371 W 0 c 43 w 3 I 42432 O 1656 L 4.48 4.42 4.44 @#@FSLOADPOST 2023:09:13:13:18:57 mris_ca_label N 11 4.89 4.50 4.47 #----------------------------------------- #@# Cortical Parc 2 rh Wed Sep 13 13:18:57 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh ../surf/rh.sphere.reg /usr/local/freesurfer/7.4.1/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 417 labels changed using aseg relabeling using gibbs priors... 000: 7169 changed, 106948 examined... 001: 1515 changed, 28305 examined... 002: 438 changed, 8274 examined... 003: 185 changed, 2542 examined... 004: 90 changed, 1124 examined... 005: 48 changed, 516 examined... 006: 24 changed, 295 examined... 007: 9 changed, 134 examined... 008: 8 changed, 49 examined... 009: 7 changed, 48 examined... 010: 1 changed, 36 examined... 011: 1 changed, 7 examined... 012: 0 changed, 7 examined... 62 labels changed using aseg 000: 208 total segments, 121 labels (1435 vertices) changed 001: 88 total segments, 2 labels (9 vertices) changed 002: 86 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 25 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... relabeling unknown label... 804 vertices marked for relabeling... 804 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 0 minutes and 10 seconds. @#@FSTIME 2023:09:13:13:18:57 mris_ca_label N 11 e 10.11 S 0.75 U 9.36 P 99% M 1438952 F 0 R 547179 W 0 c 48 w 4 I 42976 O 1680 L 4.89 4.50 4.47 @#@FSLOADPOST 2023:09:13:13:19:07 mris_ca_label N 11 4.75 4.49 4.47 #----------------------------------------- #@# Cortical Parc 3 lh Wed Sep 13 13:19:07 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh ../surf/lh.sphere.reg /usr/local/freesurfer/7.4.1/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 1208 labels changed using aseg relabeling using gibbs priors... 000: 1571 changed, 104549 examined... 001: 334 changed, 7445 examined... 002: 114 changed, 1960 examined... 003: 66 changed, 670 examined... 004: 39 changed, 380 examined... 005: 28 changed, 206 examined... 006: 20 changed, 139 examined... 007: 20 changed, 93 examined... 008: 12 changed, 101 examined... 009: 12 changed, 70 examined... 010: 12 changed, 68 examined... 011: 11 changed, 64 examined... 012: 11 changed, 69 examined... 013: 6 changed, 54 examined... 014: 5 changed, 39 examined... 015: 4 changed, 24 examined... 016: 3 changed, 22 examined... 017: 0 changed, 21 examined... 387 labels changed using aseg 000: 46 total segments, 12 labels (56 vertices) changed 001: 34 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 4 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 674 vertices marked for relabeling... 674 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas.annot... classification took 0 minutes and 7 seconds. @#@FSTIME 2023:09:13:13:19:07 mris_ca_label N 11 e 7.32 S 0.37 U 6.94 P 99% M 815384 F 0 R 258166 W 0 c 110 w 3 I 42976 O 1640 L 4.75 4.49 4.47 @#@FSLOADPOST 2023:09:13:13:19:14 mris_ca_label N 11 4.77 4.50 4.47 #----------------------------------------- #@# Cortical Parc 3 rh Wed Sep 13 13:19:14 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh ../surf/rh.sphere.reg /usr/local/freesurfer/7.4.1/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 1380 labels changed using aseg relabeling using gibbs priors... 000: 1615 changed, 106948 examined... 001: 373 changed, 7592 examined... 002: 120 changed, 2155 examined... 003: 62 changed, 728 examined... 004: 41 changed, 333 examined... 005: 25 changed, 216 examined... 006: 18 changed, 145 examined... 007: 14 changed, 107 examined... 008: 17 changed, 77 examined... 009: 15 changed, 87 examined... 010: 15 changed, 81 examined... 011: 12 changed, 73 examined... 012: 11 changed, 66 examined... 013: 11 changed, 55 examined... 014: 11 changed, 61 examined... 015: 10 changed, 52 examined... 016: 12 changed, 49 examined... 017: 15 changed, 61 examined... 018: 12 changed, 64 examined... 019: 11 changed, 65 examined... 020: 9 changed, 49 examined... 021: 9 changed, 45 examined... 022: 5 changed, 47 examined... 023: 3 changed, 20 examined... 024: 4 changed, 14 examined... 025: 6 changed, 21 examined... 026: 4 changed, 30 examined... 027: 5 changed, 23 examined... 028: 2 changed, 22 examined... 029: 2 changed, 14 examined... 030: 2 changed, 12 examined... 031: 5 changed, 13 examined... 032: 4 changed, 21 examined... 033: 2 changed, 20 examined... 034: 3 changed, 9 examined... 035: 3 changed, 17 examined... 036: 2 changed, 18 examined... 037: 0 changed, 11 examined... 536 labels changed using aseg 000: 50 total segments, 17 labels (128 vertices) changed 001: 33 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... 449 vertices marked for relabeling... 449 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2023:09:13:13:19:14 mris_ca_label N 11 e 7.89 S 0.40 U 7.45 P 99% M 836936 F 0 R 257918 W 0 c 145 w 2 I 42952 O 1680 L 4.77 4.50 4.47 @#@FSLOADPOST 2023:09:13:13:19:22 mris_ca_label N 11 4.73 4.50 4.47 #----------------------------------------- #@# WM/GM Contrast lh Wed Sep 13 13:19:22 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts pctsurfcon --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --lh-only Log file is /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts/pctsurfcon.log Wed Sep 13 13:19:22 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts /usr/local/freesurfer/7.4.1/bin/pctsurfcon pctsurfcon 7.4.1 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /usr/local/freesurfer/7.4.1 mri_vol2surf --mov /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1058624/lh.wm.mgh --regheader ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex srcvol = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99063 0.09237 0.10062 -0.00001; 0.10019 -0.00934 0.99492 0.00003; -0.09284 -0.99568 -0.00000 -0.00007; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Reading surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 60014 Masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1058624/lh.wm.mgh Dim: 104549 1 1 mri_vol2surf done mri_vol2surf --mov /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1058624/lh.gm.mgh --projfrac 0.3 --regheader ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex srcvol = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99063 0.09237 0.10062 -0.00001; 0.10019 -0.00934 0.99492 0.00003; -0.09284 -0.99568 -0.00000 -0.00007; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Reading surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Done reading source surface Reading thickness /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 69204 Masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1058624/lh.gm.mgh Dim: 104549 1 1 mri_vol2surf done mri_concat /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1058624/lh.wm.mgh /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1058624/lh.gm.mgh --paired-diff-norm --mul 100 --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.w-g.pct.mgh mri_segstats --in /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.w-g.pct.mgh --annot ED751_SAG_MPRAGE_p2_NON-SSc.nii lh aparc --sum /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/stats/lh.w-g.pct.stats --snr 7.4.1 cwd cmdline mri_segstats --in /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.w-g.pct.mgh --annot ED751_SAG_MPRAGE_p2_NON-SSc.nii lh aparc --sum /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/stats/lh.w-g.pct.stats --snr sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot Seg base 1000 MRISannot2seg(): nhits = 96663 Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.w-g.pct.mgh Vertex Area is 0.667121 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 2023:09:13:13:19:22 pctsurfcon N 3 e 3.02 S 0.29 U 2.41 P 89% M 250512 F 23 R 173985 W 0 c 132 w 130 I 38572 O 3104 L 4.73 4.50 4.47 @#@FSLOADPOST 2023:09:13:13:19:25 pctsurfcon N 3 4.73 4.50 4.47 #----------------------------------------- #@# WM/GM Contrast rh Wed Sep 13 13:19:25 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts pctsurfcon --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --rh-only Log file is /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts/pctsurfcon.log Wed Sep 13 13:19:25 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts /usr/local/freesurfer/7.4.1/bin/pctsurfcon pctsurfcon 7.4.1 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /usr/local/freesurfer/7.4.1 mri_vol2surf --mov /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1058687/rh.wm.mgh --regheader ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex srcvol = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99063 0.09237 0.10062 -0.00001; 0.10019 -0.00934 0.99492 0.00003; -0.09284 -0.99568 -0.00000 -0.00007; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Reading surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 61194 Masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1058687/rh.wm.mgh Dim: 106948 1 1 mri_vol2surf done mri_vol2surf --mov /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1058687/rh.gm.mgh --projfrac 0.3 --regheader ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex srcvol = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99063 0.09237 0.10062 -0.00001; 0.10019 -0.00934 0.99492 0.00003; -0.09284 -0.99568 -0.00000 -0.00007; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Reading surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Done reading source surface Reading thickness /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 70868 Masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1058687/rh.gm.mgh Dim: 106948 1 1 mri_vol2surf done mri_concat /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1058687/rh.wm.mgh /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1058687/rh.gm.mgh --paired-diff-norm --mul 100 --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.w-g.pct.mgh mri_segstats --in /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.w-g.pct.mgh --annot ED751_SAG_MPRAGE_p2_NON-SSc.nii rh aparc --sum /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/stats/rh.w-g.pct.stats --snr 7.4.1 cwd cmdline mri_segstats --in /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.w-g.pct.mgh --annot ED751_SAG_MPRAGE_p2_NON-SSc.nii rh aparc --sum /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/stats/rh.w-g.pct.stats --snr sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.annot Seg base 2000 MRISannot2seg(): nhits = 98865 Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.w-g.pct.mgh Vertex Area is 0.661722 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 2023:09:13:13:19:25 pctsurfcon N 3 e 2.83 S 0.29 U 2.51 P 99% M 253448 F 0 R 176128 W 0 c 85 w 68 I 0 O 3168 L 4.73 4.50 4.47 @#@FSLOADPOST 2023:09:13:13:19:28 pctsurfcon N 3 4.67 4.49 4.47 #----------------------------------------- #@# Relabel Hypointensities Wed Sep 13 13:19:28 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz reading input surface ../surf/lh.white... relabeling lh hypointensities... 6523 voxels changed to hypointensity... reading input surface ../surf/rh.white... relabeling rh hypointensities... 1681 voxels changed to hypointensity... 8080 hypointense voxels neighboring cortex changed @#@FSTIME 2023:09:13:13:19:28 mri_relabel_hypointensities N 3 e 11.50 S 0.47 U 11.01 P 99% M 434492 F 12 R 316138 W 0 c 55 w 10 I 2168 O 592 L 4.67 4.49 4.47 @#@FSLOADPOST 2023:09:13:13:19:40 mri_relabel_hypointensities N 3 4.56 4.47 4.46 #----------------------------------------- #@# APas-to-ASeg Wed Sep 13 13:19:40 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o aseg.mgz --i aseg.presurf.hypos.mgz --fix-presurf-with-ribbon /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/ribbon.mgz --threads 1 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol aseg.mgz 6 avail.processors, using 1 Loading aseg.presurf.hypos.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/ribbon.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 0 ndotcheck = 0 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 791320 mri_surf2volseg done @#@FSTIME 2023:09:13:13:19:40 mri_surf2volseg N 20 e 11.85 S 0.31 U 11.53 P 99% M 761720 F 9 R 205676 W 0 c 76 w 8 I 1616 O 600 L 4.56 4.47 4.46 @#@FSLOADPOST 2023:09:13:13:19:52 mri_surf2volseg N 20 4.44 4.45 4.45 mri_brainvol_stats --subject ED751_SAG_MPRAGE_p2_NON-SSc.nii ComputeBrainVolumeStats2 VoxelVol=1, KeepCSF=1 #CBVS2 MaskVol 1259253.0 #CBVS2 BrainSegVol 874491.0 #CBVS2 BrainSegVolNotVent 831967.0 #CBVS2 SupraTentVol 776191.0 #CBVS2 SupraTentVolNotVent 733667.0 #CBVS2 lhCtxGM 171550.2 #CBVS2 rhCtxGM 170451.1 #CBVS2 lhCerebralWM 172784.5 #CBVS2 rhCerebralWM 172942.5 #CBVS2 SubCortGMVol 46646.0 #CBVS2 CerebellumVol 98300.0 #CBVS2 CerebellumGMVol 77862.0 #CBVS2 VentChorVol 38467.0 #CBVS2 3rd4th5thCSF 4057.0 #CBVS2 AllCSF 42524.0 #CBVS2 CCVol 3251.0 @#@FSTIME 2023:09:13:13:19:52 mri_brainvol_stats N 2 e 3.63 S 0.14 U 3.41 P 97% M 191104 F 26 R 99536 W 0 c 10 w 23 I 6387 O 8 L 4.44 4.45 4.45 @#@FSLOADPOST 2023:09:13:13:19:55 mri_brainvol_stats N 2 4.44 4.45 4.45 #----------------------------------------- #@# AParc-to-ASeg aparc Wed Sep 13 13:19:55 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o aparc+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot 1000 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.annot 2000 --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol aparc+aseg.mgz 6 avail.processors, using 1 Loading aseg.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7886 vertices from lh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 8083 vertices from rh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 0 ndotcheck = 13624 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 774336 mri_surf2volseg done @#@FSTIME 2023:09:13:13:19:55 mri_surf2volseg N 25 e 73.44 S 0.48 U 72.93 P 99% M 744628 F 0 R 204224 W 0 c 311 w 1 I 0 O 696 L 4.44 4.45 4.45 @#@FSLOADPOST 2023:09:13:13:21:09 mri_surf2volseg N 25 4.72 4.50 4.47 #----------------------------------------- #@# AParc-to-ASeg aparc.a2009s Wed Sep 13 13:21:09 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o aparc.a2009s+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.a2009s.annot 11100 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.a2009s.annot 12100 --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol aparc.a2009s+aseg.mgz 6 avail.processors, using 1 Loading aseg.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7886 vertices from lh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.a2009s.annot Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 8083 vertices from rh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 0 ndotcheck = 13624 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 774460 mri_surf2volseg done @#@FSTIME 2023:09:13:13:21:09 mri_surf2volseg N 25 e 73.50 S 0.40 U 73.04 P 99% M 744956 F 0 R 201671 W 0 c 317 w 1 I 0 O 752 L 4.72 4.50 4.47 @#@FSLOADPOST 2023:09:13:13:22:22 mri_surf2volseg N 25 4.58 4.50 4.47 #----------------------------------------- #@# AParc-to-ASeg aparc.DKTatlas Wed Sep 13 13:22:22 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o aparc.DKTatlas+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.DKTatlas.annot 1000 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.DKTatlas.annot 2000 --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol aparc.DKTatlas+aseg.mgz 6 avail.processors, using 1 Loading aseg.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7886 vertices from lh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.DKTatlas.annot Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 8083 vertices from rh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nrelabeled = 0 ndotcheck = 13624 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 774468 mri_surf2volseg done @#@FSTIME 2023:09:13:13:22:22 mri_surf2volseg N 25 e 72.82 S 0.27 U 72.51 P 99% M 744744 F 0 R 198882 W 0 c 490 w 1 I 0 O 680 L 4.58 4.50 4.47 @#@FSLOADPOST 2023:09:13:13:23:35 mri_surf2volseg N 25 4.67 4.53 4.48 #----------------------------------------- #@# WMParc Wed Sep 13 13:23:35 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o wmparc.mgz --label-wm --i aparc+aseg.mgz --threads 1 --lh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot 3000 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.annot 4000 --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol wmparc.mgz 6 avail.processors, using 1 Loading aparc+aseg.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7886 vertices from lh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 8083 vertices from rh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 0 ndotcheck = 3674 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 774336 mri_surf2volseg done @#@FSTIME 2023:09:13:13:23:35 mri_surf2volseg N 25 e 33.67 S 0.29 U 33.33 P 99% M 744668 F 0 R 204221 W 0 c 459 w 1 I 0 O 768 L 4.67 4.53 4.48 @#@FSLOADPOST 2023:09:13:13:24:09 mri_surf2volseg N 25 4.53 4.50 4.47 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 ED751_SAG_MPRAGE_p2_NON-SSc.nii --surf-wm-vol --ctab /usr/local/freesurfer/7.4.1/WMParcStatsLUT.txt --etiv setting seed for random number genererator to 1234 7.4.1 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 ED751_SAG_MPRAGE_p2_NON-SSc.nii --surf-wm-vol --ctab /usr/local/freesurfer/7.4.1/WMParcStatsLUT.txt --etiv sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1243302 mm^3 (det: 1.566880 ) 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 2023:09:13:13:24:09 mri_segstats N 24 e 346.76 S 0.85 U 345.65 P 99% M 239740 F 0 R 1206314 W 0 c 1889 w 5 I 2256 O 40 L 4.53 4.50 4.47 @#@FSLOADPOST 2023:09:13:13:29:56 mri_segstats N 24 4.63 4.54 4.48 #----------------------------------------- #@# Parcellation Stats lh Wed Sep 13 13:29:56 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh white computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 981 651 1273 2.138 0.431 0.084 0.014 4 0.5 bankssts 684 560 1650 2.786 0.607 0.157 0.033 15 1.0 caudalanteriorcingulate 2961 1758 4834 2.546 0.507 0.095 0.019 22 2.3 caudalmiddlefrontal 2227 1573 3110 1.883 0.495 0.141 0.030 26 2.9 cuneus 367 326 1690 3.415 0.882 0.160 0.041 5 0.7 entorhinal 3342 2598 7363 2.522 0.656 0.154 0.041 49 5.6 fusiform 3973 2744 7136 2.343 0.620 0.122 0.026 40 4.0 inferiorparietal 3462 2539 8875 2.759 0.712 0.125 0.027 39 3.8 inferiortemporal 1405 933 2117 2.103 0.694 0.104 0.025 13 1.4 isthmuscingulate 5587 3923 9111 2.078 0.586 0.142 0.034 67 7.8 lateraloccipital 2465 1891 5514 2.666 0.638 0.152 0.037 35 4.4 lateralorbitofrontal 3399 2511 5282 1.898 0.567 0.147 0.035 46 5.0 lingual 1976 1553 4577 2.764 0.859 0.165 0.044 41 3.8 medialorbitofrontal 3322 2299 6859 2.558 0.737 0.122 0.025 36 3.4 middletemporal 877 562 1914 2.773 0.928 0.096 0.023 6 0.7 parahippocampal 1594 969 2751 2.491 0.547 0.098 0.018 10 1.3 paracentral 1881 1188 2890 2.242 0.501 0.092 0.019 15 1.3 parsopercularis 621 451 1485 2.566 0.653 0.145 0.042 9 0.9 parsorbitalis 1666 1007 2441 2.236 0.558 0.115 0.028 16 1.7 parstriangularis 1983 1326 2161 1.732 0.464 0.127 0.029 22 2.5 pericalcarine 5949 3560 7506 1.923 0.669 0.102 0.020 46 5.1 postcentral 1227 891 2203 2.266 0.675 0.135 0.029 16 1.7 posteriorcingulate 6748 3894 10329 2.515 0.573 0.094 0.022 46 5.9 precentral 4362 3128 7836 2.214 0.627 0.126 0.029 47 5.2 precuneus 776 598 1782 2.859 1.102 0.169 0.044 16 1.9 rostralanteriorcingulate 6500 4240 9273 2.095 0.542 0.126 0.030 71 8.0 rostralmiddlefrontal 7512 4844 14839 2.695 0.612 0.107 0.022 61 6.6 superiorfrontal 6454 4236 9736 2.132 0.556 0.122 0.029 68 7.2 superiorparietal 4793 3093 9132 2.571 0.632 0.102 0.020 41 3.7 superiortemporal 3602 2330 6415 2.491 0.587 0.113 0.023 35 3.3 supramarginal 293 253 978 2.998 0.419 0.181 0.041 6 0.5 frontalpole 447 465 2517 3.488 1.010 0.206 0.066 10 1.5 temporalpole 571 346 749 2.036 0.395 0.119 0.029 6 0.6 transversetemporal 2656 1731 5152 2.854 0.862 0.128 0.040 29 4.5 insula @#@FSTIME 2023:09:13:13:29:56 mris_anatomical_stats N 14 e 7.49 S 0.16 U 7.31 P 99% M 376108 F 12 R 110293 W 0 c 52 w 10 I 1896 O 32 L 4.63 4.54 4.48 @#@FSLOADPOST 2023:09:13:13:30:03 mris_anatomical_stats N 14 4.93 4.61 4.50 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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh pial computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 981 574 1273 2.138 0.431 0.098 0.027 16 0.9 bankssts 684 723 1650 2.786 0.607 0.194 0.063 307 1.2 caudalanteriorcingulate 2961 2040 4834 2.546 0.507 0.102 0.020 31 2.2 caudalmiddlefrontal 2227 1846 3110 1.883 0.495 0.132 0.029 37 2.5 cuneus 367 695 1690 3.415 0.882 0.340 0.101 10 1.7 entorhinal 3342 3234 7363 2.522 0.656 0.171 0.046 79 6.3 fusiform 3973 3165 7136 2.343 0.620 0.137 0.031 405 5.2 inferiorparietal 3462 3604 8875 2.759 0.712 0.155 0.035 53 5.1 inferiortemporal 1405 1134 2117 2.103 0.694 0.166 0.055 90 2.9 isthmuscingulate 5587 4813 9111 2.078 0.586 0.140 0.033 105 7.7 lateraloccipital 2465 2242 5514 2.666 0.638 0.164 0.043 43 4.1 lateralorbitofrontal 3399 3137 5282 1.898 0.567 0.157 0.046 94 5.9 lingual 1976 1819 4577 2.764 0.859 0.171 0.045 47 3.7 medialorbitofrontal 3322 2980 6859 2.558 0.737 0.140 0.031 78 4.1 middletemporal 877 840 1914 2.773 0.928 0.184 0.057 15 2.4 parahippocampal 1594 1228 2751 2.491 0.547 0.111 0.023 27 1.6 paracentral 1881 1416 2890 2.242 0.501 0.109 0.019 15 1.5 parsopercularis 621 705 1485 2.566 0.653 0.180 0.031 6 0.9 parsorbitalis 1666 1230 2441 2.236 0.558 0.122 0.025 20 1.5 parstriangularis 1983 1244 2161 1.732 0.464 0.113 0.028 44 2.2 pericalcarine 5949 4377 7506 1.923 0.669 0.112 0.021 85 5.2 postcentral 1227 1073 2203 2.266 0.675 0.174 0.051 52 2.5 posteriorcingulate 6748 4322 10329 2.515 0.573 0.094 0.018 59 5.0 precentral 4362 3712 7836 2.214 0.627 0.149 0.035 61 6.3 precuneus 776 712 1782 2.859 1.102 0.223 0.073 90 2.0 rostralanteriorcingulate 6500 4626 9273 2.095 0.542 0.132 0.031 87 8.0 rostralmiddlefrontal 7512 5974 14839 2.695 0.612 0.121 0.024 74 7.3 superiorfrontal 6454 4890 9736 2.132 0.556 0.132 0.041 146 7.6 superiorparietal 4793 3809 9132 2.571 0.632 0.119 0.024 66 4.9 superiortemporal 3602 2764 6415 2.491 0.587 0.119 0.024 43 3.4 supramarginal 293 418 978 2.998 0.419 0.250 0.039 5 0.5 frontalpole 447 941 2517 3.488 1.010 0.348 0.063 9 1.7 temporalpole 571 427 749 2.036 0.395 0.106 0.021 4 0.4 transversetemporal 2656 1710 5152 2.854 0.862 0.150 0.052 81 5.1 insula @#@FSTIME 2023:09:13:13:30:03 mris_anatomical_stats N 14 e 6.93 S 0.21 U 6.71 P 99% M 375856 F 0 R 110301 W 0 c 81 w 1 I 0 O 24 L 4.93 4.61 4.50 @#@FSLOADPOST 2023:09:13:13:30:10 mris_anatomical_stats N 14 4.94 4.62 4.51 #----------------------------------------- #@# Parcellation Stats rh Wed Sep 13 13:30:10 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh white computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 1208 783 1836 2.580 0.369 0.091 0.015 5 0.8 bankssts 597 401 1009 2.355 0.535 0.150 0.032 13 0.6 caudalanteriorcingulate 2989 1817 4784 2.399 0.514 0.101 0.021 24 2.4 caudalmiddlefrontal 2233 1528 3000 1.854 0.427 0.135 0.030 25 2.9 cuneus 376 286 1362 3.115 1.020 0.140 0.044 4 0.8 entorhinal 3247 2372 7484 2.637 0.651 0.137 0.032 39 4.6 fusiform 5240 3582 8686 2.216 0.595 0.126 0.027 56 5.8 inferiorparietal 3561 2712 8986 2.628 0.745 0.135 0.031 45 4.6 inferiortemporal 1152 784 1985 2.396 0.770 0.128 0.031 16 1.3 isthmuscingulate 5724 3912 8605 2.010 0.583 0.136 0.031 66 7.4 lateraloccipital 2632 1921 5358 2.497 0.652 0.150 0.042 38 4.8 lateralorbitofrontal 3700 2802 5547 1.911 0.515 0.156 0.039 51 6.4 lingual 1862 1384 4433 2.746 0.803 0.129 0.034 21 2.6 medialorbitofrontal 4074 2719 8051 2.548 0.690 0.110 0.023 37 3.6 middletemporal 876 549 1656 2.550 0.958 0.097 0.024 7 0.7 parahippocampal 1924 1171 2918 2.342 0.625 0.098 0.019 13 1.6 paracentral 1542 1000 2644 2.413 0.494 0.103 0.023 12 1.4 parsopercularis 846 576 1927 2.617 0.494 0.135 0.037 12 1.1 parsorbitalis 1756 1131 2524 2.087 0.528 0.119 0.029 17 1.9 parstriangularis 2152 1464 2227 1.639 0.409 0.126 0.024 25 2.2 pericalcarine 4947 3094 6098 1.855 0.613 0.102 0.019 36 4.1 postcentral 1111 844 2237 2.548 0.612 0.154 0.035 16 1.7 posteriorcingulate 6560 3927 9807 2.420 0.540 0.095 0.019 41 5.2 precentral 4699 3113 7616 2.233 0.632 0.111 0.022 43 4.1 precuneus 454 336 1073 2.678 0.667 0.141 0.028 8 0.6 rostralanteriorcingulate 5999 3936 8995 2.129 0.562 0.127 0.031 70 7.9 rostralmiddlefrontal 8314 5366 16236 2.641 0.580 0.112 0.024 76 8.1 superiorfrontal 6717 4265 9197 2.005 0.585 0.119 0.026 67 7.2 superiorparietal 4759 2929 8519 2.569 0.673 0.091 0.018 31 3.5 superiortemporal 3786 2448 6154 2.369 0.559 0.112 0.026 35 4.0 supramarginal 352 263 928 2.753 0.444 0.168 0.035 8 0.5 frontalpole 432 421 2655 3.497 0.949 0.185 0.065 10 1.1 temporalpole 438 251 665 2.439 0.418 0.106 0.028 3 0.4 transversetemporal 2606 1739 5039 2.882 0.740 0.117 0.031 23 3.2 insula @#@FSTIME 2023:09:13:13:30:10 mris_anatomical_stats N 14 e 7.16 S 0.14 U 7.01 P 99% M 384000 F 0 R 104860 W 0 c 61 w 1 I 0 O 24 L 4.94 4.62 4.51 @#@FSLOADPOST 2023:09:13:13:30:17 mris_anatomical_stats N 14 5.31 4.71 4.54 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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh pial computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 1208 647 1836 2.580 0.369 0.089 0.021 12 1.0 bankssts 597 486 1009 2.355 0.535 0.128 0.024 6 0.6 caudalanteriorcingulate 2989 2099 4784 2.399 0.514 0.108 0.019 25 2.5 caudalmiddlefrontal 2233 1844 3000 1.854 0.427 0.131 0.029 29 2.6 cuneus 376 556 1362 3.115 1.020 0.253 0.065 8 1.3 entorhinal 3247 3103 7484 2.637 0.651 0.164 0.043 73 5.8 fusiform 5240 4216 8686 2.216 0.595 0.138 0.032 81 6.7 inferiorparietal 3561 3793 8986 2.628 0.745 0.168 0.042 70 5.5 inferiortemporal 1152 897 1985 2.396 0.770 0.162 0.056 47 2.3 isthmuscingulate 5724 4671 8605 2.010 0.583 0.137 0.031 87 7.6 lateraloccipital 2632 2304 5358 2.497 0.652 0.173 0.049 54 5.5 lateralorbitofrontal 3700 3262 5547 1.911 0.515 0.158 0.040 69 5.9 lingual 1862 1923 4433 2.746 0.803 0.193 0.050 50 4.1 medialorbitofrontal 4074 3475 8051 2.548 0.690 0.133 0.029 57 4.6 middletemporal 876 741 1656 2.550 0.958 0.142 0.037 10 1.4 parahippocampal 1924 1323 2918 2.342 0.625 0.104 0.021 21 1.7 paracentral 1542 1206 2644 2.413 0.494 0.115 0.022 17 1.4 parsopercularis 846 901 1927 2.617 0.494 0.169 0.033 11 1.2 parsorbitalis 1756 1357 2524 2.087 0.528 0.126 0.030 19 1.8 parstriangularis 2152 1384 2227 1.639 0.409 0.120 0.026 33 2.3 pericalcarine 4947 3644 6098 1.855 0.613 0.106 0.019 34 3.7 postcentral 1111 966 2237 2.548 0.612 0.162 0.050 31 1.9 posteriorcingulate 6560 4283 9807 2.420 0.540 0.096 0.018 63 4.8 precentral 4699 3552 7616 2.233 0.632 0.130 0.030 74 5.4 precuneus 454 463 1073 2.678 0.667 0.167 0.039 9 0.7 rostralanteriorcingulate 5999 4534 8995 2.129 0.562 0.136 0.031 87 7.6 rostralmiddlefrontal 8314 6734 16236 2.641 0.580 0.126 0.027 91 8.4 superiorfrontal 6717 4964 9197 2.005 0.585 0.123 0.026 138 6.8 superiorparietal 4759 3690 8519 2.569 0.673 0.119 0.028 85 5.7 superiortemporal 3786 2765 6154 2.369 0.559 0.122 0.028 71 4.2 supramarginal 352 431 928 2.753 0.444 0.181 0.026 3 0.4 frontalpole 432 1023 2655 3.497 0.949 0.355 0.061 7 1.4 temporalpole 438 305 665 2.439 0.418 0.093 0.024 2 0.4 transversetemporal 2606 1682 5039 2.882 0.740 0.129 0.041 47 3.9 insula @#@FSTIME 2023:09:13:13:30:17 mris_anatomical_stats N 14 e 6.88 S 0.17 U 6.71 P 99% M 384060 F 0 R 104860 W 0 c 30 w 1 I 0 O 48 L 5.31 4.71 4.54 @#@FSLOADPOST 2023:09:13:13:30:24 mris_anatomical_stats N 14 5.21 4.70 4.54 #----------------------------------------- #@# Parcellation Stats 2 lh Wed Sep 13 13:30:24 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh white computing statistics for each annotation in ../label/lh.aparc.a2009s.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 896 689 1786 2.356 0.659 0.156 0.038 11 1.5 G_and_S_frontomargin 1131 812 2049 2.222 0.573 0.146 0.039 14 1.7 G_and_S_occipital_inf 1283 753 2429 2.516 0.619 0.097 0.021 8 1.1 G_and_S_paracentral 1190 746 2330 2.692 0.649 0.114 0.027 12 1.3 G_and_S_subcentral 582 447 1499 2.760 0.538 0.160 0.043 11 1.0 G_and_S_transv_frontopol 1507 1141 3187 2.818 0.828 0.144 0.031 22 2.5 G_and_S_cingul-Ant 991 740 1844 2.508 0.485 0.124 0.024 14 1.0 G_and_S_cingul-Mid-Ant 999 698 1654 2.328 0.547 0.135 0.025 11 1.1 G_and_S_cingul-Mid-Post 495 358 1243 2.648 0.622 0.138 0.034 7 0.6 G_cingul-Post-dorsal 338 236 646 2.329 0.788 0.117 0.029 3 0.5 G_cingul-Post-ventral 1966 1412 2965 1.861 0.532 0.153 0.036 29 2.9 G_cuneus 905 565 1700 2.396 0.447 0.110 0.024 11 0.8 G_front_inf-Opercular 354 223 783 2.594 0.501 0.118 0.030 4 0.4 G_front_inf-Orbital 1105 607 1747 2.372 0.538 0.117 0.032 13 1.3 G_front_inf-Triangul 3422 1971 5597 2.349 0.625 0.116 0.029 41 4.1 G_front_middle 4932 3161 11534 2.885 0.581 0.115 0.026 52 5.1 G_front_sup 536 344 1077 3.008 0.725 0.140 0.057 8 1.4 G_Ins_lg_and_S_cent_ins 517 337 1857 3.689 0.819 0.129 0.039 6 0.8 G_insular_short 1267 880 3039 2.550 0.590 0.147 0.030 18 1.5 G_occipital_middle 1199 831 2142 2.279 0.554 0.138 0.037 15 1.6 G_occipital_sup 1385 1143 3711 2.636 0.657 0.165 0.045 26 2.5 G_oc-temp_lat-fusifor 2362 1828 4145 1.892 0.610 0.159 0.039 39 4.0 G_oc-temp_med-Lingual 1027 745 3120 3.031 0.919 0.137 0.041 14 1.7 G_oc-temp_med-Parahip 1565 1282 4443 2.800 0.590 0.179 0.051 32 3.7 G_orbital 1550 1100 3836 2.613 0.658 0.134 0.033 25 1.8 G_pariet_inf-Angular 1590 1022 3434 2.697 0.515 0.119 0.028 19 1.5 G_pariet_inf-Supramar 2525 1667 4351 2.155 0.593 0.131 0.035 34 3.4 G_parietal_sup 2535 1403 3044 1.904 0.528 0.114 0.024 26 2.5 G_postcentral 2594 1235 4470 2.743 0.525 0.086 0.023 23 2.2 G_precentral 1855 1413 4722 2.505 0.662 0.134 0.032 27 2.3 G_precuneus 564 496 1830 2.832 0.686 0.173 0.044 17 1.1 G_rectus 628 418 811 2.187 0.910 0.176 0.076 13 2.0 G_subcallosal 543 333 856 2.186 0.458 0.142 0.034 8 0.7 G_temp_sup-G_T_transv 1735 1093 4480 2.975 0.572 0.122 0.029 25 1.8 G_temp_sup-Lateral 495 365 1507 3.148 0.789 0.084 0.019 2 0.4 G_temp_sup-Plan_polar 649 414 1157 2.454 0.476 0.089 0.017 5 0.4 G_temp_sup-Plan_tempo 1749 1273 5022 2.920 0.688 0.131 0.032 24 2.1 G_temporal_inf 1626 1136 4247 2.728 0.856 0.133 0.031 21 1.9 G_temporal_middle 248 168 294 1.810 0.409 0.125 0.022 2 0.2 Lat_Fis-ant-Horizont 239 172 296 1.827 0.413 0.093 0.009 1 0.1 Lat_Fis-ant-Vertical 828 527 875 2.074 0.403 0.108 0.020 5 0.8 Lat_Fis-post 1622 1159 2512 1.874 0.573 0.144 0.036 18 2.6 Pole_occipital 1029 1043 5044 3.039 0.995 0.198 0.056 24 2.7 Pole_temporal 2396 1592 2518 1.722 0.452 0.119 0.026 22 2.7 S_calcarine 3187 2051 3423 1.881 0.671 0.091 0.017 14 2.4 S_central 860 579 1084 2.113 0.454 0.093 0.015 4 0.6 S_cingul-Marginalis 339 221 587 3.038 0.788 0.099 0.023 2 0.3 S_circular_insula_ant 1385 884 1742 2.387 0.656 0.097 0.021 9 1.2 S_circular_insula_inf 1298 845 1680 2.378 0.433 0.099 0.021 6 1.1 S_circular_insula_sup 632 466 1308 2.691 0.693 0.134 0.034 7 0.8 S_collat_transv_ant 452 313 594 1.911 0.484 0.135 0.035 4 0.6 S_collat_transv_post 2042 1308 2266 1.944 0.451 0.091 0.015 10 1.3 S_front_inf 1254 836 1664 2.011 0.513 0.127 0.028 13 1.4 S_front_middle 2518 1638 3693 2.363 0.512 0.099 0.019 15 1.9 S_front_sup 190 137 273 2.332 0.474 0.127 0.016 1 0.2 S_interm_prim-Jensen 2133 1404 2619 2.146 0.518 0.116 0.023 15 2.1 S_intrapariet_and_P_trans 670 482 972 2.037 0.521 0.148 0.030 9 0.9 S_oc_middle_and_Lunatus 1150 750 1391 1.986 0.354 0.109 0.020 8 1.0 S_oc_sup_and_transversal 540 370 653 2.082 0.409 0.124 0.022 4 0.5 S_occipital_ant 915 629 1226 2.290 0.443 0.117 0.024 6 1.0 S_oc-temp_lat 1579 1045 1961 2.217 0.590 0.115 0.023 10 1.5 S_oc-temp_med_and_Lingual 196 142 256 2.234 0.490 0.122 0.036 1 0.2 S_orbital_lateral 434 318 817 2.714 0.585 0.138 0.024 4 0.5 S_orbital_med-olfact 909 667 1455 2.245 0.541 0.141 0.029 10 1.2 S_orbital-H_Shaped 2121 1447 2670 1.942 0.459 0.117 0.025 17 2.2 S_parieto_occipital 994 608 984 2.047 0.830 0.117 0.029 15 1.3 S_pericallosal 2321 1456 2688 2.036 0.582 0.095 0.018 13 1.8 S_postcentral 1265 840 1817 2.328 0.477 0.097 0.019 6 1.0 S_precentral-inf-part 1267 807 1771 2.515 0.501 0.089 0.014 5 0.9 S_precentral-sup-part 444 332 858 2.793 1.035 0.143 0.024 5 0.6 S_suborbital 818 572 1140 2.140 0.622 0.120 0.026 5 0.8 S_subparietal 1213 844 1951 2.489 0.559 0.121 0.020 10 1.1 S_temporal_inf 4308 2808 5789 2.249 0.538 0.090 0.015 21 2.6 S_temporal_sup 275 193 315 1.974 0.296 0.131 0.022 3 0.2 S_temporal_transverse @#@FSTIME 2023:09:13:13:30:24 mris_anatomical_stats N 14 e 7.49 S 0.21 U 7.27 P 99% M 376060 F 0 R 105324 W 0 c 63 w 1 I 0 O 40 L 5.21 4.70 4.54 @#@FSLOADPOST 2023:09:13:13:30:32 mris_anatomical_stats N 14 5.02 4.67 4.53 #----------------------------------------- #@# Parcellation Stats 2 rh Wed Sep 13 13:30:32 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh white computing statistics for each annotation in ../label/rh.aparc.a2009s.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 615 502 1358 2.570 0.585 0.187 0.045 14 1.3 G_and_S_frontomargin 908 632 1930 2.503 0.726 0.130 0.030 11 1.0 G_and_S_occipital_inf 1272 747 1886 2.153 0.638 0.106 0.024 10 1.3 G_and_S_paracentral 1091 703 1900 2.486 0.540 0.119 0.023 10 1.0 G_and_S_subcentral 760 573 1618 2.355 0.573 0.157 0.034 12 1.1 G_and_S_transv_frontopol 1997 1396 3879 2.594 0.599 0.117 0.024 18 2.0 G_and_S_cingul-Ant 1134 744 1715 2.287 0.479 0.112 0.020 9 1.0 G_and_S_cingul-Mid-Ant 1147 792 1858 2.402 0.459 0.120 0.021 10 1.1 G_and_S_cingul-Mid-Post 423 316 1163 3.056 0.711 0.168 0.040 8 0.7 G_cingul-Post-dorsal 308 225 786 2.714 0.798 0.128 0.023 4 0.3 G_cingul-Post-ventral 2092 1421 2834 1.811 0.449 0.141 0.031 27 2.8 G_cuneus 1040 650 2228 2.635 0.394 0.106 0.026 11 1.0 G_front_inf-Opercular 287 182 611 2.517 0.526 0.121 0.034 3 0.3 G_front_inf-Orbital 907 558 1452 2.140 0.522 0.129 0.035 11 1.3 G_front_inf-Triangul 3010 1721 5181 2.418 0.581 0.120 0.032 40 3.7 G_front_middle 5405 3358 12112 2.855 0.566 0.116 0.027 58 5.7 G_front_sup 467 313 1165 3.413 0.652 0.102 0.026 4 0.4 G_Ins_lg_and_S_cent_ins 507 348 1485 3.244 0.796 0.139 0.042 7 0.8 G_insular_short 1563 1082 3289 2.437 0.570 0.128 0.030 19 1.7 G_occipital_middle 1342 899 1992 1.964 0.531 0.136 0.030 17 1.8 G_occipital_sup 1506 1061 3970 2.779 0.534 0.141 0.033 21 2.0 G_oc-temp_lat-fusifor 2285 1791 3989 1.975 0.549 0.173 0.045 39 4.4 G_oc-temp_med-Lingual 993 690 3051 3.003 1.025 0.129 0.041 12 1.6 G_oc-temp_med-Parahip 1884 1407 5115 2.776 0.605 0.160 0.048 36 3.6 G_orbital 2203 1498 4388 2.375 0.612 0.140 0.036 34 3.0 G_pariet_inf-Angular 1610 1033 3054 2.485 0.562 0.115 0.026 16 1.8 G_pariet_inf-Supramar 2255 1402 3878 2.223 0.627 0.127 0.032 28 2.9 G_parietal_sup 1698 1006 2262 1.871 0.569 0.109 0.020 16 1.5 G_postcentral 2332 1225 4075 2.604 0.472 0.089 0.021 18 1.9 G_precentral 1848 1241 3948 2.490 0.680 0.119 0.026 23 1.9 G_precuneus 549 460 1745 2.949 0.733 0.150 0.042 11 1.2 G_rectus 328 203 500 2.261 0.875 0.120 0.050 4 0.6 G_subcallosal 387 210 582 2.359 0.344 0.106 0.030 3 0.4 G_temp_sup-G_T_transv 1584 912 3606 2.872 0.695 0.105 0.023 16 1.5 G_temp_sup-Lateral 687 463 1660 3.061 0.801 0.105 0.031 5 1.0 G_temp_sup-Plan_polar 745 464 1176 2.253 0.618 0.095 0.021 5 0.6 G_temp_sup-Plan_tempo 2176 1702 6351 2.709 0.818 0.142 0.036 32 3.2 G_temporal_inf 2153 1365 4839 2.694 0.690 0.111 0.028 23 2.1 G_temporal_middle 221 144 291 2.337 0.419 0.099 0.015 1 0.1 Lat_Fis-ant-Horizont 206 143 203 1.541 0.387 0.104 0.012 1 0.1 Lat_Fis-ant-Vertical 1210 767 1501 2.362 0.512 0.098 0.020 5 1.0 Lat_Fis-post 2944 2091 3656 1.692 0.411 0.156 0.037 44 4.8 Pole_occipital 1195 1133 5694 3.127 0.902 0.180 0.052 28 2.6 Pole_temporal 2305 1582 2462 1.711 0.415 0.119 0.025 20 2.5 S_calcarine 2935 1916 3222 1.943 0.671 0.091 0.016 13 2.2 S_central 1144 766 1442 2.063 0.403 0.103 0.017 7 0.9 S_cingul-Marginalis 445 295 605 2.529 0.506 0.111 0.022 2 0.4 S_circular_insula_ant 1223 789 1732 2.563 0.625 0.082 0.019 6 0.9 S_circular_insula_inf 991 652 1310 2.381 0.432 0.097 0.019 4 0.8 S_circular_insula_sup 657 482 1114 2.456 0.569 0.116 0.023 5 0.7 S_collat_transv_ant 213 146 235 2.138 0.309 0.133 0.022 2 0.2 S_collat_transv_post 1873 1214 2084 1.852 0.480 0.107 0.022 12 1.8 S_front_inf 1603 1054 2200 2.087 0.455 0.114 0.025 13 1.6 S_front_middle 2197 1460 3242 2.271 0.453 0.095 0.018 12 1.8 S_front_sup 216 150 251 2.258 0.609 0.128 0.023 2 0.2 S_interm_prim-Jensen 2528 1655 2876 1.894 0.474 0.117 0.024 21 2.5 S_intrapariet_and_P_trans 696 466 711 1.692 0.369 0.123 0.020 6 0.7 S_oc_middle_and_Lunatus 1120 723 1237 1.916 0.424 0.107 0.019 7 0.9 S_oc_sup_and_transversal 802 512 841 2.028 0.413 0.110 0.020 5 0.7 S_occipital_ant 905 632 1233 2.343 0.425 0.118 0.023 7 0.8 S_oc-temp_lat 1376 925 1781 2.281 0.526 0.099 0.018 6 1.1 S_oc-temp_med_and_Lingual 354 248 460 2.037 0.478 0.131 0.025 3 0.4 S_orbital_lateral 461 370 795 2.138 0.551 0.144 0.038 4 0.6 S_orbital_med-olfact 867 604 1379 2.242 0.586 0.113 0.023 7 0.8 S_orbital-H_Shaped 2484 1610 2878 1.949 0.462 0.108 0.021 17 2.2 S_parieto_occipital 733 484 832 2.311 0.587 0.163 0.050 20 1.1 S_pericallosal 1952 1241 2160 1.954 0.531 0.099 0.018 12 1.4 S_postcentral 1380 897 1709 2.112 0.485 0.105 0.018 8 1.1 S_precentral-inf-part 1263 807 1635 2.401 0.446 0.089 0.016 5 0.9 S_precentral-sup-part 247 167 485 2.863 0.830 0.122 0.017 2 0.2 S_suborbital 736 506 1273 2.346 0.749 0.118 0.022 7 0.7 S_subparietal 1059 711 1352 2.251 0.569 0.119 0.017 8 0.9 S_temporal_inf 4632 3051 6462 2.297 0.528 0.094 0.016 23 3.2 S_temporal_sup 194 136 271 2.090 0.309 0.134 0.020 2 0.2 S_temporal_transverse @#@FSTIME 2023:09:13:13:30:32 mris_anatomical_stats N 14 e 7.58 S 0.17 U 7.40 P 99% M 384060 F 0 R 104863 W 0 c 36 w 1 I 0 O 40 L 5.02 4.67 4.53 @#@FSLOADPOST 2023:09:13:13:30:39 mris_anatomical_stats N 14 4.94 4.66 4.53 #----------------------------------------- #@# Parcellation Stats 3 lh Wed Sep 13 13:30:39 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh white computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 1024 770 2044 2.677 0.547 0.143 0.028 18 1.2 caudalanteriorcingulate 3157 1879 5093 2.526 0.509 0.094 0.019 23 2.4 caudalmiddlefrontal 3001 2120 4293 1.926 0.498 0.142 0.032 36 3.9 cuneus 363 314 1524 3.271 0.930 0.166 0.044 5 0.7 entorhinal 3012 2324 6407 2.515 0.641 0.152 0.039 42 4.8 fusiform 4020 2774 7425 2.381 0.627 0.125 0.027 44 4.2 inferiorparietal 3528 2598 9101 2.742 0.727 0.127 0.029 41 4.2 inferiortemporal 1411 937 2148 2.115 0.696 0.104 0.026 13 1.5 isthmuscingulate 5661 3959 9124 2.080 0.576 0.143 0.034 67 8.0 lateraloccipital 2763 2183 6410 2.662 0.636 0.168 0.045 47 5.8 lateralorbitofrontal 3492 2579 5403 1.889 0.566 0.146 0.035 48 5.0 lingual 1505 1202 3605 2.751 0.824 0.168 0.042 32 2.7 medialorbitofrontal 4372 3041 8763 2.490 0.721 0.117 0.024 43 4.2 middletemporal 913 589 2004 2.783 0.936 0.096 0.023 6 0.8 parahippocampal 1933 1196 3408 2.489 0.566 0.098 0.018 12 1.5 paracentral 1641 1046 2540 2.278 0.459 0.099 0.021 14 1.2 parsopercularis 744 508 1373 2.327 0.662 0.120 0.027 6 0.9 parsorbitalis 2075 1259 2918 2.186 0.575 0.110 0.027 19 2.0 parstriangularis 1937 1291 2093 1.731 0.462 0.126 0.029 21 2.5 pericalcarine 6550 3958 8291 1.940 0.667 0.103 0.020 50 5.7 postcentral 1331 952 2278 2.250 0.653 0.138 0.030 18 1.8 posteriorcingulate 6687 3852 10184 2.515 0.571 0.094 0.022 45 6.0 precentral 4196 3016 7738 2.223 0.639 0.127 0.029 47 4.9 precuneus 1030 780 2274 2.870 1.086 0.168 0.047 21 2.6 rostralanteriorcingulate 4822 3067 6871 2.068 0.554 0.123 0.030 52 5.8 rostralmiddlefrontal 8344 5514 16767 2.663 0.628 0.113 0.024 77 8.1 superiorfrontal 5038 3281 7661 2.149 0.559 0.118 0.028 51 5.6 superiorparietal 5947 4024 12635 2.607 0.710 0.110 0.024 57 5.7 superiortemporal 3336 2161 5785 2.474 0.582 0.113 0.023 31 3.0 supramarginal 563 341 743 2.037 0.400 0.121 0.030 6 0.6 transversetemporal 2267 1455 4579 2.947 0.870 0.117 0.034 21 3.2 insula @#@FSTIME 2023:09:13:13:30:39 mris_anatomical_stats N 14 e 6.67 S 0.17 U 6.49 P 99% M 375940 F 0 R 105322 W 0 c 39 w 1 I 0 O 24 L 4.94 4.66 4.53 @#@FSLOADPOST 2023:09:13:13:30:46 mris_anatomical_stats N 14 5.02 4.69 4.54 #----------------------------------------- #@# Parcellation Stats 3 rh Wed Sep 13 13:30:46 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh white computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 671 441 1103 2.356 0.526 0.147 0.031 14 0.6 caudalanteriorcingulate 3068 1872 4864 2.395 0.514 0.102 0.021 24 2.5 caudalmiddlefrontal 2812 1907 3753 1.897 0.473 0.137 0.030 32 3.7 cuneus 365 270 1251 3.072 1.013 0.139 0.044 4 0.8 entorhinal 2947 2113 6259 2.621 0.570 0.135 0.030 34 3.8 fusiform 5311 3633 8650 2.199 0.587 0.127 0.027 57 5.9 inferiorparietal 3786 2928 10089 2.633 0.798 0.135 0.032 50 5.2 inferiortemporal 1144 772 1922 2.369 0.765 0.126 0.029 15 1.3 isthmuscingulate 5832 3969 8758 2.011 0.585 0.136 0.031 68 7.5 lateraloccipital 2731 2039 6017 2.586 0.660 0.156 0.042 43 4.9 lateralorbitofrontal 3617 2747 5454 1.922 0.515 0.156 0.040 50 6.3 lingual 1512 1132 3616 2.738 0.778 0.141 0.039 22 2.5 medialorbitofrontal 4932 3277 9491 2.540 0.655 0.108 0.022 42 4.3 middletemporal 917 581 1748 2.543 0.970 0.097 0.024 7 0.7 parahippocampal 2052 1242 3255 2.382 0.644 0.099 0.019 14 1.7 paracentral 1797 1144 2919 2.340 0.536 0.106 0.024 15 1.7 parsopercularis 773 526 1509 2.447 0.496 0.119 0.032 8 1.0 parsorbitalis 1785 1158 2578 2.096 0.514 0.123 0.029 18 2.1 parstriangularis 2101 1424 2166 1.641 0.411 0.125 0.024 24 2.1 pericalcarine 5495 3393 6823 1.897 0.625 0.102 0.019 41 4.6 postcentral 1250 941 2617 2.596 0.605 0.157 0.036 19 2.0 posteriorcingulate 6302 3769 9504 2.423 0.544 0.095 0.019 39 4.9 precentral 4862 3233 7861 2.184 0.648 0.108 0.021 43 4.2 precuneus 576 425 1352 2.587 0.785 0.138 0.029 9 0.8 rostralanteriorcingulate 4422 2811 6332 2.077 0.563 0.122 0.030 51 5.5 rostralmiddlefrontal 10094 6646 19370 2.589 0.582 0.115 0.026 96 10.4 superiorfrontal 5316 3407 7318 1.997 0.576 0.122 0.027 54 5.8 superiorparietal 5996 3864 12434 2.656 0.713 0.099 0.022 45 5.2 superiortemporal 3558 2304 5852 2.396 0.554 0.111 0.025 31 3.7 supramarginal 433 249 661 2.436 0.410 0.103 0.027 3 0.4 transversetemporal 2408 1607 4713 2.895 0.727 0.113 0.028 20 2.7 insula @#@FSTIME 2023:09:13:13:30:46 mris_anatomical_stats N 14 e 6.98 S 0.16 U 6.81 P 99% M 384188 F 0 R 104860 W 0 c 31 w 1 I 0 O 32 L 5.02 4.69 4.54 @#@FSLOADPOST 2023:09:13:13:30:53 mris_anatomical_stats N 14 4.94 4.68 4.54 #-------------------------------------------- #@# ASeg Stats Wed Sep 13 13:30:53 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /usr/local/freesurfer/7.4.1/ASegStatsLUT.txt --subject ED751_SAG_MPRAGE_p2_NON-SSc.nii setting seed for random number genererator to 1234 7.4.1 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 /usr/local/freesurfer/7.4.1/ASegStatsLUT.txt --subject ED751_SAG_MPRAGE_p2_NON-SSc.nii sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1243302 mm^3 (det: 1.566880 ) Computing euler number orig.nofix lheno = -16, rheno = -6 orig.nofix lhholes = 9, rhholes = 4 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 2023:09:13:13:30:53 mri_segstats N 32 e 172.75 S 0.57 U 171.24 P 99% M 272864 F 0 R 742286 W 0 c 1544 w 48 I 14204 O 40 L 4.94 4.68 4.54 @#@FSLOADPOST 2023:09:13:13:33:46 mri_segstats N 32 4.54 4.62 4.53 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label INFO: fsaverage subject does not exist in SUBJECTS_DIR INFO: Creating symlink to fsaverage subject... cd /media/mt/Expansion/Disk9/EDIS_751; cp -s /usr/local/freesurfer/7.4.1/subjects/fsaverage; cd - cp: missing destination file operand after '/usr/local/freesurfer/7.4.1/subjects/fsaverage' Try 'cp --help' for more information. #-------------------------------------------- #@# BA_exvivo Labels lh Wed Sep 13 13:33:46 +08 2023 ------------------------------------------------------------------------- ERROR: Label BA1_exvivo does not exist in SUBJECTS_DIR fsaverage! The fsaverage link probably points to an older freesurfer version /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA1_exvivo.label ------------------------------------------------------------------------- Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux recon-all -s ED751_SAG_MPRAGE_p2_NON-SSc.nii exited with ERRORS at Wed Sep 13 13:33:46 +08 2023 To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting #New# invocation of recon-all Wed Sep 13 13:57:46 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 /usr/local/freesurfer/7.4.1/bin/recon-all -s ED751/SAG_MPRAGE_p2_NON-SS/ED751_SAG_MPRAGE_p2_NON-SSc.nii -autorecon3 -qcache subjid ED751_SAG_MPRAGE_p2_NON-SSc.nii setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Actual FREESURFER_HOME /usr/local/freesurfer/7.4.1 build-stamp.txt: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 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 2021552 kbytes maxproc 62847 maxlocks unlimited maxsignal 62847 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 15Gi 3.3Gi 4.0Gi 289Mi 8.1Gi 11Gi Swap: 2.0Gi 109Mi 1.9Gi ######################################## program versions used 7.4.1 (freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460) 7.4.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 7.4.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 7.4.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.4.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-05:57:46-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-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 /usr/local/freesurfer/7.4.1/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 /usr/local/freesurfer/7.4.1/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### #-------------------------------------------- #@# Sphere lh Wed Sep 13 13:57:46 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_sphere -seed 1234 ../surf/lh.inflated ../surf/lh.sphere setting seed for random number genererator to 1234 version: 7.4.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.355... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=mtubu, 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 -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %38.44 pass 1: epoch 2 of 3 starting distance error %18.48 unfolding complete - removing small folds... starting distance error %18.43 removing remaining folds... final distance error %18.43 MRISunfold() return, current seed 1234 -01: dt=0.0000, 66 negative triangles VmPeak 481684 055: dt=0.9900, 66 negative triangles 056: dt=0.9900, 11 negative triangles 057: dt=0.9900, 5 negative triangles 058: dt=0.9900, 6 negative triangles 059: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/lh.sphere spherical transformation took 0.0503 hours FSRUNTIME@ mris_sphere 0.0503 hours 1 threads #VMPC# mris_sphere VmPeak 481684 mris_sphere done @#@FSTIME 2023:09:13:13:57:46 mris_sphere N 4 e 181.23 S 4.77 U 176.13 P 99% M 216380 F 0 R 3137196 W 0 c 2559 w 1 I 0 O 7384 L 5.43 5.04 4.75 @#@FSLOADPOST 2023:09:13:14:00:47 mris_sphere N 4 4.15 4.70 4.68 #-------------------------------------------- #@# Sphere rh Wed Sep 13 14:00:47 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_sphere -seed 1234 ../surf/rh.inflated ../surf/rh.sphere setting seed for random number genererator to 1234 version: 7.4.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.344... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=mtubu, 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 %18.88 pass 1: epoch 2 of 3 starting distance error %18.88 unfolding complete - removing small folds... starting distance error %18.87 removing remaining folds... final distance error %18.87 MRISunfold() return, current seed 1234 -01: dt=0.0000, 59 negative triangles VmPeak 486556 087: dt=0.9900, 59 negative triangles 088: dt=0.9900, 12 negative triangles 089: dt=0.9900, 1 negative triangles 090: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 0.0784 hours FSRUNTIME@ mris_sphere 0.0784 hours 1 threads #VMPC# mris_sphere VmPeak 486556 mris_sphere done @#@FSTIME 2023:09:13:14:00:47 mris_sphere N 4 e 282.11 S 7.41 U 274.66 P 99% M 221648 F 0 R 5012176 W 0 c 1558 w 1 I 0 O 7552 L 4.15 4.70 4.68 @#@FSLOADPOST 2023:09:13:14:05:30 mris_sphere N 4 4.08 4.28 4.49 #-------------------------------------------- #@# Surf Reg lh Wed Sep 13 14:05:30 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_register -curv ../surf/lh.sphere /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg using smoothwm curvature for final alignment cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts cmdline mris_register -curv ../surf/lh.sphere /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.4.1 7.4.1 reading surface from ../surf/lh.sphere... reading template parameterization from /usr/local/freesurfer/7.4.1/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=mtubu, 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=mtubu, 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=mtubu, 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 = 5.436 curvature mean = 0.028, std = 0.822 curvature mean = 0.011, std = 0.887 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (-3.00, 0.00, 4.50) sse = 165905.0, elapsed since starting=0.2877 min MRISrigidBodyAlignGlobal() done 0.29 min curvature mean = 0.019, std = 0.852 curvature mean = 0.004, std = 0.959 curvature mean = 0.018, std = 0.865 curvature mean = 0.002, std = 0.984 curvature mean = 0.018, std = 0.869 curvature mean = 0.000, std = 0.994 2 Reading smoothwm curvature mean = -0.019, std = 0.247 curvature mean = 0.043, std = 0.253 curvature mean = 0.050, std = 0.439 curvature mean = 0.041, std = 0.310 curvature mean = 0.018, std = 0.663 curvature mean = 0.041, std = 0.336 curvature mean = 0.008, std = 0.798 curvature mean = 0.041, std = 0.347 curvature mean = 0.001, std = 0.887 MRISregister() return, current seed 0 writing registered surface to ../surf/lh.sphere.reg... -01: dt=0.0000, 0 negative triangles VmPeak 478544 registration took 0.08 hours #VMPC# mris_register VmPeak 478544 FSRUNTIME@ mris_register 0.0807 hours 1 threads @#@FSTIME 2023:09:13:14:05:30 mris_register N 4 e 290.68 S 7.80 U 282.84 P 99% M 213748 F 0 R 4847039 W 0 c 1201 w 1 I 0 O 7384 L 4.08 4.28 4.49 @#@FSLOADPOST 2023:09:13:14:10:20 mris_register N 4 4.09 4.16 4.38 cp lh.sphere.reg lh.fsaverage.sphere.reg #-------------------------------------------- #@# Surf Reg rh Wed Sep 13 14:10:20 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_register -curv ../surf/rh.sphere /usr/local/freesurfer/7.4.1/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg using smoothwm curvature for final alignment cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts cmdline mris_register -curv ../surf/rh.sphere /usr/local/freesurfer/7.4.1/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.4.1 7.4.1 reading surface from ../surf/rh.sphere... reading template parameterization from /usr/local/freesurfer/7.4.1/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=mtubu, 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=mtubu, 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=mtubu, 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 = 5.504 curvature mean = 0.030, std = 0.819 curvature mean = 0.012, std = 0.887 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (7.50, 1.00, 5.00) sse = 221683.4, elapsed since starting=0.3086 min MRISrigidBodyAlignGlobal() done 0.31 min curvature mean = 0.021, std = 0.852 curvature mean = 0.004, std = 0.960 curvature mean = 0.021, std = 0.865 curvature mean = 0.002, std = 0.985 curvature mean = 0.021, std = 0.869 curvature mean = 0.000, std = 0.995 2 Reading smoothwm curvature mean = -0.020, std = 0.244 curvature mean = 0.038, std = 0.247 curvature mean = 0.049, std = 0.446 curvature mean = 0.036, std = 0.303 curvature mean = 0.016, std = 0.670 curvature mean = 0.036, std = 0.328 curvature mean = 0.006, std = 0.805 curvature mean = 0.036, std = 0.340 curvature mean = 0.000, std = 0.891 MRISregister() return, current seed 0 writing registered surface to ../surf/rh.sphere.reg... -01: dt=0.0000, 0 negative triangles VmPeak 482580 registration took 0.10 hours #VMPC# mris_register VmPeak 482580 FSRUNTIME@ mris_register 0.1005 hours 1 threads @#@FSTIME 2023:09:13:14:10:20 mris_register N 4 e 361.69 S 7.76 U 353.84 P 99% M 217972 F 0 R 4548882 W 0 c 852 w 1 I 0 O 7560 L 4.09 4.16 4.38 @#@FSLOADPOST 2023:09:13:14:16:22 mris_register N 4 4.16 4.16 4.31 cp rh.sphere.reg rh.fsaverage.sphere.reg #-------------------------------------------- #@# Jacobian white lh Wed Sep 13 14:16:22 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white reading surface from ../surf/lh.white.preaparc... writing curvature file ../surf/lh.jacobian_white @#@FSTIME 2023:09:13:14:16:22 mris_jacobian N 3 e 0.89 S 0.08 U 0.77 P 95% M 161876 F 1 R 48460 W 0 c 22 w 4 I 352 O 824 L 4.16 4.16 4.31 @#@FSLOADPOST 2023:09:13:14:16:23 mris_jacobian N 3 4.16 4.16 4.31 #-------------------------------------------- #@# Jacobian white rh Wed Sep 13 14:16:23 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white reading surface from ../surf/rh.white.preaparc... writing curvature file ../surf/rh.jacobian_white @#@FSTIME 2023:09:13:14:16:23 mris_jacobian N 3 e 0.90 S 0.07 U 0.79 P 95% M 165420 F 0 R 49551 W 0 c 20 w 3 I 96 O 840 L 4.16 4.16 4.31 @#@FSLOADPOST 2023:09:13:14:16:24 mris_jacobian N 3 4.15 4.16 4.30 #-------------------------------------------- #@# AvgCurv lh Wed Sep 13 14:16:24 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mrisp_paint -a 5 /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/lh.sphere.reg... reading template parameterization from /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/lh.avg_curv... @#@FSTIME 2023:09:13:14:16:24 mrisp_paint N 5 e 0.68 S 0.08 U 0.58 P 98% M 126388 F 1 R 33574 W 0 c 11 w 4 I 352 O 824 L 4.15 4.16 4.30 @#@FSLOADPOST 2023:09:13:14:16:25 mrisp_paint N 5 4.15 4.16 4.30 #-------------------------------------------- #@# AvgCurv rh Wed Sep 13 14:16:25 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mrisp_paint -a 5 /usr/local/freesurfer/7.4.1/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/rh.sphere.reg... reading template parameterization from /usr/local/freesurfer/7.4.1/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/rh.avg_curv... @#@FSTIME 2023:09:13:14:16:25 mrisp_paint N 5 e 0.70 S 0.06 U 0.63 P 99% M 128900 F 0 R 34299 W 0 c 5 w 3 I 96 O 840 L 4.15 4.16 4.30 @#@FSLOADPOST 2023:09:13:14:16:25 mrisp_paint N 5 4.15 4.16 4.30 #----------------------------------------- #@# Cortical Parc lh Wed Sep 13 14:16:25 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh ../surf/lh.sphere.reg /usr/local/freesurfer/7.4.1/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 1098 labels changed using aseg relabeling using gibbs priors... 000: 2442 changed, 104549 examined... 001: 577 changed, 10470 examined... 002: 158 changed, 3273 examined... 003: 68 changed, 963 examined... 004: 26 changed, 398 examined... 005: 11 changed, 155 examined... 006: 1 changed, 71 examined... 007: 1 changed, 7 examined... 008: 0 changed, 7 examined... 255 labels changed using aseg 000: 97 total segments, 53 labels (130 vertices) changed 001: 44 total segments, 2 labels (5 vertices) changed 002: 42 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... 1503 vertices marked for relabeling... 1503 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2023:09:13:14:16:25 mris_ca_label N 11 e 7.93 S 0.50 U 7.42 P 99% M 990808 F 0 R 345006 W 0 c 100 w 1 I 0 O 1648 L 4.15 4.16 4.30 @#@FSLOADPOST 2023:09:13:14:16:33 mris_ca_label N 11 4.13 4.16 4.30 #----------------------------------------- #@# Cortical Parc rh Wed Sep 13 14:16:33 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh ../surf/rh.sphere.reg /usr/local/freesurfer/7.4.1/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 972 labels changed using aseg relabeling using gibbs priors... 000: 2351 changed, 106948 examined... 001: 541 changed, 10280 examined... 002: 117 changed, 3079 examined... 003: 36 changed, 731 examined... 004: 14 changed, 209 examined... 005: 9 changed, 84 examined... 006: 7 changed, 46 examined... 007: 4 changed, 36 examined... 008: 3 changed, 21 examined... 009: 3 changed, 16 examined... 010: 1 changed, 14 examined... 011: 3 changed, 7 examined... 012: 1 changed, 18 examined... 013: 2 changed, 7 examined... 014: 3 changed, 13 examined... 015: 2 changed, 12 examined... 016: 1 changed, 12 examined... 017: 0 changed, 7 examined... 318 labels changed using aseg 000: 77 total segments, 38 labels (139 vertices) changed 001: 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... 1072 vertices marked for relabeling... 1072 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2023:09:13:14:16:33 mris_ca_label N 11 e 7.77 S 0.43 U 7.33 P 99% M 925216 F 0 R 285551 W 0 c 25 w 1 I 0 O 1680 L 4.13 4.16 4.30 @#@FSLOADPOST 2023:09:13:14:16:41 mris_ca_label N 11 4.12 4.15 4.30 #-------------------------------------------- #@# WhiteSurfs lh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 Update not needed #-------------------------------------------- #@# WhiteSurfs rh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 Update not needed #-------------------------------------------- #@# T1PialSurf lh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 Update not needed #-------------------------------------------- #@# T1PialSurf rh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 Update not needed #@# white curv lh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv Update not needed #@# white area lh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area Update not needed #@# pial curv lh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial Update not needed #@# pial area lh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial Update not needed #@# thickness lh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# area and vertex vol lh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# white curv rh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv Update not needed #@# white area rh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area Update not needed #@# pial curv rh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial Update not needed #@# pial area rh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial Update not needed #@# thickness rh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed #@# area and vertex vol rh Wed Sep 13 14:16:41 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed #----------------------------------------- #@# Curvature Stats lh Wed Sep 13 14:16:41 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm ED751_SAG_MPRAGE_p2_NON-SSc.nii lh curv sulc Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/lh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 [ 201 ] Gb_filter = 0 WARN: S lookup min: -0.002288 WARN: S explicit min: 0.000000 vertex = 199 @#@FSTIME 2023:09:13:14:16:41 mris_curvature_stats N 11 e 1.92 S 0.07 U 1.84 P 99% M 145276 F 0 R 39050 W 0 c 19 w 1 I 0 O 6632 L 4.12 4.15 4.30 @#@FSLOADPOST 2023:09:13:14:16:43 mris_curvature_stats N 11 4.11 4.15 4.30 #----------------------------------------- #@# Curvature Stats rh Wed Sep 13 14:16:43 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm ED751_SAG_MPRAGE_p2_NON-SSc.nii rh curv sulc Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/rh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 [ 188 ] Gb_filter = 0 WARN: S lookup min: -0.004290 WARN: S explicit min: 0.000000 vertex = 643 @#@FSTIME 2023:09:13:14:16:43 mris_curvature_stats N 11 e 2.47 S 0.07 U 2.39 P 99% M 148452 F 0 R 39373 W 0 c 16 w 1 I 0 O 6768 L 4.11 4.15 4.30 @#@FSLOADPOST 2023:09:13:14:16:46 mris_curvature_stats N 11 4.11 4.15 4.30 #-------------------------------------------- #@# Cortical ribbon mask Wed Sep 13 14:16:46 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii SUBJECTS_DIR is /media/mt/Expansion/Disk9/EDIS_751 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 = 31 writing volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/ribbon.mgz mris_volmask took 5.38 minutes writing ribbon files @#@FSTIME 2023:09:13:14:16:46 mris_volmask N 12 e 322.96 S 0.69 U 322.23 P 99% M 844340 F 0 R 470007 W 0 c 1575 w 1 I 0 O 720 L 4.11 4.15 4.30 @#@FSLOADPOST 2023:09:13:14:22:09 mris_volmask N 12 4.13 4.07 4.21 #----------------------------------------- #@# Cortical Parc 2 lh Wed Sep 13 14:22:09 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh ../surf/lh.sphere.reg /usr/local/freesurfer/7.4.1/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 152 labels changed using aseg relabeling using gibbs priors... 000: 7021 changed, 104549 examined... 001: 1595 changed, 27161 examined... 002: 451 changed, 8584 examined... 003: 207 changed, 2654 examined... 004: 98 changed, 1170 examined... 005: 37 changed, 565 examined... 006: 25 changed, 230 examined... 007: 16 changed, 155 examined... 008: 14 changed, 94 examined... 009: 4 changed, 86 examined... 010: 2 changed, 25 examined... 011: 1 changed, 14 examined... 012: 0 changed, 7 examined... 83 labels changed using aseg 000: 186 total segments, 101 labels (844 vertices) changed 001: 89 total segments, 5 labels (288 vertices) changed 002: 84 total segments, 1 labels (95 vertices) changed 003: 83 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... relabeling unknown label... 1033 vertices marked for relabeling... 1033 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 0 minutes and 10 seconds. @#@FSTIME 2023:09:13:14:22:09 mris_ca_label N 11 e 10.12 S 0.92 U 9.19 P 99% M 1336280 F 0 R 588369 W 0 c 86 w 1 I 0 O 1648 L 4.13 4.07 4.21 @#@FSLOADPOST 2023:09:13:14:22:19 mris_ca_label N 11 4.11 4.07 4.20 #----------------------------------------- #@# Cortical Parc 2 rh Wed Sep 13 14:22:19 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh ../surf/rh.sphere.reg /usr/local/freesurfer/7.4.1/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 417 labels changed using aseg relabeling using gibbs priors... 000: 7169 changed, 106948 examined... 001: 1515 changed, 28305 examined... 002: 438 changed, 8274 examined... 003: 185 changed, 2542 examined... 004: 90 changed, 1124 examined... 005: 48 changed, 516 examined... 006: 24 changed, 295 examined... 007: 9 changed, 134 examined... 008: 8 changed, 49 examined... 009: 7 changed, 48 examined... 010: 1 changed, 36 examined... 011: 1 changed, 7 examined... 012: 0 changed, 7 examined... 62 labels changed using aseg 000: 208 total segments, 121 labels (1435 vertices) changed 001: 88 total segments, 2 labels (9 vertices) changed 002: 86 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 25 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... relabeling unknown label... 804 vertices marked for relabeling... 804 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 0 minutes and 10 seconds. @#@FSTIME 2023:09:13:14:22:19 mris_ca_label N 11 e 10.27 S 0.88 U 9.37 P 99% M 1438820 F 0 R 547182 W 0 c 68 w 1 I 0 O 1680 L 4.11 4.07 4.20 @#@FSLOADPOST 2023:09:13:14:22:29 mris_ca_label N 11 4.09 4.07 4.20 #----------------------------------------- #@# Cortical Parc 3 lh Wed Sep 13 14:22:29 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh ../surf/lh.sphere.reg /usr/local/freesurfer/7.4.1/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 1208 labels changed using aseg relabeling using gibbs priors... 000: 1571 changed, 104549 examined... 001: 334 changed, 7445 examined... 002: 114 changed, 1960 examined... 003: 66 changed, 670 examined... 004: 39 changed, 380 examined... 005: 28 changed, 206 examined... 006: 20 changed, 139 examined... 007: 20 changed, 93 examined... 008: 12 changed, 101 examined... 009: 12 changed, 70 examined... 010: 12 changed, 68 examined... 011: 11 changed, 64 examined... 012: 11 changed, 69 examined... 013: 6 changed, 54 examined... 014: 5 changed, 39 examined... 015: 4 changed, 24 examined... 016: 3 changed, 22 examined... 017: 0 changed, 21 examined... 387 labels changed using aseg 000: 46 total segments, 12 labels (56 vertices) changed 001: 34 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 4 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 674 vertices marked for relabeling... 674 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas.annot... classification took 0 minutes and 7 seconds. @#@FSTIME 2023:09:13:14:22:29 mris_ca_label N 11 e 7.28 S 0.37 U 6.90 P 99% M 815368 F 0 R 258164 W 0 c 35 w 1 I 0 O 1640 L 4.09 4.07 4.20 @#@FSLOADPOST 2023:09:13:14:22:37 mris_ca_label N 11 4.08 4.07 4.20 #----------------------------------------- #@# Cortical Parc 3 rh Wed Sep 13 14:22:37 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh ../surf/rh.sphere.reg /usr/local/freesurfer/7.4.1/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 1380 labels changed using aseg relabeling using gibbs priors... 000: 1615 changed, 106948 examined... 001: 373 changed, 7592 examined... 002: 120 changed, 2155 examined... 003: 62 changed, 728 examined... 004: 41 changed, 333 examined... 005: 25 changed, 216 examined... 006: 18 changed, 145 examined... 007: 14 changed, 107 examined... 008: 17 changed, 77 examined... 009: 15 changed, 87 examined... 010: 15 changed, 81 examined... 011: 12 changed, 73 examined... 012: 11 changed, 66 examined... 013: 11 changed, 55 examined... 014: 11 changed, 61 examined... 015: 10 changed, 52 examined... 016: 12 changed, 49 examined... 017: 15 changed, 61 examined... 018: 12 changed, 64 examined... 019: 11 changed, 65 examined... 020: 9 changed, 49 examined... 021: 9 changed, 45 examined... 022: 5 changed, 47 examined... 023: 3 changed, 20 examined... 024: 4 changed, 14 examined... 025: 6 changed, 21 examined... 026: 4 changed, 30 examined... 027: 5 changed, 23 examined... 028: 2 changed, 22 examined... 029: 2 changed, 14 examined... 030: 2 changed, 12 examined... 031: 5 changed, 13 examined... 032: 4 changed, 21 examined... 033: 2 changed, 20 examined... 034: 3 changed, 9 examined... 035: 3 changed, 17 examined... 036: 2 changed, 18 examined... 037: 0 changed, 11 examined... 536 labels changed using aseg 000: 50 total segments, 17 labels (128 vertices) changed 001: 33 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... 449 vertices marked for relabeling... 449 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2023:09:13:14:22:37 mris_ca_label N 11 e 7.65 S 0.36 U 7.28 P 99% M 837028 F 0 R 257918 W 0 c 16 w 1 I 0 O 1704 L 4.08 4.07 4.20 @#@FSLOADPOST 2023:09:13:14:22:44 mris_ca_label N 11 4.07 4.06 4.20 #----------------------------------------- #@# WM/GM Contrast lh Wed Sep 13 14:22:44 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts pctsurfcon --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --lh-only Log file is /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts/pctsurfcon.log Wed Sep 13 14:22:44 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts /usr/local/freesurfer/7.4.1/bin/pctsurfcon pctsurfcon 7.4.1 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /usr/local/freesurfer/7.4.1 mri_vol2surf --mov /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1070947/lh.wm.mgh --regheader ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex srcvol = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99063 0.09237 0.10062 -0.00001; 0.10019 -0.00934 0.99492 0.00003; -0.09284 -0.99568 -0.00000 -0.00007; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Reading surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 60014 Masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1070947/lh.wm.mgh Dim: 104549 1 1 mri_vol2surf done mri_vol2surf --mov /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1070947/lh.gm.mgh --projfrac 0.3 --regheader ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex srcvol = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99063 0.09237 0.10062 -0.00001; 0.10019 -0.00934 0.99492 0.00003; -0.09284 -0.99568 -0.00000 -0.00007; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Reading surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Done reading source surface Reading thickness /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 69204 Masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1070947/lh.gm.mgh Dim: 104549 1 1 mri_vol2surf done mri_concat /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1070947/lh.wm.mgh /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1070947/lh.gm.mgh --paired-diff-norm --mul 100 --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.w-g.pct.mgh mri_segstats --in /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.w-g.pct.mgh --annot ED751_SAG_MPRAGE_p2_NON-SSc.nii lh aparc --sum /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/stats/lh.w-g.pct.stats --snr 7.4.1 cwd cmdline mri_segstats --in /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.w-g.pct.mgh --annot ED751_SAG_MPRAGE_p2_NON-SSc.nii lh aparc --sum /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/stats/lh.w-g.pct.stats --snr sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot Seg base 1000 MRISannot2seg(): nhits = 96663 Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.w-g.pct.mgh Vertex Area is 0.667121 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 2023:09:13:14:22:44 pctsurfcon N 3 e 2.70 S 0.27 U 2.42 P 99% M 250868 F 0 R 174248 W 0 c 64 w 67 I 0 O 3112 L 4.07 4.06 4.20 @#@FSLOADPOST 2023:09:13:14:22:47 pctsurfcon N 3 4.07 4.06 4.20 #----------------------------------------- #@# WM/GM Contrast rh Wed Sep 13 14:22:47 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts pctsurfcon --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --rh-only Log file is /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts/pctsurfcon.log Wed Sep 13 14:22:47 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts /usr/local/freesurfer/7.4.1/bin/pctsurfcon pctsurfcon 7.4.1 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /usr/local/freesurfer/7.4.1 mri_vol2surf --mov /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1071011/rh.wm.mgh --regheader ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex srcvol = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99063 0.09237 0.10062 -0.00001; 0.10019 -0.00934 0.99492 0.00003; -0.09284 -0.99568 -0.00000 -0.00007; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Reading surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 61194 Masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1071011/rh.wm.mgh Dim: 106948 1 1 mri_vol2surf done mri_vol2surf --mov /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1071011/rh.gm.mgh --projfrac 0.3 --regheader ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex srcvol = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99063 0.09237 0.10062 -0.00001; 0.10019 -0.00934 0.99492 0.00003; -0.09284 -0.99568 -0.00000 -0.00007; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Reading surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Done reading source surface Reading thickness /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 70868 Masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1071011/rh.gm.mgh Dim: 106948 1 1 mri_vol2surf done mri_concat /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1071011/rh.wm.mgh /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1071011/rh.gm.mgh --paired-diff-norm --mul 100 --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.w-g.pct.mgh mri_segstats --in /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.w-g.pct.mgh --annot ED751_SAG_MPRAGE_p2_NON-SSc.nii rh aparc --sum /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/stats/rh.w-g.pct.stats --snr 7.4.1 cwd cmdline mri_segstats --in /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.w-g.pct.mgh --annot ED751_SAG_MPRAGE_p2_NON-SSc.nii rh aparc --sum /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/stats/rh.w-g.pct.stats --snr sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.annot Seg base 2000 MRISannot2seg(): nhits = 98865 Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.w-g.pct.mgh Vertex Area is 0.661722 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 2023:09:13:14:22:47 pctsurfcon N 3 e 2.70 S 0.27 U 2.42 P 99% M 253448 F 0 R 176172 W 0 c 38 w 67 I 0 O 3136 L 4.07 4.06 4.20 @#@FSLOADPOST 2023:09:13:14:22:50 pctsurfcon N 3 4.06 4.06 4.19 #----------------------------------------- #@# Relabel Hypointensities Wed Sep 13 14:22:50 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz reading input surface ../surf/lh.white... relabeling lh hypointensities... 6523 voxels changed to hypointensity... reading input surface ../surf/rh.white... relabeling rh hypointensities... 1681 voxels changed to hypointensity... 8080 hypointense voxels neighboring cortex changed @#@FSTIME 2023:09:13:14:22:50 mri_relabel_hypointensities N 3 e 11.69 S 0.43 U 11.25 P 99% M 434276 F 0 R 316145 W 0 c 79 w 1 I 0 O 592 L 4.06 4.06 4.19 @#@FSLOADPOST 2023:09:13:14:23:02 mri_relabel_hypointensities N 3 4.05 4.06 4.19 #----------------------------------------- #@# APas-to-ASeg Wed Sep 13 14:23:02 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o aseg.mgz --i aseg.presurf.hypos.mgz --fix-presurf-with-ribbon /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/ribbon.mgz --threads 1 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol aseg.mgz 6 avail.processors, using 1 Loading aseg.presurf.hypos.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/ribbon.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 0 ndotcheck = 0 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 791320 mri_surf2volseg done @#@FSTIME 2023:09:13:14:23:02 mri_surf2volseg N 20 e 13.50 S 0.33 U 13.15 P 99% M 761588 F 0 R 205679 W 0 c 245 w 1 I 0 O 600 L 4.05 4.06 4.19 @#@FSLOADPOST 2023:09:13:14:23:15 mri_surf2volseg N 20 4.04 4.06 4.19 mri_brainvol_stats --subject ED751_SAG_MPRAGE_p2_NON-SSc.nii ComputeBrainVolumeStats2 VoxelVol=1, KeepCSF=1 #CBVS2 MaskVol 1259253.0 #CBVS2 BrainSegVol 874491.0 #CBVS2 BrainSegVolNotVent 831967.0 #CBVS2 SupraTentVol 776191.0 #CBVS2 SupraTentVolNotVent 733667.0 #CBVS2 lhCtxGM 171550.2 #CBVS2 rhCtxGM 170451.1 #CBVS2 lhCerebralWM 172784.5 #CBVS2 rhCerebralWM 172942.5 #CBVS2 SubCortGMVol 46646.0 #CBVS2 CerebellumVol 98300.0 #CBVS2 CerebellumGMVol 77862.0 #CBVS2 VentChorVol 38467.0 #CBVS2 3rd4th5thCSF 4057.0 #CBVS2 AllCSF 42524.0 #CBVS2 CCVol 3251.0 @#@FSTIME 2023:09:13:14:23:15 mri_brainvol_stats N 2 e 3.66 S 0.16 U 3.50 P 100% M 190972 F 0 R 99549 W 0 c 13 w 1 I 0 O 16 L 4.04 4.06 4.19 @#@FSLOADPOST 2023:09:13:14:23:19 mri_brainvol_stats N 2 4.04 4.06 4.19 #----------------------------------------- #@# AParc-to-ASeg aparc Wed Sep 13 14:23:19 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o aparc+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot 1000 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.annot 2000 --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol aparc+aseg.mgz 6 avail.processors, using 1 Loading aseg.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7886 vertices from lh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 8083 vertices from rh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 0 ndotcheck = 13624 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 774336 mri_surf2volseg done @#@FSTIME 2023:09:13:14:23:19 mri_surf2volseg N 25 e 79.20 S 0.32 U 78.87 P 99% M 744852 F 0 R 204224 W 0 c 173 w 1 I 0 O 704 L 4.04 4.06 4.19 @#@FSLOADPOST 2023:09:13:14:24:38 mri_surf2volseg N 25 4.12 4.07 4.18 #----------------------------------------- #@# AParc-to-ASeg aparc.a2009s Wed Sep 13 14:24:38 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o aparc.a2009s+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.a2009s.annot 11100 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.a2009s.annot 12100 --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol aparc.a2009s+aseg.mgz 6 avail.processors, using 1 Loading aseg.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7886 vertices from lh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.a2009s.annot Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 8083 vertices from rh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 0 ndotcheck = 13624 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 774460 mri_surf2volseg done @#@FSTIME 2023:09:13:14:24:38 mri_surf2volseg N 25 e 76.27 S 0.25 U 76.00 P 99% M 744928 F 0 R 201666 W 0 c 171 w 1 I 0 O 744 L 4.12 4.07 4.18 @#@FSLOADPOST 2023:09:13:14:25:54 mri_surf2volseg N 25 4.03 4.05 4.16 #----------------------------------------- #@# AParc-to-ASeg aparc.DKTatlas Wed Sep 13 14:25:54 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o aparc.DKTatlas+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.DKTatlas.annot 1000 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.DKTatlas.annot 2000 --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol aparc.DKTatlas+aseg.mgz 6 avail.processors, using 1 Loading aseg.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7886 vertices from lh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.DKTatlas.annot Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 8083 vertices from rh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 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/media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot 3000 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.annot 4000 --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol wmparc.mgz 6 avail.processors, using 1 Loading aparc+aseg.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7886 vertices from lh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 8083 vertices from rh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 0 ndotcheck = 3674 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 774336 mri_surf2volseg done @#@FSTIME 2023:09:13:14:27:13 mri_surf2volseg N 25 e 37.80 S 0.43 U 37.17 P 99% M 744728 F 0 R 204224 W 0 c 204 w 2 I 1 O 760 L 4.01 4.04 4.15 @#@FSLOADPOST 2023:09:13:14:27:51 mri_surf2volseg N 25 4.33 4.12 4.18 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 ED751_SAG_MPRAGE_p2_NON-SSc.nii --surf-wm-vol --ctab /usr/local/freesurfer/7.4.1/WMParcStatsLUT.txt --etiv setting seed for random number genererator to 1234 7.4.1 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 ED751_SAG_MPRAGE_p2_NON-SSc.nii --surf-wm-vol --ctab /usr/local/freesurfer/7.4.1/WMParcStatsLUT.txt --etiv sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1243302 mm^3 (det: 1.566880 ) 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 2023:09:13:14:27:51 mri_segstats N 24 e 335.73 S 0.79 U 334.86 P 99% M 239864 F 0 R 1206316 W 0 c 2202 w 1 I 0 O 48 L 4.33 4.12 4.18 @#@FSLOADPOST 2023:09:13:14:33:27 mri_segstats N 24 4.03 4.08 4.14 #----------------------------------------- #@# Parcellation Stats lh Wed Sep 13 14:33:27 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh white computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 981 651 1273 2.138 0.431 0.084 0.014 4 0.5 bankssts 684 560 1650 2.786 0.607 0.157 0.033 15 1.0 caudalanteriorcingulate 2961 1758 4834 2.546 0.507 0.095 0.019 22 2.3 caudalmiddlefrontal 2227 1573 3110 1.883 0.495 0.141 0.030 26 2.9 cuneus 367 326 1690 3.415 0.882 0.160 0.041 5 0.7 entorhinal 3342 2598 7363 2.522 0.656 0.154 0.041 49 5.6 fusiform 3973 2744 7136 2.343 0.620 0.122 0.026 40 4.0 inferiorparietal 3462 2539 8875 2.759 0.712 0.125 0.027 39 3.8 inferiortemporal 1405 933 2117 2.103 0.694 0.104 0.025 13 1.4 isthmuscingulate 5587 3923 9111 2.078 0.586 0.142 0.034 67 7.8 lateraloccipital 2465 1891 5514 2.666 0.638 0.152 0.037 35 4.4 lateralorbitofrontal 3399 2511 5282 1.898 0.567 0.147 0.035 46 5.0 lingual 1976 1553 4577 2.764 0.859 0.165 0.044 41 3.8 medialorbitofrontal 3322 2299 6859 2.558 0.737 0.122 0.025 36 3.4 middletemporal 877 562 1914 2.773 0.928 0.096 0.023 6 0.7 parahippocampal 1594 969 2751 2.491 0.547 0.098 0.018 10 1.3 paracentral 1881 1188 2890 2.242 0.501 0.092 0.019 15 1.3 parsopercularis 621 451 1485 2.566 0.653 0.145 0.042 9 0.9 parsorbitalis 1666 1007 2441 2.236 0.558 0.115 0.028 16 1.7 parstriangularis 1983 1326 2161 1.732 0.464 0.127 0.029 22 2.5 pericalcarine 5949 3560 7506 1.923 0.669 0.102 0.020 46 5.1 postcentral 1227 891 2203 2.266 0.675 0.135 0.029 16 1.7 posteriorcingulate 6748 3894 10329 2.515 0.573 0.094 0.022 46 5.9 precentral 4362 3128 7836 2.214 0.627 0.126 0.029 47 5.2 precuneus 776 598 1782 2.859 1.102 0.169 0.044 16 1.9 rostralanteriorcingulate 6500 4240 9273 2.095 0.542 0.126 0.030 71 8.0 rostralmiddlefrontal 7512 4844 14839 2.695 0.612 0.107 0.022 61 6.6 superiorfrontal 6454 4236 9736 2.132 0.556 0.122 0.029 68 7.2 superiorparietal 4793 3093 9132 2.571 0.632 0.102 0.020 41 3.7 superiortemporal 3602 2330 6415 2.491 0.587 0.113 0.023 35 3.3 supramarginal 293 253 978 2.998 0.419 0.181 0.041 6 0.5 frontalpole 447 465 2517 3.488 1.010 0.206 0.066 10 1.5 temporalpole 571 346 749 2.036 0.395 0.119 0.029 6 0.6 transversetemporal 2656 1731 5152 2.854 0.862 0.128 0.040 29 4.5 insula @#@FSTIME 2023:09:13:14:33:27 mris_anatomical_stats N 14 e 6.76 S 0.13 U 6.62 P 99% M 376240 F 0 R 110304 W 0 c 37 w 1 I 0 O 32 L 4.03 4.08 4.14 @#@FSLOADPOST 2023:09:13:14:33:34 mris_anatomical_stats N 14 4.02 4.08 4.14 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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh pial computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 981 574 1273 2.138 0.431 0.098 0.027 16 0.9 bankssts 684 723 1650 2.786 0.607 0.194 0.063 307 1.2 caudalanteriorcingulate 2961 2040 4834 2.546 0.507 0.102 0.020 31 2.2 caudalmiddlefrontal 2227 1846 3110 1.883 0.495 0.132 0.029 37 2.5 cuneus 367 695 1690 3.415 0.882 0.340 0.101 10 1.7 entorhinal 3342 3234 7363 2.522 0.656 0.171 0.046 79 6.3 fusiform 3973 3165 7136 2.343 0.620 0.137 0.031 405 5.2 inferiorparietal 3462 3604 8875 2.759 0.712 0.155 0.035 53 5.1 inferiortemporal 1405 1134 2117 2.103 0.694 0.166 0.055 90 2.9 isthmuscingulate 5587 4813 9111 2.078 0.586 0.140 0.033 105 7.7 lateraloccipital 2465 2242 5514 2.666 0.638 0.164 0.043 43 4.1 lateralorbitofrontal 3399 3137 5282 1.898 0.567 0.157 0.046 94 5.9 lingual 1976 1819 4577 2.764 0.859 0.171 0.045 47 3.7 medialorbitofrontal 3322 2980 6859 2.558 0.737 0.140 0.031 78 4.1 middletemporal 877 840 1914 2.773 0.928 0.184 0.057 15 2.4 parahippocampal 1594 1228 2751 2.491 0.547 0.111 0.023 27 1.6 paracentral 1881 1416 2890 2.242 0.501 0.109 0.019 15 1.5 parsopercularis 621 705 1485 2.566 0.653 0.180 0.031 6 0.9 parsorbitalis 1666 1230 2441 2.236 0.558 0.122 0.025 20 1.5 parstriangularis 1983 1244 2161 1.732 0.464 0.113 0.028 44 2.2 pericalcarine 5949 4377 7506 1.923 0.669 0.112 0.021 85 5.2 postcentral 1227 1073 2203 2.266 0.675 0.174 0.051 52 2.5 posteriorcingulate 6748 4322 10329 2.515 0.573 0.094 0.018 59 5.0 precentral 4362 3712 7836 2.214 0.627 0.149 0.035 61 6.3 precuneus 776 712 1782 2.859 1.102 0.223 0.073 90 2.0 rostralanteriorcingulate 6500 4626 9273 2.095 0.542 0.132 0.031 87 8.0 rostralmiddlefrontal 7512 5974 14839 2.695 0.612 0.121 0.024 74 7.3 superiorfrontal 6454 4890 9736 2.132 0.556 0.132 0.041 146 7.6 superiorparietal 4793 3809 9132 2.571 0.632 0.119 0.024 66 4.9 superiortemporal 3602 2764 6415 2.491 0.587 0.119 0.024 43 3.4 supramarginal 293 418 978 2.998 0.419 0.250 0.039 5 0.5 frontalpole 447 941 2517 3.488 1.010 0.348 0.063 9 1.7 temporalpole 571 427 749 2.036 0.395 0.106 0.021 4 0.4 transversetemporal 2656 1710 5152 2.854 0.862 0.150 0.052 81 5.1 insula @#@FSTIME 2023:09:13:14:33:34 mris_anatomical_stats N 14 e 7.08 S 0.15 U 6.92 P 99% M 376104 F 0 R 110298 W 0 c 62 w 1 I 0 O 24 L 4.02 4.08 4.14 @#@FSLOADPOST 2023:09:13:14:33:41 mris_anatomical_stats N 14 4.02 4.08 4.14 #----------------------------------------- #@# Parcellation Stats rh Wed Sep 13 14:33:41 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh white computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 1208 783 1836 2.580 0.369 0.091 0.015 5 0.8 bankssts 597 401 1009 2.355 0.535 0.150 0.032 13 0.6 caudalanteriorcingulate 2989 1817 4784 2.399 0.514 0.101 0.021 24 2.4 caudalmiddlefrontal 2233 1528 3000 1.854 0.427 0.135 0.030 25 2.9 cuneus 376 286 1362 3.115 1.020 0.140 0.044 4 0.8 entorhinal 3247 2372 7484 2.637 0.651 0.137 0.032 39 4.6 fusiform 5240 3582 8686 2.216 0.595 0.126 0.027 56 5.8 inferiorparietal 3561 2712 8986 2.628 0.745 0.135 0.031 45 4.6 inferiortemporal 1152 784 1985 2.396 0.770 0.128 0.031 16 1.3 isthmuscingulate 5724 3912 8605 2.010 0.583 0.136 0.031 66 7.4 lateraloccipital 2632 1921 5358 2.497 0.652 0.150 0.042 38 4.8 lateralorbitofrontal 3700 2802 5547 1.911 0.515 0.156 0.039 51 6.4 lingual 1862 1384 4433 2.746 0.803 0.129 0.034 21 2.6 medialorbitofrontal 4074 2719 8051 2.548 0.690 0.110 0.023 37 3.6 middletemporal 876 549 1656 2.550 0.958 0.097 0.024 7 0.7 parahippocampal 1924 1171 2918 2.342 0.625 0.098 0.019 13 1.6 paracentral 1542 1000 2644 2.413 0.494 0.103 0.023 12 1.4 parsopercularis 846 576 1927 2.617 0.494 0.135 0.037 12 1.1 parsorbitalis 1756 1131 2524 2.087 0.528 0.119 0.029 17 1.9 parstriangularis 2152 1464 2227 1.639 0.409 0.126 0.024 25 2.2 pericalcarine 4947 3094 6098 1.855 0.613 0.102 0.019 36 4.1 postcentral 1111 844 2237 2.548 0.612 0.154 0.035 16 1.7 posteriorcingulate 6560 3927 9807 2.420 0.540 0.095 0.019 41 5.2 precentral 4699 3113 7616 2.233 0.632 0.111 0.022 43 4.1 precuneus 454 336 1073 2.678 0.667 0.141 0.028 8 0.6 rostralanteriorcingulate 5999 3936 8995 2.129 0.562 0.127 0.031 70 7.9 rostralmiddlefrontal 8314 5366 16236 2.641 0.580 0.112 0.024 76 8.1 superiorfrontal 6717 4265 9197 2.005 0.585 0.119 0.026 67 7.2 superiorparietal 4759 2929 8519 2.569 0.673 0.091 0.018 31 3.5 superiortemporal 3786 2448 6154 2.369 0.559 0.112 0.026 35 4.0 supramarginal 352 263 928 2.753 0.444 0.168 0.035 8 0.5 frontalpole 432 421 2655 3.497 0.949 0.185 0.065 10 1.1 temporalpole 438 251 665 2.439 0.418 0.106 0.028 3 0.4 transversetemporal 2606 1739 5039 2.882 0.740 0.117 0.031 23 3.2 insula @#@FSTIME 2023:09:13:14:33:41 mris_anatomical_stats N 14 e 6.69 S 0.16 U 6.52 P 100% M 384060 F 0 R 104863 W 0 c 22 w 1 I 0 O 24 L 4.02 4.08 4.14 @#@FSLOADPOST 2023:09:13:14:33:48 mris_anatomical_stats N 14 4.02 4.08 4.14 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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh pial computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 1208 647 1836 2.580 0.369 0.089 0.021 12 1.0 bankssts 597 486 1009 2.355 0.535 0.128 0.024 6 0.6 caudalanteriorcingulate 2989 2099 4784 2.399 0.514 0.108 0.019 25 2.5 caudalmiddlefrontal 2233 1844 3000 1.854 0.427 0.131 0.029 29 2.6 cuneus 376 556 1362 3.115 1.020 0.253 0.065 8 1.3 entorhinal 3247 3103 7484 2.637 0.651 0.164 0.043 73 5.8 fusiform 5240 4216 8686 2.216 0.595 0.138 0.032 81 6.7 inferiorparietal 3561 3793 8986 2.628 0.745 0.168 0.042 70 5.5 inferiortemporal 1152 897 1985 2.396 0.770 0.162 0.056 47 2.3 isthmuscingulate 5724 4671 8605 2.010 0.583 0.137 0.031 87 7.6 lateraloccipital 2632 2304 5358 2.497 0.652 0.173 0.049 54 5.5 lateralorbitofrontal 3700 3262 5547 1.911 0.515 0.158 0.040 69 5.9 lingual 1862 1923 4433 2.746 0.803 0.193 0.050 50 4.1 medialorbitofrontal 4074 3475 8051 2.548 0.690 0.133 0.029 57 4.6 middletemporal 876 741 1656 2.550 0.958 0.142 0.037 10 1.4 parahippocampal 1924 1323 2918 2.342 0.625 0.104 0.021 21 1.7 paracentral 1542 1206 2644 2.413 0.494 0.115 0.022 17 1.4 parsopercularis 846 901 1927 2.617 0.494 0.169 0.033 11 1.2 parsorbitalis 1756 1357 2524 2.087 0.528 0.126 0.030 19 1.8 parstriangularis 2152 1384 2227 1.639 0.409 0.120 0.026 33 2.3 pericalcarine 4947 3644 6098 1.855 0.613 0.106 0.019 34 3.7 postcentral 1111 966 2237 2.548 0.612 0.162 0.050 31 1.9 posteriorcingulate 6560 4283 9807 2.420 0.540 0.096 0.018 63 4.8 precentral 4699 3552 7616 2.233 0.632 0.130 0.030 74 5.4 precuneus 454 463 1073 2.678 0.667 0.167 0.039 9 0.7 rostralanteriorcingulate 5999 4534 8995 2.129 0.562 0.136 0.031 87 7.6 rostralmiddlefrontal 8314 6734 16236 2.641 0.580 0.126 0.027 91 8.4 superiorfrontal 6717 4964 9197 2.005 0.585 0.123 0.026 138 6.8 superiorparietal 4759 3690 8519 2.569 0.673 0.119 0.028 85 5.7 superiortemporal 3786 2765 6154 2.369 0.559 0.122 0.028 71 4.2 supramarginal 352 431 928 2.753 0.444 0.181 0.026 3 0.4 frontalpole 432 1023 2655 3.497 0.949 0.355 0.061 7 1.4 temporalpole 438 305 665 2.439 0.418 0.093 0.024 2 0.4 transversetemporal 2606 1682 5039 2.882 0.740 0.129 0.041 47 3.9 insula @#@FSTIME 2023:09:13:14:33:48 mris_anatomical_stats N 14 e 6.68 S 0.16 U 6.51 P 99% M 384064 F 0 R 104861 W 0 c 30 w 1 I 0 O 24 L 4.02 4.08 4.14 @#@FSLOADPOST 2023:09:13:14:33:54 mris_anatomical_stats N 14 4.02 4.07 4.14 #----------------------------------------- #@# Parcellation Stats 2 lh Wed Sep 13 14:33:54 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh white computing statistics for each annotation in ../label/lh.aparc.a2009s.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 896 689 1786 2.356 0.659 0.156 0.038 11 1.5 G_and_S_frontomargin 1131 812 2049 2.222 0.573 0.146 0.039 14 1.7 G_and_S_occipital_inf 1283 753 2429 2.516 0.619 0.097 0.021 8 1.1 G_and_S_paracentral 1190 746 2330 2.692 0.649 0.114 0.027 12 1.3 G_and_S_subcentral 582 447 1499 2.760 0.538 0.160 0.043 11 1.0 G_and_S_transv_frontopol 1507 1141 3187 2.818 0.828 0.144 0.031 22 2.5 G_and_S_cingul-Ant 991 740 1844 2.508 0.485 0.124 0.024 14 1.0 G_and_S_cingul-Mid-Ant 999 698 1654 2.328 0.547 0.135 0.025 11 1.1 G_and_S_cingul-Mid-Post 495 358 1243 2.648 0.622 0.138 0.034 7 0.6 G_cingul-Post-dorsal 338 236 646 2.329 0.788 0.117 0.029 3 0.5 G_cingul-Post-ventral 1966 1412 2965 1.861 0.532 0.153 0.036 29 2.9 G_cuneus 905 565 1700 2.396 0.447 0.110 0.024 11 0.8 G_front_inf-Opercular 354 223 783 2.594 0.501 0.118 0.030 4 0.4 G_front_inf-Orbital 1105 607 1747 2.372 0.538 0.117 0.032 13 1.3 G_front_inf-Triangul 3422 1971 5597 2.349 0.625 0.116 0.029 41 4.1 G_front_middle 4932 3161 11534 2.885 0.581 0.115 0.026 52 5.1 G_front_sup 536 344 1077 3.008 0.725 0.140 0.057 8 1.4 G_Ins_lg_and_S_cent_ins 517 337 1857 3.689 0.819 0.129 0.039 6 0.8 G_insular_short 1267 880 3039 2.550 0.590 0.147 0.030 18 1.5 G_occipital_middle 1199 831 2142 2.279 0.554 0.138 0.037 15 1.6 G_occipital_sup 1385 1143 3711 2.636 0.657 0.165 0.045 26 2.5 G_oc-temp_lat-fusifor 2362 1828 4145 1.892 0.610 0.159 0.039 39 4.0 G_oc-temp_med-Lingual 1027 745 3120 3.031 0.919 0.137 0.041 14 1.7 G_oc-temp_med-Parahip 1565 1282 4443 2.800 0.590 0.179 0.051 32 3.7 G_orbital 1550 1100 3836 2.613 0.658 0.134 0.033 25 1.8 G_pariet_inf-Angular 1590 1022 3434 2.697 0.515 0.119 0.028 19 1.5 G_pariet_inf-Supramar 2525 1667 4351 2.155 0.593 0.131 0.035 34 3.4 G_parietal_sup 2535 1403 3044 1.904 0.528 0.114 0.024 26 2.5 G_postcentral 2594 1235 4470 2.743 0.525 0.086 0.023 23 2.2 G_precentral 1855 1413 4722 2.505 0.662 0.134 0.032 27 2.3 G_precuneus 564 496 1830 2.832 0.686 0.173 0.044 17 1.1 G_rectus 628 418 811 2.187 0.910 0.176 0.076 13 2.0 G_subcallosal 543 333 856 2.186 0.458 0.142 0.034 8 0.7 G_temp_sup-G_T_transv 1735 1093 4480 2.975 0.572 0.122 0.029 25 1.8 G_temp_sup-Lateral 495 365 1507 3.148 0.789 0.084 0.019 2 0.4 G_temp_sup-Plan_polar 649 414 1157 2.454 0.476 0.089 0.017 5 0.4 G_temp_sup-Plan_tempo 1749 1273 5022 2.920 0.688 0.131 0.032 24 2.1 G_temporal_inf 1626 1136 4247 2.728 0.856 0.133 0.031 21 1.9 G_temporal_middle 248 168 294 1.810 0.409 0.125 0.022 2 0.2 Lat_Fis-ant-Horizont 239 172 296 1.827 0.413 0.093 0.009 1 0.1 Lat_Fis-ant-Vertical 828 527 875 2.074 0.403 0.108 0.020 5 0.8 Lat_Fis-post 1622 1159 2512 1.874 0.573 0.144 0.036 18 2.6 Pole_occipital 1029 1043 5044 3.039 0.995 0.198 0.056 24 2.7 Pole_temporal 2396 1592 2518 1.722 0.452 0.119 0.026 22 2.7 S_calcarine 3187 2051 3423 1.881 0.671 0.091 0.017 14 2.4 S_central 860 579 1084 2.113 0.454 0.093 0.015 4 0.6 S_cingul-Marginalis 339 221 587 3.038 0.788 0.099 0.023 2 0.3 S_circular_insula_ant 1385 884 1742 2.387 0.656 0.097 0.021 9 1.2 S_circular_insula_inf 1298 845 1680 2.378 0.433 0.099 0.021 6 1.1 S_circular_insula_sup 632 466 1308 2.691 0.693 0.134 0.034 7 0.8 S_collat_transv_ant 452 313 594 1.911 0.484 0.135 0.035 4 0.6 S_collat_transv_post 2042 1308 2266 1.944 0.451 0.091 0.015 10 1.3 S_front_inf 1254 836 1664 2.011 0.513 0.127 0.028 13 1.4 S_front_middle 2518 1638 3693 2.363 0.512 0.099 0.019 15 1.9 S_front_sup 190 137 273 2.332 0.474 0.127 0.016 1 0.2 S_interm_prim-Jensen 2133 1404 2619 2.146 0.518 0.116 0.023 15 2.1 S_intrapariet_and_P_trans 670 482 972 2.037 0.521 0.148 0.030 9 0.9 S_oc_middle_and_Lunatus 1150 750 1391 1.986 0.354 0.109 0.020 8 1.0 S_oc_sup_and_transversal 540 370 653 2.082 0.409 0.124 0.022 4 0.5 S_occipital_ant 915 629 1226 2.290 0.443 0.117 0.024 6 1.0 S_oc-temp_lat 1579 1045 1961 2.217 0.590 0.115 0.023 10 1.5 S_oc-temp_med_and_Lingual 196 142 256 2.234 0.490 0.122 0.036 1 0.2 S_orbital_lateral 434 318 817 2.714 0.585 0.138 0.024 4 0.5 S_orbital_med-olfact 909 667 1455 2.245 0.541 0.141 0.029 10 1.2 S_orbital-H_Shaped 2121 1447 2670 1.942 0.459 0.117 0.025 17 2.2 S_parieto_occipital 994 608 984 2.047 0.830 0.117 0.029 15 1.3 S_pericallosal 2321 1456 2688 2.036 0.582 0.095 0.018 13 1.8 S_postcentral 1265 840 1817 2.328 0.477 0.097 0.019 6 1.0 S_precentral-inf-part 1267 807 1771 2.515 0.501 0.089 0.014 5 0.9 S_precentral-sup-part 444 332 858 2.793 1.035 0.143 0.024 5 0.6 S_suborbital 818 572 1140 2.140 0.622 0.120 0.026 5 0.8 S_subparietal 1213 844 1951 2.489 0.559 0.121 0.020 10 1.1 S_temporal_inf 4308 2808 5789 2.249 0.538 0.090 0.015 21 2.6 S_temporal_sup 275 193 315 1.974 0.296 0.131 0.022 3 0.2 S_temporal_transverse @#@FSTIME 2023:09:13:14:33:54 mris_anatomical_stats N 14 e 7.39 S 0.17 U 7.22 P 99% M 376116 F 0 R 105324 W 0 c 58 w 1 I 0 O 48 L 4.02 4.07 4.14 @#@FSLOADPOST 2023:09:13:14:34:02 mris_anatomical_stats N 14 4.09 4.09 4.14 #----------------------------------------- #@# Parcellation Stats 2 rh Wed Sep 13 14:34:02 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh white computing statistics for each annotation in ../label/rh.aparc.a2009s.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 615 502 1358 2.570 0.585 0.187 0.045 14 1.3 G_and_S_frontomargin 908 632 1930 2.503 0.726 0.130 0.030 11 1.0 G_and_S_occipital_inf 1272 747 1886 2.153 0.638 0.106 0.024 10 1.3 G_and_S_paracentral 1091 703 1900 2.486 0.540 0.119 0.023 10 1.0 G_and_S_subcentral 760 573 1618 2.355 0.573 0.157 0.034 12 1.1 G_and_S_transv_frontopol 1997 1396 3879 2.594 0.599 0.117 0.024 18 2.0 G_and_S_cingul-Ant 1134 744 1715 2.287 0.479 0.112 0.020 9 1.0 G_and_S_cingul-Mid-Ant 1147 792 1858 2.402 0.459 0.120 0.021 10 1.1 G_and_S_cingul-Mid-Post 423 316 1163 3.056 0.711 0.168 0.040 8 0.7 G_cingul-Post-dorsal 308 225 786 2.714 0.798 0.128 0.023 4 0.3 G_cingul-Post-ventral 2092 1421 2834 1.811 0.449 0.141 0.031 27 2.8 G_cuneus 1040 650 2228 2.635 0.394 0.106 0.026 11 1.0 G_front_inf-Opercular 287 182 611 2.517 0.526 0.121 0.034 3 0.3 G_front_inf-Orbital 907 558 1452 2.140 0.522 0.129 0.035 11 1.3 G_front_inf-Triangul 3010 1721 5181 2.418 0.581 0.120 0.032 40 3.7 G_front_middle 5405 3358 12112 2.855 0.566 0.116 0.027 58 5.7 G_front_sup 467 313 1165 3.413 0.652 0.102 0.026 4 0.4 G_Ins_lg_and_S_cent_ins 507 348 1485 3.244 0.796 0.139 0.042 7 0.8 G_insular_short 1563 1082 3289 2.437 0.570 0.128 0.030 19 1.7 G_occipital_middle 1342 899 1992 1.964 0.531 0.136 0.030 17 1.8 G_occipital_sup 1506 1061 3970 2.779 0.534 0.141 0.033 21 2.0 G_oc-temp_lat-fusifor 2285 1791 3989 1.975 0.549 0.173 0.045 39 4.4 G_oc-temp_med-Lingual 993 690 3051 3.003 1.025 0.129 0.041 12 1.6 G_oc-temp_med-Parahip 1884 1407 5115 2.776 0.605 0.160 0.048 36 3.6 G_orbital 2203 1498 4388 2.375 0.612 0.140 0.036 34 3.0 G_pariet_inf-Angular 1610 1033 3054 2.485 0.562 0.115 0.026 16 1.8 G_pariet_inf-Supramar 2255 1402 3878 2.223 0.627 0.127 0.032 28 2.9 G_parietal_sup 1698 1006 2262 1.871 0.569 0.109 0.020 16 1.5 G_postcentral 2332 1225 4075 2.604 0.472 0.089 0.021 18 1.9 G_precentral 1848 1241 3948 2.490 0.680 0.119 0.026 23 1.9 G_precuneus 549 460 1745 2.949 0.733 0.150 0.042 11 1.2 G_rectus 328 203 500 2.261 0.875 0.120 0.050 4 0.6 G_subcallosal 387 210 582 2.359 0.344 0.106 0.030 3 0.4 G_temp_sup-G_T_transv 1584 912 3606 2.872 0.695 0.105 0.023 16 1.5 G_temp_sup-Lateral 687 463 1660 3.061 0.801 0.105 0.031 5 1.0 G_temp_sup-Plan_polar 745 464 1176 2.253 0.618 0.095 0.021 5 0.6 G_temp_sup-Plan_tempo 2176 1702 6351 2.709 0.818 0.142 0.036 32 3.2 G_temporal_inf 2153 1365 4839 2.694 0.690 0.111 0.028 23 2.1 G_temporal_middle 221 144 291 2.337 0.419 0.099 0.015 1 0.1 Lat_Fis-ant-Horizont 206 143 203 1.541 0.387 0.104 0.012 1 0.1 Lat_Fis-ant-Vertical 1210 767 1501 2.362 0.512 0.098 0.020 5 1.0 Lat_Fis-post 2944 2091 3656 1.692 0.411 0.156 0.037 44 4.8 Pole_occipital 1195 1133 5694 3.127 0.902 0.180 0.052 28 2.6 Pole_temporal 2305 1582 2462 1.711 0.415 0.119 0.025 20 2.5 S_calcarine 2935 1916 3222 1.943 0.671 0.091 0.016 13 2.2 S_central 1144 766 1442 2.063 0.403 0.103 0.017 7 0.9 S_cingul-Marginalis 445 295 605 2.529 0.506 0.111 0.022 2 0.4 S_circular_insula_ant 1223 789 1732 2.563 0.625 0.082 0.019 6 0.9 S_circular_insula_inf 991 652 1310 2.381 0.432 0.097 0.019 4 0.8 S_circular_insula_sup 657 482 1114 2.456 0.569 0.116 0.023 5 0.7 S_collat_transv_ant 213 146 235 2.138 0.309 0.133 0.022 2 0.2 S_collat_transv_post 1873 1214 2084 1.852 0.480 0.107 0.022 12 1.8 S_front_inf 1603 1054 2200 2.087 0.455 0.114 0.025 13 1.6 S_front_middle 2197 1460 3242 2.271 0.453 0.095 0.018 12 1.8 S_front_sup 216 150 251 2.258 0.609 0.128 0.023 2 0.2 S_interm_prim-Jensen 2528 1655 2876 1.894 0.474 0.117 0.024 21 2.5 S_intrapariet_and_P_trans 696 466 711 1.692 0.369 0.123 0.020 6 0.7 S_oc_middle_and_Lunatus 1120 723 1237 1.916 0.424 0.107 0.019 7 0.9 S_oc_sup_and_transversal 802 512 841 2.028 0.413 0.110 0.020 5 0.7 S_occipital_ant 905 632 1233 2.343 0.425 0.118 0.023 7 0.8 S_oc-temp_lat 1376 925 1781 2.281 0.526 0.099 0.018 6 1.1 S_oc-temp_med_and_Lingual 354 248 460 2.037 0.478 0.131 0.025 3 0.4 S_orbital_lateral 461 370 795 2.138 0.551 0.144 0.038 4 0.6 S_orbital_med-olfact 867 604 1379 2.242 0.586 0.113 0.023 7 0.8 S_orbital-H_Shaped 2484 1610 2878 1.949 0.462 0.108 0.021 17 2.2 S_parieto_occipital 733 484 832 2.311 0.587 0.163 0.050 20 1.1 S_pericallosal 1952 1241 2160 1.954 0.531 0.099 0.018 12 1.4 S_postcentral 1380 897 1709 2.112 0.485 0.105 0.018 8 1.1 S_precentral-inf-part 1263 807 1635 2.401 0.446 0.089 0.016 5 0.9 S_precentral-sup-part 247 167 485 2.863 0.830 0.122 0.017 2 0.2 S_suborbital 736 506 1273 2.346 0.749 0.118 0.022 7 0.7 S_subparietal 1059 711 1352 2.251 0.569 0.119 0.017 8 0.9 S_temporal_inf 4632 3051 6462 2.297 0.528 0.094 0.016 23 3.2 S_temporal_sup 194 136 271 2.090 0.309 0.134 0.020 2 0.2 S_temporal_transverse @#@FSTIME 2023:09:13:14:34:02 mris_anatomical_stats N 14 e 7.97 S 0.16 U 7.80 P 99% M 384056 F 0 R 104860 W 0 c 97 w 1 I 0 O 56 L 4.09 4.09 4.14 @#@FSLOADPOST 2023:09:13:14:34:10 mris_anatomical_stats N 14 4.08 4.09 4.14 #----------------------------------------- #@# Parcellation Stats 3 lh Wed Sep 13 14:34:10 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh white computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 1024 770 2044 2.677 0.547 0.143 0.028 18 1.2 caudalanteriorcingulate 3157 1879 5093 2.526 0.509 0.094 0.019 23 2.4 caudalmiddlefrontal 3001 2120 4293 1.926 0.498 0.142 0.032 36 3.9 cuneus 363 314 1524 3.271 0.930 0.166 0.044 5 0.7 entorhinal 3012 2324 6407 2.515 0.641 0.152 0.039 42 4.8 fusiform 4020 2774 7425 2.381 0.627 0.125 0.027 44 4.2 inferiorparietal 3528 2598 9101 2.742 0.727 0.127 0.029 41 4.2 inferiortemporal 1411 937 2148 2.115 0.696 0.104 0.026 13 1.5 isthmuscingulate 5661 3959 9124 2.080 0.576 0.143 0.034 67 8.0 lateraloccipital 2763 2183 6410 2.662 0.636 0.168 0.045 47 5.8 lateralorbitofrontal 3492 2579 5403 1.889 0.566 0.146 0.035 48 5.0 lingual 1505 1202 3605 2.751 0.824 0.168 0.042 32 2.7 medialorbitofrontal 4372 3041 8763 2.490 0.721 0.117 0.024 43 4.2 middletemporal 913 589 2004 2.783 0.936 0.096 0.023 6 0.8 parahippocampal 1933 1196 3408 2.489 0.566 0.098 0.018 12 1.5 paracentral 1641 1046 2540 2.278 0.459 0.099 0.021 14 1.2 parsopercularis 744 508 1373 2.327 0.662 0.120 0.027 6 0.9 parsorbitalis 2075 1259 2918 2.186 0.575 0.110 0.027 19 2.0 parstriangularis 1937 1291 2093 1.731 0.462 0.126 0.029 21 2.5 pericalcarine 6550 3958 8291 1.940 0.667 0.103 0.020 50 5.7 postcentral 1331 952 2278 2.250 0.653 0.138 0.030 18 1.8 posteriorcingulate 6687 3852 10184 2.515 0.571 0.094 0.022 45 6.0 precentral 4196 3016 7738 2.223 0.639 0.127 0.029 47 4.9 precuneus 1030 780 2274 2.870 1.086 0.168 0.047 21 2.6 rostralanteriorcingulate 4822 3067 6871 2.068 0.554 0.123 0.030 52 5.8 rostralmiddlefrontal 8344 5514 16767 2.663 0.628 0.113 0.024 77 8.1 superiorfrontal 5038 3281 7661 2.149 0.559 0.118 0.028 51 5.6 superiorparietal 5947 4024 12635 2.607 0.710 0.110 0.024 57 5.7 superiortemporal 3336 2161 5785 2.474 0.582 0.113 0.023 31 3.0 supramarginal 563 341 743 2.037 0.400 0.121 0.030 6 0.6 transversetemporal 2267 1455 4579 2.947 0.870 0.117 0.034 21 3.2 insula @#@FSTIME 2023:09:13:14:34:10 mris_anatomical_stats N 14 e 6.75 S 0.17 U 6.57 P 99% M 375996 F 0 R 105324 W 0 c 38 w 1 I 0 O 24 L 4.08 4.09 4.14 @#@FSLOADPOST 2023:09:13:14:34:16 mris_anatomical_stats N 14 4.07 4.08 4.14 #----------------------------------------- #@# Parcellation Stats 3 rh Wed Sep 13 14:34:16 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh white computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 671 441 1103 2.356 0.526 0.147 0.031 14 0.6 caudalanteriorcingulate 3068 1872 4864 2.395 0.514 0.102 0.021 24 2.5 caudalmiddlefrontal 2812 1907 3753 1.897 0.473 0.137 0.030 32 3.7 cuneus 365 270 1251 3.072 1.013 0.139 0.044 4 0.8 entorhinal 2947 2113 6259 2.621 0.570 0.135 0.030 34 3.8 fusiform 5311 3633 8650 2.199 0.587 0.127 0.027 57 5.9 inferiorparietal 3786 2928 10089 2.633 0.798 0.135 0.032 50 5.2 inferiortemporal 1144 772 1922 2.369 0.765 0.126 0.029 15 1.3 isthmuscingulate 5832 3969 8758 2.011 0.585 0.136 0.031 68 7.5 lateraloccipital 2731 2039 6017 2.586 0.660 0.156 0.042 43 4.9 lateralorbitofrontal 3617 2747 5454 1.922 0.515 0.156 0.040 50 6.3 lingual 1512 1132 3616 2.738 0.778 0.141 0.039 22 2.5 medialorbitofrontal 4932 3277 9491 2.540 0.655 0.108 0.022 42 4.3 middletemporal 917 581 1748 2.543 0.970 0.097 0.024 7 0.7 parahippocampal 2052 1242 3255 2.382 0.644 0.099 0.019 14 1.7 paracentral 1797 1144 2919 2.340 0.536 0.106 0.024 15 1.7 parsopercularis 773 526 1509 2.447 0.496 0.119 0.032 8 1.0 parsorbitalis 1785 1158 2578 2.096 0.514 0.123 0.029 18 2.1 parstriangularis 2101 1424 2166 1.641 0.411 0.125 0.024 24 2.1 pericalcarine 5495 3393 6823 1.897 0.625 0.102 0.019 41 4.6 postcentral 1250 941 2617 2.596 0.605 0.157 0.036 19 2.0 posteriorcingulate 6302 3769 9504 2.423 0.544 0.095 0.019 39 4.9 precentral 4862 3233 7861 2.184 0.648 0.108 0.021 43 4.2 precuneus 576 425 1352 2.587 0.785 0.138 0.029 9 0.8 rostralanteriorcingulate 4422 2811 6332 2.077 0.563 0.122 0.030 51 5.5 rostralmiddlefrontal 10094 6646 19370 2.589 0.582 0.115 0.026 96 10.4 superiorfrontal 5316 3407 7318 1.997 0.576 0.122 0.027 54 5.8 superiorparietal 5996 3864 12434 2.656 0.713 0.099 0.022 45 5.2 superiortemporal 3558 2304 5852 2.396 0.554 0.111 0.025 31 3.7 supramarginal 433 249 661 2.436 0.410 0.103 0.027 3 0.4 transversetemporal 2408 1607 4713 2.895 0.727 0.113 0.028 20 2.7 insula @#@FSTIME 2023:09:13:14:34:16 mris_anatomical_stats N 14 e 7.54 S 0.13 U 7.40 P 99% M 384060 F 0 R 104860 W 0 c 126 w 1 I 0 O 24 L 4.07 4.08 4.14 @#@FSLOADPOST 2023:09:13:14:34:24 mris_anatomical_stats N 14 4.06 4.08 4.14 #-------------------------------------------- #@# ASeg Stats Wed Sep 13 14:34:24 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /usr/local/freesurfer/7.4.1/ASegStatsLUT.txt --subject ED751_SAG_MPRAGE_p2_NON-SSc.nii setting seed for random number genererator to 1234 7.4.1 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 /usr/local/freesurfer/7.4.1/ASegStatsLUT.txt --subject ED751_SAG_MPRAGE_p2_NON-SSc.nii sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1243302 mm^3 (det: 1.566880 ) Computing euler number orig.nofix lheno = -16, rheno = -6 orig.nofix lhholes = 9, rhholes = 4 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 2023:09:13:14:34:24 mri_segstats N 32 e 169.36 S 0.52 U 168.80 P 99% M 272992 F 0 R 742286 W 0 c 1073 w 1 I 0 O 32 L 4.06 4.08 4.14 @#@FSLOADPOST 2023:09:13:14:37:13 mri_segstats N 32 4.12 4.08 4.12 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label INFO: fsaverage subject does not exist in SUBJECTS_DIR INFO: Creating symlink to fsaverage subject... cd /media/mt/Expansion/Disk9/EDIS_751; cp /usr/local/freesurfer/7.4.1/subjects/fsaverage; cd - cp: missing destination file operand after '/usr/local/freesurfer/7.4.1/subjects/fsaverage' Try 'cp --help' for more information. #-------------------------------------------- #@# BA_exvivo Labels lh Wed Sep 13 14:37:13 +08 2023 ------------------------------------------------------------------------- ERROR: Label BA1_exvivo does not exist in SUBJECTS_DIR fsaverage! The fsaverage link probably points to an older freesurfer version /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA1_exvivo.label ------------------------------------------------------------------------- Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux recon-all -s ED751_SAG_MPRAGE_p2_NON-SSc.nii exited with ERRORS at Wed Sep 13 14:37:13 +08 2023 To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting #New# invocation of recon-all Wed Sep 13 14:55:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 /usr/local/freesurfer/7.4.1/bin/recon-all -s ED751/SAG_MPRAGE_p2_NON-SS/ED751_SAG_MPRAGE_p2_NON-SSc.nii -autorecon3 -qcache subjid ED751_SAG_MPRAGE_p2_NON-SSc.nii setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Actual FREESURFER_HOME /usr/local/freesurfer/7.4.1 build-stamp.txt: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 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 2021552 kbytes maxproc 62847 maxlocks unlimited maxsignal 62847 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 15Gi 3.3Gi 2.5Gi 295Mi 9.6Gi 11Gi Swap: 2.0Gi 109Mi 1.9Gi ######################################## program versions used 7.4.1 (freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460) 7.4.1 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 7.4.1 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 7.4.1 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.4.1 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.4.1 TimeStamp: 2023/09/13-06:55:08-GMT BuildTime: Jun 14 2023 03:45:01 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 User: mt Machine: mtubuntu Platform: Linux PlatformVersion: 6.2.0-26-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 /usr/local/freesurfer/7.4.1/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 /usr/local/freesurfer/7.4.1/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### #-------------------------------------------- #@# Sphere lh Wed Sep 13 14:55:08 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_sphere -seed 1234 ../surf/lh.inflated ../surf/lh.sphere setting seed for random number genererator to 1234 version: 7.4.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.355... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=mtubu, 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 -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %38.44 pass 1: epoch 2 of 3 starting distance error %18.48 unfolding complete - removing small folds... starting distance error %18.43 removing remaining folds... final distance error %18.43 MRISunfold() return, current seed 1234 -01: dt=0.0000, 66 negative triangles VmPeak 481684 055: dt=0.9900, 66 negative triangles 056: dt=0.9900, 11 negative triangles 057: dt=0.9900, 5 negative triangles 058: dt=0.9900, 6 negative triangles 059: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/lh.sphere spherical transformation took 0.0500 hours FSRUNTIME@ mris_sphere 0.0500 hours 1 threads #VMPC# mris_sphere VmPeak 481684 mris_sphere done @#@FSTIME 2023:09:13:14:55:08 mris_sphere N 4 e 180.07 S 4.64 U 175.26 P 99% M 216288 F 0 R 3137198 W 0 c 1325 w 1 I 0 O 7384 L 5.11 4.88 4.57 @#@FSLOADPOST 2023:09:13:14:58:08 mris_sphere N 4 4.12 4.57 4.51 #-------------------------------------------- #@# Sphere rh Wed Sep 13 14:58:08 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_sphere -seed 1234 ../surf/rh.inflated ../surf/rh.sphere setting seed for random number genererator to 1234 version: 7.4.1 available threads: 1 reading original vertex positions... projecting onto sphere... surface projected - minimizing metric distortion... scaling brain by 0.344... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=mtubu, 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 %18.88 pass 1: epoch 2 of 3 starting distance error %18.88 unfolding complete - removing small folds... starting distance error %18.87 removing remaining folds... final distance error %18.87 MRISunfold() return, current seed 1234 -01: dt=0.0000, 59 negative triangles VmPeak 486556 087: dt=0.9900, 59 negative triangles 088: dt=0.9900, 12 negative triangles 089: dt=0.9900, 1 negative triangles 090: dt=0.9900, 1 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 0.0791 hours FSRUNTIME@ mris_sphere 0.0791 hours 1 threads #VMPC# mris_sphere VmPeak 486556 mris_sphere done @#@FSTIME 2023:09:13:14:58:09 mris_sphere N 4 e 284.79 S 7.59 U 277.03 P 99% M 221520 F 0 R 5012171 W 0 c 1875 w 1 I 0 O 7552 L 4.12 4.57 4.51 @#@FSLOADPOST 2023:09:13:15:02:53 mris_sphere N 4 4.16 4.32 4.41 #-------------------------------------------- #@# Surf Reg lh Wed Sep 13 15:02:53 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_register -curv ../surf/lh.sphere /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg using smoothwm curvature for final alignment cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts cmdline mris_register -curv ../surf/lh.sphere /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.4.1 7.4.1 reading surface from ../surf/lh.sphere... reading template parameterization from /usr/local/freesurfer/7.4.1/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=mtubu, 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=mtubu, 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=mtubu, 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 = 5.436 curvature mean = 0.028, std = 0.822 curvature mean = 0.011, std = 0.887 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (-3.00, 0.00, 4.50) sse = 165905.0, elapsed since starting=0.2903 min MRISrigidBodyAlignGlobal() done 0.29 min curvature mean = 0.019, std = 0.852 curvature mean = 0.004, std = 0.959 curvature mean = 0.018, std = 0.865 curvature mean = 0.002, std = 0.984 curvature mean = 0.018, std = 0.869 curvature mean = 0.000, std = 0.994 2 Reading smoothwm curvature mean = -0.019, std = 0.247 curvature mean = 0.043, std = 0.253 curvature mean = 0.050, std = 0.439 curvature mean = 0.041, std = 0.310 curvature mean = 0.018, std = 0.663 curvature mean = 0.041, std = 0.336 curvature mean = 0.008, std = 0.798 curvature mean = 0.041, std = 0.347 curvature mean = 0.001, std = 0.887 MRISregister() return, current seed 0 writing registered surface to ../surf/lh.sphere.reg... -01: dt=0.0000, 0 negative triangles VmPeak 478544 registration took 0.08 hours #VMPC# mris_register VmPeak 478544 FSRUNTIME@ mris_register 0.0814 hours 1 threads @#@FSTIME 2023:09:13:15:02:53 mris_register N 4 e 293.06 S 7.86 U 285.10 P 99% M 213940 F 0 R 4847044 W 0 c 1576 w 1 I 0 O 7384 L 4.16 4.32 4.41 @#@FSLOADPOST 2023:09:13:15:07:46 mris_register N 4 4.03 4.17 4.32 cp lh.sphere.reg lh.fsaverage.sphere.reg #-------------------------------------------- #@# Surf Reg rh Wed Sep 13 15:07:46 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_register -curv ../surf/rh.sphere /usr/local/freesurfer/7.4.1/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg using smoothwm curvature for final alignment cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts cmdline mris_register -curv ../surf/rh.sphere /usr/local/freesurfer/7.4.1/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) 7.4.1 7.4.1 reading surface from ../surf/rh.sphere... reading template parameterization from /usr/local/freesurfer/7.4.1/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=mtubu, 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=mtubu, 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=mtubu, 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 = 5.504 curvature mean = 0.030, std = 0.819 curvature mean = 0.012, std = 0.887 Starting MRISrigidBodyAlignGlobal() Starting new MRISrigidBodyAlignGlobal_findMinSSE() new MRISrigidBodyAlignGlobal_findMinSSE min @ (7.50, 1.00, 5.00) sse = 221683.4, elapsed since starting=0.3101 min MRISrigidBodyAlignGlobal() done 0.31 min curvature mean = 0.021, std = 0.852 curvature mean = 0.004, std = 0.960 curvature mean = 0.021, std = 0.865 curvature mean = 0.002, std = 0.985 curvature mean = 0.021, std = 0.869 curvature mean = 0.000, std = 0.995 2 Reading smoothwm curvature mean = -0.020, std = 0.244 curvature mean = 0.038, std = 0.247 curvature mean = 0.049, std = 0.446 curvature mean = 0.036, std = 0.303 curvature mean = 0.016, std = 0.670 curvature mean = 0.036, std = 0.328 curvature mean = 0.006, std = 0.805 curvature mean = 0.036, std = 0.340 curvature mean = 0.000, std = 0.891 MRISregister() return, current seed 0 writing registered surface to ../surf/rh.sphere.reg... -01: dt=0.0000, 0 negative triangles VmPeak 482580 registration took 0.10 hours #VMPC# mris_register VmPeak 482580 FSRUNTIME@ mris_register 0.1005 hours 1 threads @#@FSTIME 2023:09:13:15:07:46 mris_register N 4 e 361.80 S 7.70 U 354.01 P 99% M 217788 F 0 R 4548882 W 0 c 1768 w 1 I 0 O 7560 L 4.03 4.17 4.32 @#@FSLOADPOST 2023:09:13:15:13:48 mris_register N 4 4.18 4.12 4.24 cp rh.sphere.reg rh.fsaverage.sphere.reg #-------------------------------------------- #@# Jacobian white lh Wed Sep 13 15:13:48 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white reading surface from ../surf/lh.white.preaparc... writing curvature file ../surf/lh.jacobian_white @#@FSTIME 2023:09:13:15:13:48 mris_jacobian N 3 e 0.85 S 0.08 U 0.77 P 99% M 161748 F 0 R 48457 W 0 c 10 w 1 I 0 O 824 L 4.18 4.12 4.24 @#@FSLOADPOST 2023:09:13:15:13:49 mris_jacobian N 3 4.18 4.12 4.24 #-------------------------------------------- #@# Jacobian white rh Wed Sep 13 15:13:49 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white reading surface from ../surf/rh.white.preaparc... writing curvature file ../surf/rh.jacobian_white @#@FSTIME 2023:09:13:15:13:49 mris_jacobian N 3 e 0.89 S 0.07 U 0.81 P 99% M 165168 F 0 R 49548 W 0 c 36 w 1 I 0 O 840 L 4.18 4.12 4.24 @#@FSLOADPOST 2023:09:13:15:13:50 mris_jacobian N 3 4.18 4.12 4.24 #-------------------------------------------- #@# AvgCurv lh Wed Sep 13 15:13:50 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mrisp_paint -a 5 /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/lh.sphere.reg... reading template parameterization from /usr/local/freesurfer/7.4.1/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/lh.avg_curv... @#@FSTIME 2023:09:13:15:13:50 mrisp_paint N 5 e 0.68 S 0.04 U 0.64 P 99% M 126520 F 0 R 33578 W 0 c 10 w 1 I 0 O 824 L 4.18 4.12 4.24 @#@FSLOADPOST 2023:09:13:15:13:51 mrisp_paint N 5 4.18 4.12 4.24 #-------------------------------------------- #@# AvgCurv rh Wed Sep 13 15:13:51 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mrisp_paint -a 5 /usr/local/freesurfer/7.4.1/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/rh.sphere.reg... reading template parameterization from /usr/local/freesurfer/7.4.1/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/rh.avg_curv... @#@FSTIME 2023:09:13:15:13:51 mrisp_paint N 5 e 0.68 S 0.05 U 0.62 P 99% M 128896 F 0 R 34298 W 0 c 12 w 1 I 0 O 840 L 4.18 4.12 4.24 @#@FSLOADPOST 2023:09:13:15:13:51 mrisp_paint N 5 4.25 4.13 4.24 #----------------------------------------- #@# Cortical Parc lh Wed Sep 13 15:13:51 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh ../surf/lh.sphere.reg /usr/local/freesurfer/7.4.1/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 1098 labels changed using aseg relabeling using gibbs priors... 000: 2442 changed, 104549 examined... 001: 577 changed, 10470 examined... 002: 158 changed, 3273 examined... 003: 68 changed, 963 examined... 004: 26 changed, 398 examined... 005: 11 changed, 155 examined... 006: 1 changed, 71 examined... 007: 1 changed, 7 examined... 008: 0 changed, 7 examined... 255 labels changed using aseg 000: 97 total segments, 53 labels (130 vertices) changed 001: 44 total segments, 2 labels (5 vertices) changed 002: 42 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... 1503 vertices marked for relabeling... 1503 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2023:09:13:15:13:52 mris_ca_label N 11 e 8.08 S 0.52 U 7.55 P 99% M 990676 F 0 R 345005 W 0 c 55 w 1 I 0 O 1648 L 4.25 4.13 4.24 @#@FSLOADPOST 2023:09:13:15:14:00 mris_ca_label N 11 4.23 4.13 4.24 #----------------------------------------- #@# Cortical Parc rh Wed Sep 13 15:14:00 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh ../surf/rh.sphere.reg /usr/local/freesurfer/7.4.1/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 972 labels changed using aseg relabeling using gibbs priors... 000: 2351 changed, 106948 examined... 001: 541 changed, 10280 examined... 002: 117 changed, 3079 examined... 003: 36 changed, 731 examined... 004: 14 changed, 209 examined... 005: 9 changed, 84 examined... 006: 7 changed, 46 examined... 007: 4 changed, 36 examined... 008: 3 changed, 21 examined... 009: 3 changed, 16 examined... 010: 1 changed, 14 examined... 011: 3 changed, 7 examined... 012: 1 changed, 18 examined... 013: 2 changed, 7 examined... 014: 3 changed, 13 examined... 015: 2 changed, 12 examined... 016: 1 changed, 12 examined... 017: 0 changed, 7 examined... 318 labels changed using aseg 000: 77 total segments, 38 labels (139 vertices) changed 001: 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... 1072 vertices marked for relabeling... 1072 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2023:09:13:15:14:00 mris_ca_label N 11 e 7.84 S 0.45 U 7.38 P 99% M 925088 F 0 R 285553 W 0 c 23 w 1 I 0 O 1680 L 4.23 4.13 4.24 @#@FSLOADPOST 2023:09:13:15:14:07 mris_ca_label N 11 4.19 4.12 4.24 #-------------------------------------------- #@# WhiteSurfs lh Wed Sep 13 15:14:07 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 Update not needed #-------------------------------------------- #@# WhiteSurfs rh Wed Sep 13 15:14:07 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 Update not needed #-------------------------------------------- #@# T1PialSurf lh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 Update not needed #-------------------------------------------- #@# T1PialSurf rh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 Update not needed #@# white curv lh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --curv-map ../surf/lh.white 2 10 ../surf/lh.curv Update not needed #@# white area lh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --area-map ../surf/lh.white ../surf/lh.area Update not needed #@# pial curv lh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --curv-map ../surf/lh.pial 2 10 ../surf/lh.curv.pial Update not needed #@# pial area lh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --area-map ../surf/lh.pial ../surf/lh.area.pial Update not needed #@# thickness lh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# area and vertex vol lh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --thickness ../surf/lh.white ../surf/lh.pial 20 5 ../surf/lh.thickness Update not needed #@# white curv rh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --curv-map ../surf/rh.white 2 10 ../surf/rh.curv Update not needed #@# white area rh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --area-map ../surf/rh.white ../surf/rh.area Update not needed #@# pial curv rh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --curv-map ../surf/rh.pial 2 10 ../surf/rh.curv.pial Update not needed #@# pial area rh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --area-map ../surf/rh.pial ../surf/rh.area.pial Update not needed #@# thickness rh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed #@# area and vertex vol rh Wed Sep 13 15:14:08 +08 2023 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mris_place_surface --thickness ../surf/rh.white ../surf/rh.pial 20 5 ../surf/rh.thickness Update not needed #----------------------------------------- #@# Curvature Stats lh Wed Sep 13 15:14:08 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm ED751_SAG_MPRAGE_p2_NON-SSc.nii lh curv sulc Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/lh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 [ 201 ] Gb_filter = 0 WARN: S lookup min: -0.002288 WARN: S explicit min: 0.000000 vertex = 199 @#@FSTIME 2023:09:13:15:14:08 mris_curvature_stats N 11 e 1.95 S 0.09 U 1.86 P 99% M 145376 F 0 R 39050 W 0 c 13 w 1 I 0 O 6632 L 4.19 4.12 4.24 @#@FSLOADPOST 2023:09:13:15:14:10 mris_curvature_stats N 11 4.19 4.12 4.24 #----------------------------------------- #@# Curvature Stats rh Wed Sep 13 15:14:10 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm ED751_SAG_MPRAGE_p2_NON-SSc.nii rh curv sulc Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/rh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 [ 188 ] Gb_filter = 0 WARN: S lookup min: -0.004290 WARN: S explicit min: 0.000000 vertex = 643 @#@FSTIME 2023:09:13:15:14:10 mris_curvature_stats N 11 e 2.51 S 0.08 U 2.42 P 99% M 148580 F 0 R 39372 W 0 c 19 w 1 I 0 O 6768 L 4.19 4.12 4.24 @#@FSLOADPOST 2023:09:13:15:14:12 mris_curvature_stats N 11 4.18 4.12 4.24 #-------------------------------------------- #@# Cortical ribbon mask Wed Sep 13 15:14:12 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii SUBJECTS_DIR is /media/mt/Expansion/Disk9/EDIS_751 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 = 31 writing volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/ribbon.mgz mris_volmask took 5.41 minutes writing ribbon files @#@FSTIME 2023:09:13:15:14:12 mris_volmask N 12 e 324.40 S 0.68 U 323.67 P 99% M 844420 F 0 R 470016 W 0 c 1226 w 1 I 0 O 720 L 4.18 4.12 4.24 @#@FSLOADPOST 2023:09:13:15:19:37 mris_volmask N 12 4.05 4.08 4.18 #----------------------------------------- #@# Cortical Parc 2 lh Wed Sep 13 15:19:37 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh ../surf/lh.sphere.reg /usr/local/freesurfer/7.4.1/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 152 labels changed using aseg relabeling using gibbs priors... 000: 7021 changed, 104549 examined... 001: 1595 changed, 27161 examined... 002: 451 changed, 8584 examined... 003: 207 changed, 2654 examined... 004: 98 changed, 1170 examined... 005: 37 changed, 565 examined... 006: 25 changed, 230 examined... 007: 16 changed, 155 examined... 008: 14 changed, 94 examined... 009: 4 changed, 86 examined... 010: 2 changed, 25 examined... 011: 1 changed, 14 examined... 012: 0 changed, 7 examined... 83 labels changed using aseg 000: 186 total segments, 101 labels (844 vertices) changed 001: 89 total segments, 5 labels (288 vertices) changed 002: 84 total segments, 1 labels (95 vertices) changed 003: 83 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... relabeling unknown label... 1033 vertices marked for relabeling... 1033 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 0 minutes and 10 seconds. @#@FSTIME 2023:09:13:15:19:37 mris_ca_label N 11 e 10.13 S 0.82 U 9.30 P 99% M 1336404 F 0 R 588368 W 0 c 26 w 1 I 0 O 1648 L 4.05 4.08 4.18 @#@FSLOADPOST 2023:09:13:15:19:47 mris_ca_label N 11 4.04 4.08 4.18 #----------------------------------------- #@# Cortical Parc 2 rh Wed Sep 13 15:19:47 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh ../surf/rh.sphere.reg /usr/local/freesurfer/7.4.1/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 417 labels changed using aseg relabeling using gibbs priors... 000: 7169 changed, 106948 examined... 001: 1515 changed, 28305 examined... 002: 438 changed, 8274 examined... 003: 185 changed, 2542 examined... 004: 90 changed, 1124 examined... 005: 48 changed, 516 examined... 006: 24 changed, 295 examined... 007: 9 changed, 134 examined... 008: 8 changed, 49 examined... 009: 7 changed, 48 examined... 010: 1 changed, 36 examined... 011: 1 changed, 7 examined... 012: 0 changed, 7 examined... 62 labels changed using aseg 000: 208 total segments, 121 labels (1435 vertices) changed 001: 88 total segments, 2 labels (9 vertices) changed 002: 86 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 25 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... relabeling unknown label... 804 vertices marked for relabeling... 804 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 0 minutes and 10 seconds. @#@FSTIME 2023:09:13:15:19:47 mris_ca_label N 11 e 9.86 S 0.80 U 9.03 P 99% M 1438960 F 3 R 547177 W 0 c 85 w 6 I 40 O 1704 L 4.04 4.08 4.18 @#@FSLOADPOST 2023:09:13:15:19:57 mris_ca_label N 11 4.03 4.08 4.17 #----------------------------------------- #@# Cortical Parc 3 lh Wed Sep 13 15:19:57 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh ../surf/lh.sphere.reg /usr/local/freesurfer/7.4.1/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 1208 labels changed using aseg relabeling using gibbs priors... 000: 1571 changed, 104549 examined... 001: 334 changed, 7445 examined... 002: 114 changed, 1960 examined... 003: 66 changed, 670 examined... 004: 39 changed, 380 examined... 005: 28 changed, 206 examined... 006: 20 changed, 139 examined... 007: 20 changed, 93 examined... 008: 12 changed, 101 examined... 009: 12 changed, 70 examined... 010: 12 changed, 68 examined... 011: 11 changed, 64 examined... 012: 11 changed, 69 examined... 013: 6 changed, 54 examined... 014: 5 changed, 39 examined... 015: 4 changed, 24 examined... 016: 3 changed, 22 examined... 017: 0 changed, 21 examined... 387 labels changed using aseg 000: 46 total segments, 12 labels (56 vertices) changed 001: 34 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 4 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 674 vertices marked for relabeling... 674 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas.annot... classification took 0 minutes and 7 seconds. @#@FSTIME 2023:09:13:15:19:57 mris_ca_label N 11 e 7.21 S 0.42 U 6.78 P 99% M 815496 F 0 R 258165 W 0 c 49 w 1 I 0 O 1640 L 4.03 4.08 4.17 @#@FSLOADPOST 2023:09:13:15:20:04 mris_ca_label N 11 4.03 4.08 4.17 #----------------------------------------- #@# Cortical Parc 3 rh Wed Sep 13 15:20:04 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh ../surf/rh.sphere.reg /usr/local/freesurfer/7.4.1/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline 7.4.1 7.4.1 reading atlas from /usr/local/freesurfer/7.4.1/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 reading surface from /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.smoothwm... GCSA::load_default_data(): ninputs=1 sulc_only=0 which_norm=0 labeling surface... 1380 labels changed using aseg relabeling using gibbs priors... 000: 1615 changed, 106948 examined... 001: 373 changed, 7592 examined... 002: 120 changed, 2155 examined... 003: 62 changed, 728 examined... 004: 41 changed, 333 examined... 005: 25 changed, 216 examined... 006: 18 changed, 145 examined... 007: 14 changed, 107 examined... 008: 17 changed, 77 examined... 009: 15 changed, 87 examined... 010: 15 changed, 81 examined... 011: 12 changed, 73 examined... 012: 11 changed, 66 examined... 013: 11 changed, 55 examined... 014: 11 changed, 61 examined... 015: 10 changed, 52 examined... 016: 12 changed, 49 examined... 017: 15 changed, 61 examined... 018: 12 changed, 64 examined... 019: 11 changed, 65 examined... 020: 9 changed, 49 examined... 021: 9 changed, 45 examined... 022: 5 changed, 47 examined... 023: 3 changed, 20 examined... 024: 4 changed, 14 examined... 025: 6 changed, 21 examined... 026: 4 changed, 30 examined... 027: 5 changed, 23 examined... 028: 2 changed, 22 examined... 029: 2 changed, 14 examined... 030: 2 changed, 12 examined... 031: 5 changed, 13 examined... 032: 4 changed, 21 examined... 033: 2 changed, 20 examined... 034: 3 changed, 9 examined... 035: 3 changed, 17 examined... 036: 2 changed, 18 examined... 037: 0 changed, 11 examined... 536 labels changed using aseg 000: 50 total segments, 17 labels (128 vertices) changed 001: 33 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... 449 vertices marked for relabeling... 449 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas.annot... classification took 0 minutes and 8 seconds. @#@FSTIME 2023:09:13:15:20:04 mris_ca_label N 11 e 7.66 S 0.41 U 7.24 P 99% M 837156 F 0 R 257922 W 0 c 51 w 1 I 0 O 1680 L 4.03 4.08 4.17 @#@FSLOADPOST 2023:09:13:15:20:12 mris_ca_label N 11 4.02 4.07 4.17 #----------------------------------------- #@# WM/GM Contrast lh Wed Sep 13 15:20:12 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts pctsurfcon --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --lh-only Log file is /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts/pctsurfcon.log Wed Sep 13 15:20:12 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts /usr/local/freesurfer/7.4.1/bin/pctsurfcon pctsurfcon 7.4.1 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /usr/local/freesurfer/7.4.1 mri_vol2surf --mov /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1083856/lh.wm.mgh --regheader ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex srcvol = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99063 0.09237 0.10062 -0.00001; 0.10019 -0.00934 0.99492 0.00003; -0.09284 -0.99568 -0.00000 -0.00007; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Reading surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 60014 Masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1083856/lh.wm.mgh Dim: 104549 1 1 mri_vol2surf done mri_vol2surf --mov /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1083856/lh.gm.mgh --projfrac 0.3 --regheader ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex srcvol = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99063 0.09237 0.10062 -0.00001; 0.10019 -0.00934 0.99492 0.00003; -0.09284 -0.99568 -0.00000 -0.00007; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Reading surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Done reading source surface Reading thickness /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 69204 Masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1083856/lh.gm.mgh Dim: 104549 1 1 mri_vol2surf done mri_concat /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1083856/lh.wm.mgh /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1083856/lh.gm.mgh --paired-diff-norm --mul 100 --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.w-g.pct.mgh mri_segstats --in /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.w-g.pct.mgh --annot ED751_SAG_MPRAGE_p2_NON-SSc.nii lh aparc --sum /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/stats/lh.w-g.pct.stats --snr 7.4.1 cwd cmdline mri_segstats --in /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.w-g.pct.mgh --annot ED751_SAG_MPRAGE_p2_NON-SSc.nii lh aparc --sum /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/stats/lh.w-g.pct.stats --snr sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot Seg base 1000 MRISannot2seg(): nhits = 96663 Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.w-g.pct.mgh Vertex Area is 0.667121 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 2023:09:13:15:20:12 pctsurfcon N 3 e 2.74 S 0.29 U 2.45 P 100% M 250864 F 0 R 174181 W 0 c 31 w 65 I 0 O 3112 L 4.02 4.07 4.17 @#@FSLOADPOST 2023:09:13:15:20:15 pctsurfcon N 3 4.02 4.07 4.17 #----------------------------------------- #@# WM/GM Contrast rh Wed Sep 13 15:20:15 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts pctsurfcon --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --rh-only Log file is /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts/pctsurfcon.log Wed Sep 13 15:20:15 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/scripts /usr/local/freesurfer/7.4.1/bin/pctsurfcon pctsurfcon 7.4.1 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /usr/local/freesurfer/7.4.1 mri_vol2surf --mov /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1083920/rh.wm.mgh --regheader ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex srcvol = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99063 0.09237 0.10062 -0.00001; 0.10019 -0.00934 0.99492 0.00003; -0.09284 -0.99568 -0.00000 -0.00007; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Reading surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 61194 Masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1083920/rh.wm.mgh Dim: 106948 1 1 mri_vol2surf done mri_vol2surf --mov /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1083920/rh.gm.mgh --projfrac 0.3 --regheader ED751_SAG_MPRAGE_p2_NON-SSc.nii --cortex srcvol = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/orig.mgz as target reference. -------- original matrix ----------- -0.99063 0.09237 0.10062 -0.00001; 0.10019 -0.00934 0.99492 0.00003; -0.09284 -0.99568 -0.00000 -0.00007; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Reading surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Done reading source surface Reading thickness /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 70868 Masking with /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Writing to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1083920/rh.gm.mgh Dim: 106948 1 1 mri_vol2surf done mri_concat /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1083920/rh.wm.mgh /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/tmp.pctsurfcon.1083920/rh.gm.mgh --paired-diff-norm --mul 100 --o /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.w-g.pct.mgh mri_segstats --in /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.w-g.pct.mgh --annot ED751_SAG_MPRAGE_p2_NON-SSc.nii rh aparc --sum /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/stats/rh.w-g.pct.stats --snr 7.4.1 cwd cmdline mri_segstats --in /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.w-g.pct.mgh --annot ED751_SAG_MPRAGE_p2_NON-SSc.nii rh aparc --sum /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/stats/rh.w-g.pct.stats --snr sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 Constructing seg from annotation Reading annotation /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.annot Seg base 2000 MRISannot2seg(): nhits = 98865 Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.w-g.pct.mgh Vertex Area is 0.661722 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 2023:09:13:15:20:15 pctsurfcon N 3 e 2.81 S 0.25 U 2.55 P 99% M 253452 F 0 R 176142 W 0 c 69 w 69 I 0 O 3136 L 4.02 4.07 4.17 @#@FSLOADPOST 2023:09:13:15:20:17 pctsurfcon N 3 4.02 4.07 4.17 #----------------------------------------- #@# Relabel Hypointensities Wed Sep 13 15:20:17 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz reading input surface ../surf/lh.white... relabeling lh hypointensities... 6523 voxels changed to hypointensity... reading input surface ../surf/rh.white... relabeling rh hypointensities... 1681 voxels changed to hypointensity... 8080 hypointense voxels neighboring cortex changed @#@FSTIME 2023:09:13:15:20:17 mri_relabel_hypointensities N 3 e 11.70 S 0.50 U 11.19 P 99% M 434368 F 0 R 316146 W 0 c 85 w 1 I 0 O 608 L 4.02 4.07 4.17 @#@FSLOADPOST 2023:09:13:15:20:29 mri_relabel_hypointensities N 3 4.02 4.07 4.17 #----------------------------------------- #@# APas-to-ASeg Wed Sep 13 15:20:29 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o aseg.mgz --i aseg.presurf.hypos.mgz --fix-presurf-with-ribbon /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/ribbon.mgz --threads 1 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol aseg.mgz 6 avail.processors, using 1 Loading aseg.presurf.hypos.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/ribbon.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 0 ndotcheck = 0 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 791320 mri_surf2volseg done @#@FSTIME 2023:09:13:15:20:29 mri_surf2volseg N 20 e 13.88 S 0.29 U 13.56 P 99% M 761592 F 0 R 205681 W 0 c 246 w 1 I 0 O 600 L 4.02 4.07 4.17 @#@FSLOADPOST 2023:09:13:15:20:43 mri_surf2volseg N 20 4.01 4.06 4.16 mri_brainvol_stats --subject ED751_SAG_MPRAGE_p2_NON-SSc.nii ComputeBrainVolumeStats2 VoxelVol=1, KeepCSF=1 #CBVS2 MaskVol 1259253.0 #CBVS2 BrainSegVol 874491.0 #CBVS2 BrainSegVolNotVent 831967.0 #CBVS2 SupraTentVol 776191.0 #CBVS2 SupraTentVolNotVent 733667.0 #CBVS2 lhCtxGM 171550.2 #CBVS2 rhCtxGM 170451.1 #CBVS2 lhCerebralWM 172784.5 #CBVS2 rhCerebralWM 172942.5 #CBVS2 SubCortGMVol 46646.0 #CBVS2 CerebellumVol 98300.0 #CBVS2 CerebellumGMVol 77862.0 #CBVS2 VentChorVol 38467.0 #CBVS2 3rd4th5thCSF 4057.0 #CBVS2 AllCSF 42524.0 #CBVS2 CCVol 3251.0 @#@FSTIME 2023:09:13:15:20:43 mri_brainvol_stats N 2 e 3.59 S 0.14 U 3.43 P 99% M 191100 F 0 R 99549 W 0 c 86 w 1 I 0 O 16 L 4.01 4.06 4.16 @#@FSLOADPOST 2023:09:13:15:20:47 mri_brainvol_stats N 2 4.01 4.06 4.16 #----------------------------------------- #@# AParc-to-ASeg aparc Wed Sep 13 15:20:47 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o aparc+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot 1000 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.annot 2000 --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol aparc+aseg.mgz 6 avail.processors, using 1 Loading aseg.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7886 vertices from lh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 8083 vertices from rh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 0 ndotcheck = 13624 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 774336 mri_surf2volseg done @#@FSTIME 2023:09:13:15:20:47 mri_surf2volseg N 25 e 77.28 S 0.32 U 76.94 P 99% M 744668 F 0 R 204222 W 0 c 497 w 1 I 0 O 704 L 4.01 4.06 4.16 @#@FSLOADPOST 2023:09:13:15:22:04 mri_surf2volseg N 25 4.05 4.06 4.15 #----------------------------------------- #@# AParc-to-ASeg aparc.a2009s Wed Sep 13 15:22:04 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o aparc.a2009s+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.a2009s.annot 11100 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.a2009s.annot 12100 --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol aparc.a2009s+aseg.mgz 6 avail.processors, using 1 Loading aseg.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7886 vertices from lh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.a2009s.annot Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 8083 vertices from rh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 0 ndotcheck = 13624 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 774460 mri_surf2volseg done @#@FSTIME 2023:09:13:15:22:04 mri_surf2volseg N 25 e 76.62 S 0.31 U 76.29 P 99% M 744928 F 0 R 201668 W 0 c 414 w 1 I 0 O 744 L 4.05 4.06 4.15 @#@FSLOADPOST 2023:09:13:15:23:21 mri_surf2volseg N 25 4.01 4.04 4.14 #----------------------------------------- #@# AParc-to-ASeg aparc.DKTatlas Wed Sep 13 15:23:21 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri mri_surf2volseg --o aparc.DKTatlas+aseg.mgz --label-cortex --i aseg.mgz --threads 1 --lh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.DKTatlas.annot 1000 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.DKTatlas.annot 2000 --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol aparc.DKTatlas+aseg.mgz 6 avail.processors, using 1 Loading aseg.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7886 vertices from lh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.DKTatlas.annot Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 8083 vertices from rh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 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/media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot 3000 --lh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label --lh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white --lh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial --rh-annot /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.aparc.annot 4000 --rh-cortex-mask /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label --rh-white /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white --rh-pial /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 outvol wmparc.mgz 6 avail.processors, using 1 Loading aparc+aseg.mgz Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.cortex.label Ripping lh vertices labeled not in lh.cortex.label ripped 7886 vertices from lh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.aparc.annot Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.cortex.label Ripping rh vertices labeled not in rh.cortex.label ripped 8083 vertices from rh hemi Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 = 0 ndotcheck = 3674 Starting Surf2VolSeg free free done #VMPC# mri_surf2volseg VmPeak 774336 mri_surf2volseg done @#@FSTIME 2023:09:13:15:24:42 mri_surf2volseg N 25 e 38.58 S 0.35 U 38.18 P 99% M 744724 F 0 R 204221 W 0 c 369 w 1 I 0 O 776 L 4.00 4.03 4.12 @#@FSLOADPOST 2023:09:13:15:25:20 mri_surf2volseg N 25 4.00 4.03 4.12 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 ED751_SAG_MPRAGE_p2_NON-SSc.nii --surf-wm-vol --ctab /usr/local/freesurfer/7.4.1/WMParcStatsLUT.txt --etiv setting seed for random number genererator to 1234 7.4.1 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 ED751_SAG_MPRAGE_p2_NON-SSc.nii --surf-wm-vol --ctab /usr/local/freesurfer/7.4.1/WMParcStatsLUT.txt --etiv sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1243302 mm^3 (det: 1.566880 ) 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 2023:09:13:15:25:20 mri_segstats N 24 e 335.40 S 1.05 U 334.23 P 99% M 239992 F 0 R 1206316 W 0 c 2072 w 1 I 0 O 48 L 4.00 4.03 4.12 @#@FSLOADPOST 2023:09:13:15:30:56 mri_segstats N 24 4.18 4.09 4.10 #----------------------------------------- #@# Parcellation Stats lh Wed Sep 13 15:30:56 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh white computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 981 651 1273 2.138 0.431 0.084 0.014 4 0.5 bankssts 684 560 1650 2.786 0.607 0.157 0.033 15 1.0 caudalanteriorcingulate 2961 1758 4834 2.546 0.507 0.095 0.019 22 2.3 caudalmiddlefrontal 2227 1573 3110 1.883 0.495 0.141 0.030 26 2.9 cuneus 367 326 1690 3.415 0.882 0.160 0.041 5 0.7 entorhinal 3342 2598 7363 2.522 0.656 0.154 0.041 49 5.6 fusiform 3973 2744 7136 2.343 0.620 0.122 0.026 40 4.0 inferiorparietal 3462 2539 8875 2.759 0.712 0.125 0.027 39 3.8 inferiortemporal 1405 933 2117 2.103 0.694 0.104 0.025 13 1.4 isthmuscingulate 5587 3923 9111 2.078 0.586 0.142 0.034 67 7.8 lateraloccipital 2465 1891 5514 2.666 0.638 0.152 0.037 35 4.4 lateralorbitofrontal 3399 2511 5282 1.898 0.567 0.147 0.035 46 5.0 lingual 1976 1553 4577 2.764 0.859 0.165 0.044 41 3.8 medialorbitofrontal 3322 2299 6859 2.558 0.737 0.122 0.025 36 3.4 middletemporal 877 562 1914 2.773 0.928 0.096 0.023 6 0.7 parahippocampal 1594 969 2751 2.491 0.547 0.098 0.018 10 1.3 paracentral 1881 1188 2890 2.242 0.501 0.092 0.019 15 1.3 parsopercularis 621 451 1485 2.566 0.653 0.145 0.042 9 0.9 parsorbitalis 1666 1007 2441 2.236 0.558 0.115 0.028 16 1.7 parstriangularis 1983 1326 2161 1.732 0.464 0.127 0.029 22 2.5 pericalcarine 5949 3560 7506 1.923 0.669 0.102 0.020 46 5.1 postcentral 1227 891 2203 2.266 0.675 0.135 0.029 16 1.7 posteriorcingulate 6748 3894 10329 2.515 0.573 0.094 0.022 46 5.9 precentral 4362 3128 7836 2.214 0.627 0.126 0.029 47 5.2 precuneus 776 598 1782 2.859 1.102 0.169 0.044 16 1.9 rostralanteriorcingulate 6500 4240 9273 2.095 0.542 0.126 0.030 71 8.0 rostralmiddlefrontal 7512 4844 14839 2.695 0.612 0.107 0.022 61 6.6 superiorfrontal 6454 4236 9736 2.132 0.556 0.122 0.029 68 7.2 superiorparietal 4793 3093 9132 2.571 0.632 0.102 0.020 41 3.7 superiortemporal 3602 2330 6415 2.491 0.587 0.113 0.023 35 3.3 supramarginal 293 253 978 2.998 0.419 0.181 0.041 6 0.5 frontalpole 447 465 2517 3.488 1.010 0.206 0.066 10 1.5 temporalpole 571 346 749 2.036 0.395 0.119 0.029 6 0.6 transversetemporal 2656 1731 5152 2.854 0.862 0.128 0.040 29 4.5 insula @#@FSTIME 2023:09:13:15:30:56 mris_anatomical_stats N 14 e 6.63 S 0.17 U 6.45 P 99% M 376108 F 0 R 110301 W 0 c 37 w 1 I 0 O 32 L 4.18 4.09 4.10 @#@FSLOADPOST 2023:09:13:15:31:03 mris_anatomical_stats N 14 4.23 4.10 4.10 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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh pial computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 981 574 1273 2.138 0.431 0.098 0.027 16 0.9 bankssts 684 723 1650 2.786 0.607 0.194 0.063 307 1.2 caudalanteriorcingulate 2961 2040 4834 2.546 0.507 0.102 0.020 31 2.2 caudalmiddlefrontal 2227 1846 3110 1.883 0.495 0.132 0.029 37 2.5 cuneus 367 695 1690 3.415 0.882 0.340 0.101 10 1.7 entorhinal 3342 3234 7363 2.522 0.656 0.171 0.046 79 6.3 fusiform 3973 3165 7136 2.343 0.620 0.137 0.031 405 5.2 inferiorparietal 3462 3604 8875 2.759 0.712 0.155 0.035 53 5.1 inferiortemporal 1405 1134 2117 2.103 0.694 0.166 0.055 90 2.9 isthmuscingulate 5587 4813 9111 2.078 0.586 0.140 0.033 105 7.7 lateraloccipital 2465 2242 5514 2.666 0.638 0.164 0.043 43 4.1 lateralorbitofrontal 3399 3137 5282 1.898 0.567 0.157 0.046 94 5.9 lingual 1976 1819 4577 2.764 0.859 0.171 0.045 47 3.7 medialorbitofrontal 3322 2980 6859 2.558 0.737 0.140 0.031 78 4.1 middletemporal 877 840 1914 2.773 0.928 0.184 0.057 15 2.4 parahippocampal 1594 1228 2751 2.491 0.547 0.111 0.023 27 1.6 paracentral 1881 1416 2890 2.242 0.501 0.109 0.019 15 1.5 parsopercularis 621 705 1485 2.566 0.653 0.180 0.031 6 0.9 parsorbitalis 1666 1230 2441 2.236 0.558 0.122 0.025 20 1.5 parstriangularis 1983 1244 2161 1.732 0.464 0.113 0.028 44 2.2 pericalcarine 5949 4377 7506 1.923 0.669 0.112 0.021 85 5.2 postcentral 1227 1073 2203 2.266 0.675 0.174 0.051 52 2.5 posteriorcingulate 6748 4322 10329 2.515 0.573 0.094 0.018 59 5.0 precentral 4362 3712 7836 2.214 0.627 0.149 0.035 61 6.3 precuneus 776 712 1782 2.859 1.102 0.223 0.073 90 2.0 rostralanteriorcingulate 6500 4626 9273 2.095 0.542 0.132 0.031 87 8.0 rostralmiddlefrontal 7512 5974 14839 2.695 0.612 0.121 0.024 74 7.3 superiorfrontal 6454 4890 9736 2.132 0.556 0.132 0.041 146 7.6 superiorparietal 4793 3809 9132 2.571 0.632 0.119 0.024 66 4.9 superiortemporal 3602 2764 6415 2.491 0.587 0.119 0.024 43 3.4 supramarginal 293 418 978 2.998 0.419 0.250 0.039 5 0.5 frontalpole 447 941 2517 3.488 1.010 0.348 0.063 9 1.7 temporalpole 571 427 749 2.036 0.395 0.106 0.021 4 0.4 transversetemporal 2656 1710 5152 2.854 0.862 0.150 0.052 81 5.1 insula @#@FSTIME 2023:09:13:15:31:03 mris_anatomical_stats N 14 e 6.61 S 0.18 U 6.42 P 99% M 375952 F 0 R 110301 W 0 c 72 w 1 I 0 O 24 L 4.23 4.10 4.10 @#@FSLOADPOST 2023:09:13:15:31:09 mris_anatomical_stats N 14 4.22 4.10 4.10 #----------------------------------------- #@# Parcellation Stats rh Wed Sep 13 15:31:09 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh white computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 1208 783 1836 2.580 0.369 0.091 0.015 5 0.8 bankssts 597 401 1009 2.355 0.535 0.150 0.032 13 0.6 caudalanteriorcingulate 2989 1817 4784 2.399 0.514 0.101 0.021 24 2.4 caudalmiddlefrontal 2233 1528 3000 1.854 0.427 0.135 0.030 25 2.9 cuneus 376 286 1362 3.115 1.020 0.140 0.044 4 0.8 entorhinal 3247 2372 7484 2.637 0.651 0.137 0.032 39 4.6 fusiform 5240 3582 8686 2.216 0.595 0.126 0.027 56 5.8 inferiorparietal 3561 2712 8986 2.628 0.745 0.135 0.031 45 4.6 inferiortemporal 1152 784 1985 2.396 0.770 0.128 0.031 16 1.3 isthmuscingulate 5724 3912 8605 2.010 0.583 0.136 0.031 66 7.4 lateraloccipital 2632 1921 5358 2.497 0.652 0.150 0.042 38 4.8 lateralorbitofrontal 3700 2802 5547 1.911 0.515 0.156 0.039 51 6.4 lingual 1862 1384 4433 2.746 0.803 0.129 0.034 21 2.6 medialorbitofrontal 4074 2719 8051 2.548 0.690 0.110 0.023 37 3.6 middletemporal 876 549 1656 2.550 0.958 0.097 0.024 7 0.7 parahippocampal 1924 1171 2918 2.342 0.625 0.098 0.019 13 1.6 paracentral 1542 1000 2644 2.413 0.494 0.103 0.023 12 1.4 parsopercularis 846 576 1927 2.617 0.494 0.135 0.037 12 1.1 parsorbitalis 1756 1131 2524 2.087 0.528 0.119 0.029 17 1.9 parstriangularis 2152 1464 2227 1.639 0.409 0.126 0.024 25 2.2 pericalcarine 4947 3094 6098 1.855 0.613 0.102 0.019 36 4.1 postcentral 1111 844 2237 2.548 0.612 0.154 0.035 16 1.7 posteriorcingulate 6560 3927 9807 2.420 0.540 0.095 0.019 41 5.2 precentral 4699 3113 7616 2.233 0.632 0.111 0.022 43 4.1 precuneus 454 336 1073 2.678 0.667 0.141 0.028 8 0.6 rostralanteriorcingulate 5999 3936 8995 2.129 0.562 0.127 0.031 70 7.9 rostralmiddlefrontal 8314 5366 16236 2.641 0.580 0.112 0.024 76 8.1 superiorfrontal 6717 4265 9197 2.005 0.585 0.119 0.026 67 7.2 superiorparietal 4759 2929 8519 2.569 0.673 0.091 0.018 31 3.5 superiortemporal 3786 2448 6154 2.369 0.559 0.112 0.026 35 4.0 supramarginal 352 263 928 2.753 0.444 0.168 0.035 8 0.5 frontalpole 432 421 2655 3.497 0.949 0.185 0.065 10 1.1 temporalpole 438 251 665 2.439 0.418 0.106 0.028 3 0.4 transversetemporal 2606 1739 5039 2.882 0.740 0.117 0.031 23 3.2 insula @#@FSTIME 2023:09:13:15:31:09 mris_anatomical_stats N 14 e 6.99 S 0.13 U 6.85 P 99% M 384060 F 0 R 104862 W 0 c 38 w 1 I 0 O 24 L 4.22 4.10 4.10 @#@FSLOADPOST 2023:09:13:15:31:16 mris_anatomical_stats N 14 4.20 4.10 4.10 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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh pial computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 1208 647 1836 2.580 0.369 0.089 0.021 12 1.0 bankssts 597 486 1009 2.355 0.535 0.128 0.024 6 0.6 caudalanteriorcingulate 2989 2099 4784 2.399 0.514 0.108 0.019 25 2.5 caudalmiddlefrontal 2233 1844 3000 1.854 0.427 0.131 0.029 29 2.6 cuneus 376 556 1362 3.115 1.020 0.253 0.065 8 1.3 entorhinal 3247 3103 7484 2.637 0.651 0.164 0.043 73 5.8 fusiform 5240 4216 8686 2.216 0.595 0.138 0.032 81 6.7 inferiorparietal 3561 3793 8986 2.628 0.745 0.168 0.042 70 5.5 inferiortemporal 1152 897 1985 2.396 0.770 0.162 0.056 47 2.3 isthmuscingulate 5724 4671 8605 2.010 0.583 0.137 0.031 87 7.6 lateraloccipital 2632 2304 5358 2.497 0.652 0.173 0.049 54 5.5 lateralorbitofrontal 3700 3262 5547 1.911 0.515 0.158 0.040 69 5.9 lingual 1862 1923 4433 2.746 0.803 0.193 0.050 50 4.1 medialorbitofrontal 4074 3475 8051 2.548 0.690 0.133 0.029 57 4.6 middletemporal 876 741 1656 2.550 0.958 0.142 0.037 10 1.4 parahippocampal 1924 1323 2918 2.342 0.625 0.104 0.021 21 1.7 paracentral 1542 1206 2644 2.413 0.494 0.115 0.022 17 1.4 parsopercularis 846 901 1927 2.617 0.494 0.169 0.033 11 1.2 parsorbitalis 1756 1357 2524 2.087 0.528 0.126 0.030 19 1.8 parstriangularis 2152 1384 2227 1.639 0.409 0.120 0.026 33 2.3 pericalcarine 4947 3644 6098 1.855 0.613 0.106 0.019 34 3.7 postcentral 1111 966 2237 2.548 0.612 0.162 0.050 31 1.9 posteriorcingulate 6560 4283 9807 2.420 0.540 0.096 0.018 63 4.8 precentral 4699 3552 7616 2.233 0.632 0.130 0.030 74 5.4 precuneus 454 463 1073 2.678 0.667 0.167 0.039 9 0.7 rostralanteriorcingulate 5999 4534 8995 2.129 0.562 0.136 0.031 87 7.6 rostralmiddlefrontal 8314 6734 16236 2.641 0.580 0.126 0.027 91 8.4 superiorfrontal 6717 4964 9197 2.005 0.585 0.123 0.026 138 6.8 superiorparietal 4759 3690 8519 2.569 0.673 0.119 0.028 85 5.7 superiortemporal 3786 2765 6154 2.369 0.559 0.122 0.028 71 4.2 supramarginal 352 431 928 2.753 0.444 0.181 0.026 3 0.4 frontalpole 432 1023 2655 3.497 0.949 0.355 0.061 7 1.4 temporalpole 438 305 665 2.439 0.418 0.093 0.024 2 0.4 transversetemporal 2606 1682 5039 2.882 0.740 0.129 0.041 47 3.9 insula @#@FSTIME 2023:09:13:15:31:16 mris_anatomical_stats N 14 e 6.99 S 0.20 U 6.79 P 99% M 384188 F 0 R 104862 W 0 c 40 w 1 I 0 O 24 L 4.20 4.10 4.10 @#@FSLOADPOST 2023:09:13:15:31:23 mris_anatomical_stats N 14 4.17 4.09 4.10 #----------------------------------------- #@# Parcellation Stats 2 lh Wed Sep 13 15:31:23 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh white computing statistics for each annotation in ../label/lh.aparc.a2009s.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 896 689 1786 2.356 0.659 0.156 0.038 11 1.5 G_and_S_frontomargin 1131 812 2049 2.222 0.573 0.146 0.039 14 1.7 G_and_S_occipital_inf 1283 753 2429 2.516 0.619 0.097 0.021 8 1.1 G_and_S_paracentral 1190 746 2330 2.692 0.649 0.114 0.027 12 1.3 G_and_S_subcentral 582 447 1499 2.760 0.538 0.160 0.043 11 1.0 G_and_S_transv_frontopol 1507 1141 3187 2.818 0.828 0.144 0.031 22 2.5 G_and_S_cingul-Ant 991 740 1844 2.508 0.485 0.124 0.024 14 1.0 G_and_S_cingul-Mid-Ant 999 698 1654 2.328 0.547 0.135 0.025 11 1.1 G_and_S_cingul-Mid-Post 495 358 1243 2.648 0.622 0.138 0.034 7 0.6 G_cingul-Post-dorsal 338 236 646 2.329 0.788 0.117 0.029 3 0.5 G_cingul-Post-ventral 1966 1412 2965 1.861 0.532 0.153 0.036 29 2.9 G_cuneus 905 565 1700 2.396 0.447 0.110 0.024 11 0.8 G_front_inf-Opercular 354 223 783 2.594 0.501 0.118 0.030 4 0.4 G_front_inf-Orbital 1105 607 1747 2.372 0.538 0.117 0.032 13 1.3 G_front_inf-Triangul 3422 1971 5597 2.349 0.625 0.116 0.029 41 4.1 G_front_middle 4932 3161 11534 2.885 0.581 0.115 0.026 52 5.1 G_front_sup 536 344 1077 3.008 0.725 0.140 0.057 8 1.4 G_Ins_lg_and_S_cent_ins 517 337 1857 3.689 0.819 0.129 0.039 6 0.8 G_insular_short 1267 880 3039 2.550 0.590 0.147 0.030 18 1.5 G_occipital_middle 1199 831 2142 2.279 0.554 0.138 0.037 15 1.6 G_occipital_sup 1385 1143 3711 2.636 0.657 0.165 0.045 26 2.5 G_oc-temp_lat-fusifor 2362 1828 4145 1.892 0.610 0.159 0.039 39 4.0 G_oc-temp_med-Lingual 1027 745 3120 3.031 0.919 0.137 0.041 14 1.7 G_oc-temp_med-Parahip 1565 1282 4443 2.800 0.590 0.179 0.051 32 3.7 G_orbital 1550 1100 3836 2.613 0.658 0.134 0.033 25 1.8 G_pariet_inf-Angular 1590 1022 3434 2.697 0.515 0.119 0.028 19 1.5 G_pariet_inf-Supramar 2525 1667 4351 2.155 0.593 0.131 0.035 34 3.4 G_parietal_sup 2535 1403 3044 1.904 0.528 0.114 0.024 26 2.5 G_postcentral 2594 1235 4470 2.743 0.525 0.086 0.023 23 2.2 G_precentral 1855 1413 4722 2.505 0.662 0.134 0.032 27 2.3 G_precuneus 564 496 1830 2.832 0.686 0.173 0.044 17 1.1 G_rectus 628 418 811 2.187 0.910 0.176 0.076 13 2.0 G_subcallosal 543 333 856 2.186 0.458 0.142 0.034 8 0.7 G_temp_sup-G_T_transv 1735 1093 4480 2.975 0.572 0.122 0.029 25 1.8 G_temp_sup-Lateral 495 365 1507 3.148 0.789 0.084 0.019 2 0.4 G_temp_sup-Plan_polar 649 414 1157 2.454 0.476 0.089 0.017 5 0.4 G_temp_sup-Plan_tempo 1749 1273 5022 2.920 0.688 0.131 0.032 24 2.1 G_temporal_inf 1626 1136 4247 2.728 0.856 0.133 0.031 21 1.9 G_temporal_middle 248 168 294 1.810 0.409 0.125 0.022 2 0.2 Lat_Fis-ant-Horizont 239 172 296 1.827 0.413 0.093 0.009 1 0.1 Lat_Fis-ant-Vertical 828 527 875 2.074 0.403 0.108 0.020 5 0.8 Lat_Fis-post 1622 1159 2512 1.874 0.573 0.144 0.036 18 2.6 Pole_occipital 1029 1043 5044 3.039 0.995 0.198 0.056 24 2.7 Pole_temporal 2396 1592 2518 1.722 0.452 0.119 0.026 22 2.7 S_calcarine 3187 2051 3423 1.881 0.671 0.091 0.017 14 2.4 S_central 860 579 1084 2.113 0.454 0.093 0.015 4 0.6 S_cingul-Marginalis 339 221 587 3.038 0.788 0.099 0.023 2 0.3 S_circular_insula_ant 1385 884 1742 2.387 0.656 0.097 0.021 9 1.2 S_circular_insula_inf 1298 845 1680 2.378 0.433 0.099 0.021 6 1.1 S_circular_insula_sup 632 466 1308 2.691 0.693 0.134 0.034 7 0.8 S_collat_transv_ant 452 313 594 1.911 0.484 0.135 0.035 4 0.6 S_collat_transv_post 2042 1308 2266 1.944 0.451 0.091 0.015 10 1.3 S_front_inf 1254 836 1664 2.011 0.513 0.127 0.028 13 1.4 S_front_middle 2518 1638 3693 2.363 0.512 0.099 0.019 15 1.9 S_front_sup 190 137 273 2.332 0.474 0.127 0.016 1 0.2 S_interm_prim-Jensen 2133 1404 2619 2.146 0.518 0.116 0.023 15 2.1 S_intrapariet_and_P_trans 670 482 972 2.037 0.521 0.148 0.030 9 0.9 S_oc_middle_and_Lunatus 1150 750 1391 1.986 0.354 0.109 0.020 8 1.0 S_oc_sup_and_transversal 540 370 653 2.082 0.409 0.124 0.022 4 0.5 S_occipital_ant 915 629 1226 2.290 0.443 0.117 0.024 6 1.0 S_oc-temp_lat 1579 1045 1961 2.217 0.590 0.115 0.023 10 1.5 S_oc-temp_med_and_Lingual 196 142 256 2.234 0.490 0.122 0.036 1 0.2 S_orbital_lateral 434 318 817 2.714 0.585 0.138 0.024 4 0.5 S_orbital_med-olfact 909 667 1455 2.245 0.541 0.141 0.029 10 1.2 S_orbital-H_Shaped 2121 1447 2670 1.942 0.459 0.117 0.025 17 2.2 S_parieto_occipital 994 608 984 2.047 0.830 0.117 0.029 15 1.3 S_pericallosal 2321 1456 2688 2.036 0.582 0.095 0.018 13 1.8 S_postcentral 1265 840 1817 2.328 0.477 0.097 0.019 6 1.0 S_precentral-inf-part 1267 807 1771 2.515 0.501 0.089 0.014 5 0.9 S_precentral-sup-part 444 332 858 2.793 1.035 0.143 0.024 5 0.6 S_suborbital 818 572 1140 2.140 0.622 0.120 0.026 5 0.8 S_subparietal 1213 844 1951 2.489 0.559 0.121 0.020 10 1.1 S_temporal_inf 4308 2808 5789 2.249 0.538 0.090 0.015 21 2.6 S_temporal_sup 275 193 315 1.974 0.296 0.131 0.022 3 0.2 S_temporal_transverse @#@FSTIME 2023:09:13:15:31:23 mris_anatomical_stats N 14 e 7.47 S 0.13 U 7.34 P 99% M 376088 F 0 R 105324 W 0 c 77 w 1 I 0 O 48 L 4.17 4.09 4.10 @#@FSLOADPOST 2023:09:13:15:31:31 mris_anatomical_stats N 14 4.15 4.09 4.10 #----------------------------------------- #@# Parcellation Stats 2 rh Wed Sep 13 15:31:31 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh white computing statistics for each annotation in ../label/rh.aparc.a2009s.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 615 502 1358 2.570 0.585 0.187 0.045 14 1.3 G_and_S_frontomargin 908 632 1930 2.503 0.726 0.130 0.030 11 1.0 G_and_S_occipital_inf 1272 747 1886 2.153 0.638 0.106 0.024 10 1.3 G_and_S_paracentral 1091 703 1900 2.486 0.540 0.119 0.023 10 1.0 G_and_S_subcentral 760 573 1618 2.355 0.573 0.157 0.034 12 1.1 G_and_S_transv_frontopol 1997 1396 3879 2.594 0.599 0.117 0.024 18 2.0 G_and_S_cingul-Ant 1134 744 1715 2.287 0.479 0.112 0.020 9 1.0 G_and_S_cingul-Mid-Ant 1147 792 1858 2.402 0.459 0.120 0.021 10 1.1 G_and_S_cingul-Mid-Post 423 316 1163 3.056 0.711 0.168 0.040 8 0.7 G_cingul-Post-dorsal 308 225 786 2.714 0.798 0.128 0.023 4 0.3 G_cingul-Post-ventral 2092 1421 2834 1.811 0.449 0.141 0.031 27 2.8 G_cuneus 1040 650 2228 2.635 0.394 0.106 0.026 11 1.0 G_front_inf-Opercular 287 182 611 2.517 0.526 0.121 0.034 3 0.3 G_front_inf-Orbital 907 558 1452 2.140 0.522 0.129 0.035 11 1.3 G_front_inf-Triangul 3010 1721 5181 2.418 0.581 0.120 0.032 40 3.7 G_front_middle 5405 3358 12112 2.855 0.566 0.116 0.027 58 5.7 G_front_sup 467 313 1165 3.413 0.652 0.102 0.026 4 0.4 G_Ins_lg_and_S_cent_ins 507 348 1485 3.244 0.796 0.139 0.042 7 0.8 G_insular_short 1563 1082 3289 2.437 0.570 0.128 0.030 19 1.7 G_occipital_middle 1342 899 1992 1.964 0.531 0.136 0.030 17 1.8 G_occipital_sup 1506 1061 3970 2.779 0.534 0.141 0.033 21 2.0 G_oc-temp_lat-fusifor 2285 1791 3989 1.975 0.549 0.173 0.045 39 4.4 G_oc-temp_med-Lingual 993 690 3051 3.003 1.025 0.129 0.041 12 1.6 G_oc-temp_med-Parahip 1884 1407 5115 2.776 0.605 0.160 0.048 36 3.6 G_orbital 2203 1498 4388 2.375 0.612 0.140 0.036 34 3.0 G_pariet_inf-Angular 1610 1033 3054 2.485 0.562 0.115 0.026 16 1.8 G_pariet_inf-Supramar 2255 1402 3878 2.223 0.627 0.127 0.032 28 2.9 G_parietal_sup 1698 1006 2262 1.871 0.569 0.109 0.020 16 1.5 G_postcentral 2332 1225 4075 2.604 0.472 0.089 0.021 18 1.9 G_precentral 1848 1241 3948 2.490 0.680 0.119 0.026 23 1.9 G_precuneus 549 460 1745 2.949 0.733 0.150 0.042 11 1.2 G_rectus 328 203 500 2.261 0.875 0.120 0.050 4 0.6 G_subcallosal 387 210 582 2.359 0.344 0.106 0.030 3 0.4 G_temp_sup-G_T_transv 1584 912 3606 2.872 0.695 0.105 0.023 16 1.5 G_temp_sup-Lateral 687 463 1660 3.061 0.801 0.105 0.031 5 1.0 G_temp_sup-Plan_polar 745 464 1176 2.253 0.618 0.095 0.021 5 0.6 G_temp_sup-Plan_tempo 2176 1702 6351 2.709 0.818 0.142 0.036 32 3.2 G_temporal_inf 2153 1365 4839 2.694 0.690 0.111 0.028 23 2.1 G_temporal_middle 221 144 291 2.337 0.419 0.099 0.015 1 0.1 Lat_Fis-ant-Horizont 206 143 203 1.541 0.387 0.104 0.012 1 0.1 Lat_Fis-ant-Vertical 1210 767 1501 2.362 0.512 0.098 0.020 5 1.0 Lat_Fis-post 2944 2091 3656 1.692 0.411 0.156 0.037 44 4.8 Pole_occipital 1195 1133 5694 3.127 0.902 0.180 0.052 28 2.6 Pole_temporal 2305 1582 2462 1.711 0.415 0.119 0.025 20 2.5 S_calcarine 2935 1916 3222 1.943 0.671 0.091 0.016 13 2.2 S_central 1144 766 1442 2.063 0.403 0.103 0.017 7 0.9 S_cingul-Marginalis 445 295 605 2.529 0.506 0.111 0.022 2 0.4 S_circular_insula_ant 1223 789 1732 2.563 0.625 0.082 0.019 6 0.9 S_circular_insula_inf 991 652 1310 2.381 0.432 0.097 0.019 4 0.8 S_circular_insula_sup 657 482 1114 2.456 0.569 0.116 0.023 5 0.7 S_collat_transv_ant 213 146 235 2.138 0.309 0.133 0.022 2 0.2 S_collat_transv_post 1873 1214 2084 1.852 0.480 0.107 0.022 12 1.8 S_front_inf 1603 1054 2200 2.087 0.455 0.114 0.025 13 1.6 S_front_middle 2197 1460 3242 2.271 0.453 0.095 0.018 12 1.8 S_front_sup 216 150 251 2.258 0.609 0.128 0.023 2 0.2 S_interm_prim-Jensen 2528 1655 2876 1.894 0.474 0.117 0.024 21 2.5 S_intrapariet_and_P_trans 696 466 711 1.692 0.369 0.123 0.020 6 0.7 S_oc_middle_and_Lunatus 1120 723 1237 1.916 0.424 0.107 0.019 7 0.9 S_oc_sup_and_transversal 802 512 841 2.028 0.413 0.110 0.020 5 0.7 S_occipital_ant 905 632 1233 2.343 0.425 0.118 0.023 7 0.8 S_oc-temp_lat 1376 925 1781 2.281 0.526 0.099 0.018 6 1.1 S_oc-temp_med_and_Lingual 354 248 460 2.037 0.478 0.131 0.025 3 0.4 S_orbital_lateral 461 370 795 2.138 0.551 0.144 0.038 4 0.6 S_orbital_med-olfact 867 604 1379 2.242 0.586 0.113 0.023 7 0.8 S_orbital-H_Shaped 2484 1610 2878 1.949 0.462 0.108 0.021 17 2.2 S_parieto_occipital 733 484 832 2.311 0.587 0.163 0.050 20 1.1 S_pericallosal 1952 1241 2160 1.954 0.531 0.099 0.018 12 1.4 S_postcentral 1380 897 1709 2.112 0.485 0.105 0.018 8 1.1 S_precentral-inf-part 1263 807 1635 2.401 0.446 0.089 0.016 5 0.9 S_precentral-sup-part 247 167 485 2.863 0.830 0.122 0.017 2 0.2 S_suborbital 736 506 1273 2.346 0.749 0.118 0.022 7 0.7 S_subparietal 1059 711 1352 2.251 0.569 0.119 0.017 8 0.9 S_temporal_inf 4632 3051 6462 2.297 0.528 0.094 0.016 23 3.2 S_temporal_sup 194 136 271 2.090 0.309 0.134 0.020 2 0.2 S_temporal_transverse @#@FSTIME 2023:09:13:15:31:31 mris_anatomical_stats N 14 e 7.61 S 0.15 U 7.44 P 99% M 384188 F 0 R 104864 W 0 c 208 w 1 I 0 O 40 L 4.15 4.09 4.10 @#@FSLOADPOST 2023:09:13:15:31:38 mris_anatomical_stats N 14 4.13 4.09 4.10 #----------------------------------------- #@# Parcellation Stats 3 lh Wed Sep 13 15:31:38 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii lh white computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 1024 770 2044 2.677 0.547 0.143 0.028 18 1.2 caudalanteriorcingulate 3157 1879 5093 2.526 0.509 0.094 0.019 23 2.4 caudalmiddlefrontal 3001 2120 4293 1.926 0.498 0.142 0.032 36 3.9 cuneus 363 314 1524 3.271 0.930 0.166 0.044 5 0.7 entorhinal 3012 2324 6407 2.515 0.641 0.152 0.039 42 4.8 fusiform 4020 2774 7425 2.381 0.627 0.125 0.027 44 4.2 inferiorparietal 3528 2598 9101 2.742 0.727 0.127 0.029 41 4.2 inferiortemporal 1411 937 2148 2.115 0.696 0.104 0.026 13 1.5 isthmuscingulate 5661 3959 9124 2.080 0.576 0.143 0.034 67 8.0 lateraloccipital 2763 2183 6410 2.662 0.636 0.168 0.045 47 5.8 lateralorbitofrontal 3492 2579 5403 1.889 0.566 0.146 0.035 48 5.0 lingual 1505 1202 3605 2.751 0.824 0.168 0.042 32 2.7 medialorbitofrontal 4372 3041 8763 2.490 0.721 0.117 0.024 43 4.2 middletemporal 913 589 2004 2.783 0.936 0.096 0.023 6 0.8 parahippocampal 1933 1196 3408 2.489 0.566 0.098 0.018 12 1.5 paracentral 1641 1046 2540 2.278 0.459 0.099 0.021 14 1.2 parsopercularis 744 508 1373 2.327 0.662 0.120 0.027 6 0.9 parsorbitalis 2075 1259 2918 2.186 0.575 0.110 0.027 19 2.0 parstriangularis 1937 1291 2093 1.731 0.462 0.126 0.029 21 2.5 pericalcarine 6550 3958 8291 1.940 0.667 0.103 0.020 50 5.7 postcentral 1331 952 2278 2.250 0.653 0.138 0.030 18 1.8 posteriorcingulate 6687 3852 10184 2.515 0.571 0.094 0.022 45 6.0 precentral 4196 3016 7738 2.223 0.639 0.127 0.029 47 4.9 precuneus 1030 780 2274 2.870 1.086 0.168 0.047 21 2.6 rostralanteriorcingulate 4822 3067 6871 2.068 0.554 0.123 0.030 52 5.8 rostralmiddlefrontal 8344 5514 16767 2.663 0.628 0.113 0.024 77 8.1 superiorfrontal 5038 3281 7661 2.149 0.559 0.118 0.028 51 5.6 superiorparietal 5947 4024 12635 2.607 0.710 0.110 0.024 57 5.7 superiortemporal 3336 2161 5785 2.474 0.582 0.113 0.023 31 3.0 supramarginal 563 341 743 2.037 0.400 0.121 0.030 6 0.6 transversetemporal 2267 1455 4579 2.947 0.870 0.117 0.034 21 3.2 insula @#@FSTIME 2023:09:13:15:31:38 mris_anatomical_stats N 14 e 6.57 S 0.20 U 6.37 P 99% M 375996 F 0 R 105320 W 0 c 25 w 1 I 0 O 24 L 4.13 4.09 4.10 @#@FSLOADPOST 2023:09:13:15:31:45 mris_anatomical_stats N 14 4.12 4.09 4.10 #----------------------------------------- #@# Parcellation Stats 3 rh Wed Sep 13 15:31:45 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 ED751_SAG_MPRAGE_p2_NON-SSc.nii rh white computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 671 441 1103 2.356 0.526 0.147 0.031 14 0.6 caudalanteriorcingulate 3068 1872 4864 2.395 0.514 0.102 0.021 24 2.5 caudalmiddlefrontal 2812 1907 3753 1.897 0.473 0.137 0.030 32 3.7 cuneus 365 270 1251 3.072 1.013 0.139 0.044 4 0.8 entorhinal 2947 2113 6259 2.621 0.570 0.135 0.030 34 3.8 fusiform 5311 3633 8650 2.199 0.587 0.127 0.027 57 5.9 inferiorparietal 3786 2928 10089 2.633 0.798 0.135 0.032 50 5.2 inferiortemporal 1144 772 1922 2.369 0.765 0.126 0.029 15 1.3 isthmuscingulate 5832 3969 8758 2.011 0.585 0.136 0.031 68 7.5 lateraloccipital 2731 2039 6017 2.586 0.660 0.156 0.042 43 4.9 lateralorbitofrontal 3617 2747 5454 1.922 0.515 0.156 0.040 50 6.3 lingual 1512 1132 3616 2.738 0.778 0.141 0.039 22 2.5 medialorbitofrontal 4932 3277 9491 2.540 0.655 0.108 0.022 42 4.3 middletemporal 917 581 1748 2.543 0.970 0.097 0.024 7 0.7 parahippocampal 2052 1242 3255 2.382 0.644 0.099 0.019 14 1.7 paracentral 1797 1144 2919 2.340 0.536 0.106 0.024 15 1.7 parsopercularis 773 526 1509 2.447 0.496 0.119 0.032 8 1.0 parsorbitalis 1785 1158 2578 2.096 0.514 0.123 0.029 18 2.1 parstriangularis 2101 1424 2166 1.641 0.411 0.125 0.024 24 2.1 pericalcarine 5495 3393 6823 1.897 0.625 0.102 0.019 41 4.6 postcentral 1250 941 2617 2.596 0.605 0.157 0.036 19 2.0 posteriorcingulate 6302 3769 9504 2.423 0.544 0.095 0.019 39 4.9 precentral 4862 3233 7861 2.184 0.648 0.108 0.021 43 4.2 precuneus 576 425 1352 2.587 0.785 0.138 0.029 9 0.8 rostralanteriorcingulate 4422 2811 6332 2.077 0.563 0.122 0.030 51 5.5 rostralmiddlefrontal 10094 6646 19370 2.589 0.582 0.115 0.026 96 10.4 superiorfrontal 5316 3407 7318 1.997 0.576 0.122 0.027 54 5.8 superiorparietal 5996 3864 12434 2.656 0.713 0.099 0.022 45 5.2 superiortemporal 3558 2304 5852 2.396 0.554 0.111 0.025 31 3.7 supramarginal 433 249 661 2.436 0.410 0.103 0.027 3 0.4 transversetemporal 2408 1607 4713 2.895 0.727 0.113 0.028 20 2.7 insula @#@FSTIME 2023:09:13:15:31:45 mris_anatomical_stats N 14 e 6.62 S 0.20 U 6.42 P 99% M 384060 F 0 R 104861 W 0 c 19 w 1 I 0 O 24 L 4.12 4.09 4.10 @#@FSLOADPOST 2023:09:13:15:31:52 mris_anatomical_stats N 14 4.11 4.09 4.10 #-------------------------------------------- #@# ASeg Stats Wed Sep 13 15:31:52 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /usr/local/freesurfer/7.4.1/ASegStatsLUT.txt --subject ED751_SAG_MPRAGE_p2_NON-SSc.nii setting seed for random number genererator to 1234 7.4.1 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 /usr/local/freesurfer/7.4.1/ASegStatsLUT.txt --subject ED751_SAG_MPRAGE_p2_NON-SSc.nii sysname Linux hostname mtubuntu machine x86_64 user mt whitesurfname white UseRobust 0 atlas_icv (eTIV) = 1243302 mm^3 (det: 1.566880 ) Computing euler number orig.nofix lheno = -16, rheno = -6 orig.nofix lhholes = 9, rhholes = 4 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 2023:09:13:15:31:52 mri_segstats N 32 e 170.94 S 0.68 U 170.21 P 99% M 272868 F 0 R 742282 W 0 c 667 w 1 I 0 O 32 L 4.11 4.09 4.10 @#@FSLOADPOST 2023:09:13:15:34:43 mri_segstats N 32 4.05 4.08 4.09 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label #-------------------------------------------- #@# BA_exvivo Labels lh Wed Sep 13 15:34:43 +08 2023 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA1_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA1_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA1_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 4129 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 132 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.label 4261 mri_label2label: Done @#@FSTIME 2023:09:13:15:34:43 mri_label2label N 12 e 4.75 S 0.20 U 4.44 P 97% M 487484 F 0 R 139895 W 0 c 19 w 36 I 5766 O 272 L 4.05 4.08 4.09 @#@FSLOADPOST 2023:09:13:15:34:47 mri_label2label N 12 4.04 4.08 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA2_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA2_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA2_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 7909 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 175 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.label 8084 mri_label2label: Done @#@FSTIME 2023:09:13:15:34:47 mri_label2label N 12 e 5.09 S 0.23 U 4.85 P 99% M 487864 F 0 R 139962 W 0 c 19 w 3 I 563 O 424 L 4.04 4.08 4.09 @#@FSLOADPOST 2023:09:13:15:34:52 mri_label2label N 12 4.04 4.07 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA3a_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA3a_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 4077 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 50 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.label 4127 mri_label2label: Done @#@FSTIME 2023:09:13:15:34:53 mri_label2label N 12 e 4.68 S 0.28 U 4.39 P 99% M 487508 F 0 R 139895 W 0 c 13 w 3 I 296 O 232 L 4.04 4.07 4.09 @#@FSLOADPOST 2023:09:13:15:34:57 mri_label2label N 12 4.03 4.07 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA3b_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA3b_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 5983 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 66 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.label 6049 mri_label2label: Done @#@FSTIME 2023:09:13:15:34:57 mri_label2label N 12 e 4.79 S 0.21 U 4.55 P 99% M 487324 F 0 R 139927 W 0 c 39 w 4 I 388 O 336 L 4.03 4.07 4.08 @#@FSLOADPOST 2023:09:13:15:35:02 mri_label2label N 12 4.03 4.07 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA4a_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 5784 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 93 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.label 5877 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:02 mri_label2label N 12 e 5.04 S 0.21 U 4.79 P 99% M 487360 F 0 R 139924 W 0 c 27 w 8 I 381 O 312 L 4.03 4.07 4.08 @#@FSLOADPOST 2023:09:13:15:35:07 mri_label2label N 12 4.03 4.07 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA4p_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA4p_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 4070 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 81 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.label 4151 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:07 mri_label2label N 12 e 4.64 S 0.20 U 4.41 P 99% M 487476 F 0 R 139892 W 0 c 14 w 5 I 271 O 256 L 4.03 4.07 4.08 @#@FSLOADPOST 2023:09:13:15:35:12 mri_label2label N 12 4.03 4.07 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA6_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA6_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA6_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 13589 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 207 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.label 13796 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:12 mri_label2label N 12 e 6.66 S 0.22 U 6.43 P 99% M 488192 F 0 R 140063 W 0 c 28 w 5 I 885 O 744 L 4.03 4.07 4.08 @#@FSLOADPOST 2023:09:13:15:35:18 mri_label2label N 12 4.02 4.07 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA44_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA44_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA44_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 4181 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 53 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.label 4234 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:18 mri_label2label N 12 e 4.46 S 0.23 U 4.22 P 99% M 487484 F 0 R 139897 W 0 c 45 w 4 I 264 O 216 L 4.02 4.07 4.08 @#@FSLOADPOST 2023:09:13:15:35:23 mri_label2label N 12 4.02 4.07 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA45_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA45_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 3422 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 284 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.label 3706 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:23 mri_label2label N 12 e 4.59 S 0.25 U 4.34 P 99% M 487232 F 0 R 139886 W 0 c 25 w 3 I 252 O 256 L 4.02 4.07 4.08 @#@FSLOADPOST 2023:09:13:15:35:28 mri_label2label N 12 4.02 4.06 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.V1_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.V1_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.V1_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 4641 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 665 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.label 5306 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:28 mri_label2label N 12 e 4.58 S 0.25 U 4.31 P 99% M 487404 F 0 R 139908 W 0 c 31 w 5 I 352 O 400 L 4.02 4.06 4.08 @#@FSLOADPOST 2023:09:13:15:35:32 mri_label2label N 12 4.02 4.06 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.V2_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.V2_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.V2_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 8114 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 1282 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.label 9396 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:32 mri_label2label N 12 e 5.55 S 0.23 U 5.31 P 99% M 487876 F 0 R 139976 W 0 c 22 w 3 I 580 O 688 L 4.02 4.06 4.08 @#@FSLOADPOST 2023:09:13:15:35:38 mri_label2label N 12 4.02 4.06 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.MT_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.MT_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.MT_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 2018 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 55 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.label 2073 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:38 mri_label2label N 12 e 4.52 S 0.22 U 4.29 P 99% M 487208 F 0 R 135646 W 0 c 30 w 3 I 111 O 136 L 4.02 4.06 4.08 @#@FSLOADPOST 2023:09:13:15:35:42 mri_label2label N 12 4.02 4.06 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.entorhinal_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.entorhinal_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1290 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 18 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.label 1308 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:42 mri_label2label N 12 e 4.11 S 0.23 U 3.72 P 96% M 487252 F 0 R 139844 W 0 c 36 w 3 I 49 O 72 L 4.02 4.06 4.08 @#@FSLOADPOST 2023:09:13:15:35:46 mri_label2label N 12 4.02 4.06 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.perirhinal_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1199 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 14 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.label 1213 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:46 mri_label2label N 12 e 4.29 S 0.24 U 3.97 P 98% M 487368 F 0 R 139840 W 0 c 21 w 3 I 92 O 64 L 4.02 4.06 4.08 @#@FSLOADPOST 2023:09:13:15:35:51 mri_label2label N 12 4.01 4.06 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.FG1.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.FG1.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.FG1.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 414 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 17 Checking for and removing duplicates Writing label file ./lh.FG1.mpm.vpnl.label 431 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:51 mri_label2label N 12 e 4.02 S 0.25 U 3.73 P 99% M 487084 F 0 R 139825 W 0 c 26 w 3 I 40 O 32 L 4.01 4.06 4.08 @#@FSLOADPOST 2023:09:13:15:35:55 mri_label2label N 12 4.01 4.06 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.FG2.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.FG2.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.FG2.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 703 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 55 Checking for and removing duplicates Writing label file ./lh.FG2.mpm.vpnl.label 758 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:55 mri_label2label N 12 e 4.16 S 0.25 U 3.90 P 99% M 487256 F 0 R 142520 W 0 c 26 w 3 I 67 O 56 L 4.01 4.06 4.08 @#@FSLOADPOST 2023:09:13:15:35:59 mri_label2label N 12 4.01 4.06 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.FG3.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.FG3.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.FG3.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1873 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 17 Checking for and removing duplicates Writing label file ./lh.FG3.mpm.vpnl.label 1890 mri_label2label: Done @#@FSTIME 2023:09:13:15:35:59 mri_label2label N 12 e 4.26 S 0.26 U 3.98 P 99% M 487140 F 0 R 139850 W 0 c 99 w 6 I 144 O 104 L 4.01 4.06 4.08 @#@FSLOADPOST 2023:09:13:15:36:03 mri_label2label N 12 4.01 4.06 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.FG4.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.FG4.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.FG4.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 2101 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 147 Checking for and removing duplicates Writing label file ./lh.FG4.mpm.vpnl.label 2248 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:03 mri_label2label N 12 e 4.00 S 0.19 U 3.80 P 99% M 487276 F 0 R 139855 W 0 c 25 w 3 I 167 O 152 L 4.01 4.06 4.08 @#@FSLOADPOST 2023:09:13:15:36:07 mri_label2label N 12 4.01 4.05 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.hOc1.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.hOc1.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.hOc1.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 3877 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 548 Checking for and removing duplicates Writing label file ./lh.hOc1.mpm.vpnl.label 4425 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:07 mri_label2label N 12 e 4.38 S 0.22 U 4.15 P 99% M 487600 F 0 R 135685 W 0 c 28 w 3 I 225 O 344 L 4.01 4.05 4.08 @#@FSLOADPOST 2023:09:13:15:36:12 mri_label2label N 12 4.01 4.05 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.hOc2.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.hOc2.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.hOc2.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 2919 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 576 Checking for and removing duplicates Writing label file ./lh.hOc2.mpm.vpnl.label 3495 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:12 mri_label2label N 12 e 4.23 S 0.22 U 3.95 P 98% M 487192 F 0 R 139880 W 0 c 113 w 4 I 144 O 280 L 4.01 4.05 4.08 @#@FSLOADPOST 2023:09:13:15:36:16 mri_label2label N 12 4.49 4.15 4.11 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.hOc3v.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.hOc3v.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.hOc3v.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1286 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 229 Checking for and removing duplicates Writing label file ./lh.hOc3v.mpm.vpnl.label 1515 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:16 mri_label2label N 12 e 4.03 S 0.23 U 3.80 P 99% M 487160 F 0 R 139844 W 0 c 34 w 3 I 57 O 120 L 4.49 4.15 4.11 @#@FSLOADPOST 2023:09:13:15:36:20 mri_label2label N 12 4.45 4.15 4.11 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.hOc4v.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.hOc4v.mpm.vpnl.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.hOc4v.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1006 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 122 Checking for and removing duplicates Writing label file ./lh.hOc4v.mpm.vpnl.label 1128 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:20 mri_label2label N 12 e 3.91 S 0.22 U 3.68 P 99% M 487364 F 0 R 139839 W 0 c 25 w 3 I 64 O 88 L 4.45 4.15 4.11 @#@FSLOADPOST 2023:09:13:15:36:24 mri_label2label N 12 4.41 4.15 4.11 mris_label2annot --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --ctab /usr/local/freesurfer/7.4.1/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 Reading ctab /usr/local/freesurfer/7.4.1/average/colortable_vpnl.txt Number of ctab entries 9 7.4.1 cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label cmdline mris_label2annot --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --ctab /usr/local/freesurfer/7.4.1/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 mtubuntu machine x86_64 user mt subject ED751_SAG_MPRAGE_p2_NON-SSc.nii hemi lh SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 ColorTable /usr/local/freesurfer/7.4.1/average/colortable_vpnl.txt AnnotName mpm.vpnl nlables 8 LabelThresh 0 0.000000 Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.orig Index Offset 0 0 reading lh.FG1.mpm.vpnl.label 1 1376057 FG1 1 reading lh.FG2.mpm.vpnl.label 2 16711935 FG2 2 reading lh.FG3.mpm.vpnl.label 3 16711680 FG3 3 reading lh.FG4.mpm.vpnl.label 4 1705837 FG4 4 reading lh.hOc1.mpm.vpnl.label 5 25600 hOc1 5 reading lh.hOc2.mpm.vpnl.label 6 255 hOc2 6 reading lh.hOc3v.mpm.vpnl.label 7 16776960 hOc3v 7 reading lh.hOc4v.mpm.vpnl.label 8 65535 hOc4v Mapping unhit to unknown Found 91528 unhit vertices Writing annot to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.mpm.vpnl.annot @#@FSTIME 2023:09:13:15:36:24 mris_label2annot N 26 e 0.56 S 0.05 U 0.47 P 94% M 122776 F 9 R 33287 W 0 c 6 w 16 I 9233 O 1648 L 4.41 4.15 4.11 @#@FSLOADPOST 2023:09:13:15:36:25 mris_label2annot N 26 4.41 4.15 4.11 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA1_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA1_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1014 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 33 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.thresh.label 1047 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:25 mri_label2label N 12 e 3.87 S 0.22 U 3.65 P 99% M 487388 F 0 R 142524 W 0 c 26 w 3 I 66 O 72 L 4.41 4.15 4.11 @#@FSLOADPOST 2023:09:13:15:36:28 mri_label2label N 12 4.38 4.14 4.11 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA2_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA2_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 2092 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 122 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.thresh.label 2214 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:28 mri_label2label N 12 e 4.15 S 0.24 U 3.90 P 99% M 487320 F 0 R 139857 W 0 c 53 w 3 I 146 O 144 L 4.38 4.14 4.11 @#@FSLOADPOST 2023:09:13:15:36:33 mri_label2label N 12 4.35 4.14 4.11 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA3a_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA3a_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1504 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 9 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.thresh.label 1513 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:33 mri_label2label N 12 e 4.10 S 0.21 U 3.63 P 93% M 487412 F 0 R 139848 W 0 c 25 w 3 I 101 O 88 L 4.35 4.14 4.11 @#@FSLOADPOST 2023:09:13:15:36:37 mri_label2label N 12 4.35 4.14 4.11 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA3b_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA3b_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1996 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 23 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.thresh.label 2019 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:37 mri_label2label N 12 e 4.09 S 0.22 U 3.86 P 99% M 487272 F 0 R 139855 W 0 c 44 w 4 I 161 O 128 L 4.35 4.14 4.11 @#@FSLOADPOST 2023:09:13:15:36:41 mri_label2label N 12 4.32 4.14 4.11 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA4a_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 2319 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 33 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.thresh.label 2352 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:41 mri_label2label N 12 e 4.03 S 0.20 U 3.82 P 99% M 487196 F 0 R 139861 W 0 c 38 w 3 I 155 O 144 L 4.32 4.14 4.11 @#@FSLOADPOST 2023:09:13:15:36:45 mri_label2label N 12 4.29 4.14 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA4p_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA4p_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1549 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 43 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.thresh.label 1592 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:45 mri_label2label N 12 e 3.93 S 0.21 U 3.72 P 99% M 487388 F 0 R 139851 W 0 c 21 w 3 I 137 O 104 L 4.29 4.14 4.10 @#@FSLOADPOST 2023:09:13:15:36:49 mri_label2label N 12 4.27 4.14 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA6_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA6_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 7035 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 127 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.thresh.label 7162 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:49 mri_label2label N 12 e 5.15 S 0.18 U 4.47 P 90% M 487556 F 0 R 135736 W 0 c 80 w 6 I 545 O 392 L 4.27 4.14 4.10 @#@FSLOADPOST 2023:09:13:15:36:54 mri_label2label N 12 4.25 4.13 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA44_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA44_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1912 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 7 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.thresh.label 1919 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:54 mri_label2label N 12 e 3.87 S 0.19 U 3.67 P 99% M 487400 F 0 R 139853 W 0 c 25 w 3 I 152 O 96 L 4.25 4.13 4.10 @#@FSLOADPOST 2023:09:13:15:36:58 mri_label2label N 12 4.23 4.13 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA45_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1151 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 141 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.thresh.label 1292 mri_label2label: Done @#@FSTIME 2023:09:13:15:36:58 mri_label2label N 12 e 3.81 S 0.20 U 3.59 P 99% M 487316 F 0 R 139843 W 0 c 98 w 4 I 67 O 96 L 4.23 4.13 4.10 @#@FSLOADPOST 2023:09:13:15:37:02 mri_label2label N 12 4.23 4.13 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.V1_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.V1_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 3405 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 478 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.thresh.label 3883 mri_label2label: Done @#@FSTIME 2023:09:13:15:37:02 mri_label2label N 12 e 3.97 S 0.22 U 3.74 P 99% M 487280 F 0 R 139885 W 0 c 40 w 3 I 265 O 296 L 4.23 4.13 4.10 @#@FSLOADPOST 2023:09:13:15:37:06 mri_label2label N 12 4.21 4.13 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.V2_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.V2_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 3334 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 590 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.thresh.label 3924 mri_label2label: Done @#@FSTIME 2023:09:13:15:37:06 mri_label2label N 12 e 4.05 S 0.21 U 3.82 P 99% M 487448 F 0 R 139883 W 0 c 26 w 3 I 277 O 304 L 4.21 4.13 4.10 @#@FSLOADPOST 2023:09:13:15:37:10 mri_label2label N 12 4.19 4.13 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.MT_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.MT_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 513 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 1 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.thresh.label 514 mri_label2label: Done @#@FSTIME 2023:09:13:15:37:10 mri_label2label N 12 e 3.75 S 0.20 U 3.52 P 99% M 487220 F 0 R 139830 W 0 c 34 w 3 I 38 O 32 L 4.19 4.13 4.10 @#@FSLOADPOST 2023:09:13:15:37:14 mri_label2label N 12 4.18 4.12 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.entorhinal_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.entorhinal_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 470 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 5 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.thresh.label 475 mri_label2label: Done @#@FSTIME 2023:09:13:15:37:14 mri_label2label N 12 e 3.69 S 0.21 U 3.48 P 99% M 487072 F 0 R 139830 W 0 c 24 w 2 I 11 O 40 L 4.18 4.12 4.10 @#@FSLOADPOST 2023:09:13:15:37:17 mri_label2label N 12 4.16 4.12 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.perirhinal_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/lh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 450 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 104549 Number of reverse mapping hits = 1 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.thresh.label 451 mri_label2label: Done @#@FSTIME 2023:09:13:15:37:17 mri_label2label N 12 e 3.77 S 0.24 U 3.50 P 99% M 487128 F 0 R 139827 W 0 c 27 w 2 I 16 O 24 L 4.16 4.12 4.10 @#@FSLOADPOST 2023:09:13:15:37:21 mri_label2label N 12 4.16 4.12 4.10 mris_label2annot --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --ctab /usr/local/freesurfer/7.4.1/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 Reading ctab /usr/local/freesurfer/7.4.1/average/colortable_BA.txt Number of ctab entries 15 7.4.1 cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label cmdline mris_label2annot --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --ctab /usr/local/freesurfer/7.4.1/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 mtubuntu machine x86_64 user mt subject ED751_SAG_MPRAGE_p2_NON-SSc.nii hemi lh SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 ColorTable /usr/local/freesurfer/7.4.1/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.orig Index Offset 0 0 reading lh.BA1_exvivo.label 1 1530880 BA1_exvivo 1 reading lh.BA2_exvivo.label 2 16749699 BA2_exvivo 2 reading lh.BA3a_exvivo.label 3 16711680 BA3a_exvivo 3 reading lh.BA3b_exvivo.label 4 3368703 BA3b_exvivo 4 reading lh.BA4a_exvivo.label 5 1376196 BA4a_exvivo 5 reading lh.BA4p_exvivo.label 6 13382655 BA4p_exvivo 6 reading lh.BA6_exvivo.label 7 10036737 BA6_exvivo 7 reading lh.BA44_exvivo.label 8 2490521 BA44_exvivo 8 reading lh.BA45_exvivo.label 9 39283 BA45_exvivo 9 reading lh.V1_exvivo.label 10 3993 V1_exvivo 10 reading lh.V2_exvivo.label 11 8508928 V2_exvivo 11 reading lh.MT_exvivo.label 12 10027163 MT_exvivo 12 reading lh.perirhinal_exvivo.label 13 16422433 perirhinal_exvivo 13 reading lh.entorhinal_exvivo.label 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 69570 unhit vertices Writing annot to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.BA_exvivo.annot @#@FSTIME 2023:09:13:15:37:21 mris_label2annot N 38 e 0.59 S 0.07 U 0.51 P 99% M 123296 F 0 R 33455 W 0 c 40 w 2 I 8 O 1640 L 4.16 4.12 4.10 @#@FSLOADPOST 2023:09:13:15:37:22 mris_label2annot N 38 4.16 4.12 4.10 mris_label2annot --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --ctab /usr/local/freesurfer/7.4.1/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 Reading ctab /usr/local/freesurfer/7.4.1/average/colortable_BA.txt Number of ctab entries 15 7.4.1 cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label cmdline mris_label2annot --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --ctab /usr/local/freesurfer/7.4.1/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 mtubuntu machine x86_64 user mt subject ED751_SAG_MPRAGE_p2_NON-SSc.nii hemi lh SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 ColorTable /usr/local/freesurfer/7.4.1/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.orig Index Offset 0 0 reading lh.BA1_exvivo.thresh.label 1 1530880 BA1_exvivo 1 reading lh.BA2_exvivo.thresh.label 2 16749699 BA2_exvivo 2 reading lh.BA3a_exvivo.thresh.label 3 16711680 BA3a_exvivo 3 reading lh.BA3b_exvivo.thresh.label 4 3368703 BA3b_exvivo 4 reading lh.BA4a_exvivo.thresh.label 5 1376196 BA4a_exvivo 5 reading lh.BA4p_exvivo.thresh.label 6 13382655 BA4p_exvivo 6 reading lh.BA6_exvivo.thresh.label 7 10036737 BA6_exvivo 7 reading lh.BA44_exvivo.thresh.label 8 2490521 BA44_exvivo 8 reading lh.BA45_exvivo.thresh.label 9 39283 BA45_exvivo 9 reading lh.V1_exvivo.thresh.label 10 3993 V1_exvivo 10 reading lh.V2_exvivo.thresh.label 11 8508928 V2_exvivo 11 reading lh.MT_exvivo.thresh.label 12 10027163 MT_exvivo 12 reading lh.perirhinal_exvivo.thresh.label 13 16422433 perirhinal_exvivo 13 reading lh.entorhinal_exvivo.thresh.label 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 82921 unhit vertices Writing annot to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/lh.BA_exvivo.thresh.annot @#@FSTIME 2023:09:13:15:37:22 mris_label2annot N 38 e 0.55 S 0.07 U 0.48 P 100% M 123092 F 0 R 32905 W 0 c 6 w 1 I 0 O 1640 L 4.16 4.12 4.10 @#@FSLOADPOST 2023:09:13:15:37:22 mris_label2annot N 38 4.15 4.12 4.10 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.stats -b -a ./lh.BA_exvivo.annot -c ./BA_exvivo.ctab ED751_SAG_MPRAGE_p2_NON-SSc.nii lh white computing statistics for each annotation in ./lh.BA_exvivo.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 1102 637 1427 1.897 0.459 0.115 0.025 9 1.2 BA1_exvivo 3331 1958 4268 2.121 0.588 0.097 0.019 26 2.6 BA2_exvivo 1043 690 870 1.590 0.354 0.123 0.025 8 1.1 BA3a_exvivo 2139 1357 2624 1.663 0.624 0.103 0.020 16 1.8 BA3b_exvivo 1375 726 2319 2.684 0.491 0.075 0.015 6 0.8 BA4a_exvivo 1357 786 2085 2.689 0.538 0.080 0.018 6 0.9 BA4p_exvivo 7830 4642 14491 2.694 0.566 0.099 0.021 61 6.7 BA6_exvivo 1743 1130 2836 2.334 0.435 0.106 0.022 16 1.5 BA44_exvivo 2630 1595 3590 2.087 0.548 0.106 0.025 24 2.6 BA45_exvivo 3219 2228 4310 1.815 0.564 0.130 0.032 36 4.3 V1_exvivo 6798 4923 10144 1.903 0.541 0.154 0.036 96 10.5 V2_exvivo 1441 969 2306 2.173 0.526 0.126 0.025 15 1.4 MT_exvivo 483 412 1775 3.045 0.901 0.175 0.052 10 1.1 perirhinal_exvivo 488 368 1854 3.365 1.086 0.123 0.031 4 0.6 entorhinal_exvivo @#@FSTIME 2023:09:13:15:37:22 mris_anatomical_stats N 12 e 3.70 S 0.18 U 3.51 P 99% M 372700 F 0 R 101788 W 0 c 29 w 1 I 0 O 32 L 4.15 4.12 4.10 @#@FSLOADPOST 2023:09:13:15:37:26 mris_anatomical_stats N 12 4.15 4.12 4.10 mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab ED751_SAG_MPRAGE_p2_NON-SSc.nii lh white computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 171742 Total vertex volume 171482 (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) = 1243302 mm^3 (det: 1.566880 ) 759 425 920 1.824 0.449 0.132 0.031 8 1.0 BA1_exvivo 1617 900 1999 2.068 0.559 0.098 0.020 14 1.3 BA2_exvivo 904 598 735 1.584 0.330 0.120 0.025 7 1.0 BA3a_exvivo 1394 908 1336 1.401 0.307 0.091 0.015 7 1.0 BA3b_exvivo 1367 723 2301 2.735 0.450 0.065 0.012 5 0.7 BA4a_exvivo 1148 669 1756 2.696 0.573 0.087 0.021 6 0.9 BA4p_exvivo 4610 2635 8275 2.695 0.574 0.099 0.023 37 4.2 BA6_exvivo 1051 677 1732 2.318 0.450 0.111 0.022 11 0.9 BA44_exvivo 1101 623 1550 2.201 0.518 0.103 0.028 10 1.1 BA45_exvivo 3386 2368 4663 1.815 0.559 0.131 0.032 38 4.7 V1_exvivo 3461 2532 4969 1.844 0.522 0.165 0.038 55 5.8 V2_exvivo 330 238 535 2.247 0.406 0.103 0.029 2 0.2 MT_exvivo 198 184 719 2.914 0.815 0.172 0.040 4 0.4 perirhinal_exvivo 302 231 1222 3.590 0.857 0.108 0.020 2 0.3 entorhinal_exvivo @#@FSTIME 2023:09:13:15:37:26 mris_anatomical_stats N 12 e 3.66 S 0.17 U 3.48 P 99% M 372692 F 0 R 107075 W 0 c 24 w 1 I 0 O 24 L 4.15 4.12 4.10 @#@FSLOADPOST 2023:09:13:15:37:30 mris_anatomical_stats N 12 4.14 4.12 4.10 #-------------------------------------------- #@# BA_exvivo Labels rh Wed Sep 13 15:37:30 +08 2023 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA1_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA1_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA1_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 3962 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 38 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.label 4000 mri_label2label: Done @#@FSTIME 2023:09:13:15:37:30 mri_label2label N 12 e 4.33 S 0.20 U 4.12 P 99% M 492448 F 0 R 144079 W 0 c 34 w 4 I 145 O 208 L 4.14 4.12 4.10 @#@FSLOADPOST 2023:09:13:15:37:34 mri_label2label N 12 4.29 4.15 4.11 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA2_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA2_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA2_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 6687 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 40 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.label 6727 mri_label2label: Done @#@FSTIME 2023:09:13:15:37:34 mri_label2label N 12 e 4.61 S 0.22 U 4.38 P 99% M 492788 F 0 R 144129 W 0 c 24 w 3 I 256 O 320 L 4.29 4.15 4.11 @#@FSLOADPOST 2023:09:13:15:37:39 mri_label2label N 12 4.26 4.14 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA3a_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA3a_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 3980 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 54 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.label 4034 mri_label2label: Done @#@FSTIME 2023:09:13:15:37:39 mri_label2label N 12 e 4.32 S 0.24 U 4.07 P 99% M 492664 F 0 R 144079 W 0 c 40 w 3 I 96 O 208 L 4.26 4.14 4.10 @#@FSLOADPOST 2023:09:13:15:37:43 mri_label2label N 12 4.24 4.14 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA3b_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA3b_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 4522 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 38 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.label 4560 mri_label2label: Done @#@FSTIME 2023:09:13:15:37:43 mri_label2label N 12 e 4.34 S 0.19 U 4.13 P 99% M 492520 F 0 R 144089 W 0 c 24 w 3 I 347 O 256 L 4.24 4.14 4.10 @#@FSLOADPOST 2023:09:13:15:37:47 mri_label2label N 12 4.22 4.14 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA4a_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 5747 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 93 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.label 5840 mri_label2label: Done @#@FSTIME 2023:09:13:15:37:47 mri_label2label N 12 e 4.55 S 0.22 U 4.29 P 99% M 492860 F 0 R 144114 W 0 c 114 w 3 I 374 O 304 L 4.22 4.14 4.10 @#@FSLOADPOST 2023:09:13:15:37:52 mri_label2label N 12 4.20 4.14 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA4p_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA4p_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 4473 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 117 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.label 4590 mri_label2label: Done @#@FSTIME 2023:09:13:15:37:52 mri_label2label N 12 e 4.56 S 0.23 U 4.15 P 96% M 492688 F 0 R 144090 W 0 c 26 w 3 I 295 O 248 L 4.20 4.14 4.10 @#@FSLOADPOST 2023:09:13:15:37:57 mri_label2label N 12 4.20 4.14 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA6_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA6_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA6_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 12256 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 237 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.label 12493 mri_label2label: Done @#@FSTIME 2023:09:13:15:37:57 mri_label2label N 12 e 5.36 S 0.25 U 5.09 P 99% M 493216 F 0 R 144227 W 0 c 69 w 4 I 528 O 680 L 4.20 4.14 4.10 @#@FSLOADPOST 2023:09:13:15:38:02 mri_label2label N 12 4.19 4.13 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA44_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA44_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA44_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 6912 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 122 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.label 7034 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:02 mri_label2label N 12 e 4.64 S 0.19 U 4.44 P 99% M 492900 F 0 R 144134 W 0 c 14 w 4 I 399 O 384 L 4.19 4.13 4.10 @#@FSLOADPOST 2023:09:13:15:38:07 mri_label2label N 12 4.17 4.13 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA45_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA45_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 5355 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 190 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.label 5545 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:07 mri_label2label N 12 e 4.45 S 0.19 U 4.24 P 99% M 492720 F 0 R 144105 W 0 c 149 w 3 I 317 O 352 L 4.17 4.13 4.10 @#@FSLOADPOST 2023:09:13:15:38:11 mri_label2label N 12 4.16 4.13 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.V1_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.V1_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.V1_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 4727 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 831 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.label 5558 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:11 mri_label2label N 12 e 4.43 S 0.21 U 4.19 P 99% M 492564 F 0 R 144099 W 0 c 119 w 4 I 218 O 408 L 4.16 4.13 4.10 @#@FSLOADPOST 2023:09:13:15:38:16 mri_label2label N 12 4.15 4.13 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.V2_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.V2_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.V2_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 8016 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 1221 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.label 9237 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:16 mri_label2label N 12 e 5.27 S 0.22 U 5.05 P 99% M 493068 F 0 R 144164 W 0 c 42 w 3 I 570 O 688 L 4.15 4.13 4.10 @#@FSLOADPOST 2023:09:13:15:38:21 mri_label2label N 12 4.13 4.12 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.MT_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.MT_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.MT_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1932 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 160 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.label 2092 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:21 mri_label2label N 12 e 4.11 S 0.23 U 3.87 P 99% M 492468 F 0 R 141302 W 0 c 31 w 3 I 122 O 144 L 4.13 4.12 4.10 @#@FSLOADPOST 2023:09:13:15:38:25 mri_label2label N 12 4.12 4.12 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.entorhinal_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.entorhinal_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1038 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 27 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.label 1065 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:25 mri_label2label N 12 e 3.98 S 0.21 U 3.74 P 99% M 492532 F 0 R 141288 W 0 c 22 w 3 I 91 O 64 L 4.12 4.12 4.10 @#@FSLOADPOST 2023:09:13:15:38:29 mri_label2label N 12 4.11 4.12 4.10 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.perirhinal_exvivo.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 752 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 5 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.label 757 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:29 mri_label2label N 12 e 3.74 S 0.22 U 3.50 P 99% M 492388 F 0 R 141279 W 0 c 35 w 3 I 42 O 40 L 4.11 4.12 4.10 @#@FSLOADPOST 2023:09:13:15:38:33 mri_label2label N 12 4.10 4.12 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.FG1.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.FG1.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.FG1.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 541 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 46 Checking for and removing duplicates Writing label file ./rh.FG1.mpm.vpnl.label 587 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:33 mri_label2label N 12 e 3.69 S 0.22 U 3.46 P 99% M 492400 F 0 R 141281 W 0 c 37 w 2 I 26 O 48 L 4.10 4.12 4.09 @#@FSLOADPOST 2023:09:13:15:38:36 mri_label2label N 12 4.10 4.12 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.FG2.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.FG2.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.FG2.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 721 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 53 Checking for and removing duplicates Writing label file ./rh.FG2.mpm.vpnl.label 774 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:36 mri_label2label N 12 e 3.79 S 0.20 U 3.58 P 99% M 492296 F 0 R 141279 W 0 c 14 w 3 I 67 O 56 L 4.10 4.12 4.09 @#@FSLOADPOST 2023:09:13:15:38:40 mri_label2label N 12 4.10 4.12 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.FG3.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.FG3.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.FG3.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1523 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 31 Checking for and removing duplicates Writing label file ./rh.FG3.mpm.vpnl.label 1554 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:40 mri_label2label N 12 e 3.94 S 0.22 U 3.72 P 99% M 492544 F 0 R 141295 W 0 c 15 w 2 I 64 O 96 L 4.10 4.12 4.09 @#@FSLOADPOST 2023:09:13:15:38:44 mri_label2label N 12 4.09 4.11 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.FG4.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.FG4.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.FG4.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1586 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 75 Checking for and removing duplicates Writing label file ./rh.FG4.mpm.vpnl.label 1661 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:44 mri_label2label N 12 e 3.96 S 0.24 U 3.72 P 99% M 492420 F 0 R 141293 W 0 c 23 w 3 I 83 O 112 L 4.09 4.11 4.09 @#@FSLOADPOST 2023:09:13:15:38:48 mri_label2label N 12 4.08 4.11 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.hOc1.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.hOc1.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.hOc1.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 3667 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 673 Checking for and removing duplicates Writing label file ./rh.hOc1.mpm.vpnl.label 4340 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:48 mri_label2label N 12 e 4.26 S 0.18 U 4.07 P 99% M 492532 F 0 R 137129 W 0 c 12 w 4 I 134 O 336 L 4.08 4.11 4.09 @#@FSLOADPOST 2023:09:13:15:38:52 mri_label2label N 12 4.07 4.11 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.hOc2.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.hOc2.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.hOc2.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 2719 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 481 Checking for and removing duplicates Writing label file ./rh.hOc2.mpm.vpnl.label 3200 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:53 mri_label2label N 12 e 4.19 S 0.24 U 3.93 P 99% M 492580 F 0 R 141314 W 0 c 30 w 3 I 141 O 240 L 4.07 4.11 4.09 @#@FSLOADPOST 2023:09:13:15:38:57 mri_label2label N 12 4.07 4.11 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.hOc3v.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.hOc3v.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.hOc3v.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1228 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 224 Checking for and removing duplicates Writing label file ./rh.hOc3v.mpm.vpnl.label 1452 mri_label2label: Done @#@FSTIME 2023:09:13:15:38:57 mri_label2label N 12 e 4.00 S 0.25 U 3.74 P 99% M 492188 F 0 R 141290 W 0 c 34 w 4 I 88 O 112 L 4.07 4.11 4.09 @#@FSLOADPOST 2023:09:13:15:39:01 mri_label2label N 12 4.07 4.11 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.hOc4v.mpm.vpnl.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.hOc4v.mpm.vpnl.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.hOc4v.mpm.vpnl.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1025 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 110 Checking for and removing duplicates Writing label file ./rh.hOc4v.mpm.vpnl.label 1135 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:01 mri_label2label N 12 e 4.14 S 0.20 U 3.90 P 99% M 492124 F 0 R 137076 W 0 c 49 w 3 I 94 O 88 L 4.07 4.11 4.09 @#@FSLOADPOST 2023:09:13:15:39:05 mri_label2label N 12 4.06 4.11 4.09 mris_label2annot --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --ctab /usr/local/freesurfer/7.4.1/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 Reading ctab /usr/local/freesurfer/7.4.1/average/colortable_vpnl.txt Number of ctab entries 9 7.4.1 cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label cmdline mris_label2annot --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --ctab /usr/local/freesurfer/7.4.1/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 mtubuntu machine x86_64 user mt subject ED751_SAG_MPRAGE_p2_NON-SSc.nii hemi rh SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 ColorTable /usr/local/freesurfer/7.4.1/average/colortable_vpnl.txt AnnotName mpm.vpnl nlables 8 LabelThresh 0 0.000000 Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.orig Index Offset 0 0 reading rh.FG1.mpm.vpnl.label 1 1376057 FG1 1 reading rh.FG2.mpm.vpnl.label 2 16711935 FG2 2 reading rh.FG3.mpm.vpnl.label 3 16711680 FG3 3 reading rh.FG4.mpm.vpnl.label 4 1705837 FG4 4 reading rh.hOc1.mpm.vpnl.label 5 25600 hOc1 5 reading rh.hOc2.mpm.vpnl.label 6 255 hOc2 6 reading rh.hOc3v.mpm.vpnl.label 7 16776960 hOc3v 7 reading rh.hOc4v.mpm.vpnl.label 8 65535 hOc4v Mapping unhit to unknown Found 94511 unhit vertices Writing annot to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.mpm.vpnl.annot @#@FSTIME 2023:09:13:15:39:05 mris_label2annot N 26 e 0.62 S 0.06 U 0.54 P 98% M 125524 F 0 R 34019 W 0 c 4 w 4 I 7514 O 1672 L 4.06 4.11 4.09 @#@FSLOADPOST 2023:09:13:15:39:06 mris_label2annot N 26 4.06 4.11 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA1_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA1_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 876 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 14 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.thresh.label 890 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:06 mri_label2label N 12 e 4.01 S 0.22 U 3.78 P 99% M 492396 F 0 R 141285 W 0 c 15 w 3 I 40 O 56 L 4.06 4.11 4.09 @#@FSLOADPOST 2023:09:13:15:39:10 mri_label2label N 12 4.06 4.10 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA2_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA2_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 2688 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 8 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.thresh.label 2696 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:10 mri_label2label N 12 e 4.09 S 0.18 U 3.90 P 99% M 492584 F 0 R 141315 W 0 c 13 w 3 I 233 O 128 L 4.06 4.10 4.09 @#@FSLOADPOST 2023:09:13:15:39:14 mri_label2label N 12 4.05 4.10 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA3a_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA3a_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1698 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 11 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.thresh.label 1709 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:14 mri_label2label N 12 e 3.80 S 0.23 U 3.56 P 99% M 492548 F 0 R 141296 W 0 c 48 w 3 I 51 O 88 L 4.05 4.10 4.09 @#@FSLOADPOST 2023:09:13:15:39:18 mri_label2label N 12 4.05 4.10 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA3b_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA3b_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 2183 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 22 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.thresh.label 2205 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:18 mri_label2label N 12 e 3.87 S 0.19 U 3.68 P 99% M 492700 F 0 R 141304 W 0 c 34 w 3 I 88 O 120 L 4.05 4.10 4.09 @#@FSLOADPOST 2023:09:13:15:39:21 mri_label2label N 12 4.05 4.10 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA4a_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1388 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 1 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.thresh.label 1389 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:21 mri_label2label N 12 e 3.85 S 0.23 U 3.58 P 99% M 492536 F 0 R 141292 W 0 c 19 w 3 I 96 O 88 L 4.05 4.10 4.09 @#@FSLOADPOST 2023:09:13:15:39:25 mri_label2label N 12 4.04 4.10 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA4p_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA4p_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1489 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 66 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.thresh.label 1555 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:25 mri_label2label N 12 e 3.77 S 0.18 U 3.58 P 99% M 492544 F 0 R 141291 W 0 c 51 w 4 I 97 O 104 L 4.04 4.10 4.09 @#@FSLOADPOST 2023:09:13:15:39:29 mri_label2label N 12 4.04 4.10 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA6_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA6_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 6959 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 84 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.thresh.label 7043 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:29 mri_label2label N 12 e 4.78 S 0.21 U 4.56 P 99% M 492776 F 0 R 137184 W 0 c 28 w 4 I 299 O 376 L 4.04 4.10 4.09 @#@FSLOADPOST 2023:09:13:15:39:34 mri_label2label N 12 4.04 4.09 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA44_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA44_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1012 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 18 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.thresh.label 1030 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:34 mri_label2label N 12 e 3.88 S 0.22 U 3.66 P 99% M 492528 F 0 R 141288 W 0 c 18 w 3 I 45 O 64 L 4.04 4.09 4.09 @#@FSLOADPOST 2023:09:13:15:39:38 mri_label2label N 12 4.03 4.09 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA45_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 1178 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 25 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.thresh.label 1203 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:38 mri_label2label N 12 e 3.96 S 0.22 U 3.68 P 98% M 492404 F 0 R 141287 W 0 c 21 w 4 I 67 O 72 L 4.03 4.09 4.09 @#@FSLOADPOST 2023:09:13:15:39:42 mri_label2label N 12 4.03 4.09 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.V1_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.V1_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 3232 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 577 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.thresh.label 3809 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:42 mri_label2label N 12 e 4.19 S 0.27 U 3.92 P 99% M 492476 F 0 R 141329 W 0 c 41 w 3 I 235 O 280 L 4.03 4.09 4.09 @#@FSLOADPOST 2023:09:13:15:39:46 mri_label2label N 12 4.03 4.09 4.09 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.V2_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.V2_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 3437 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 645 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.thresh.label 4082 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:46 mri_label2label N 12 e 4.31 S 0.22 U 4.07 P 99% M 492556 F 0 R 144074 W 0 c 44 w 3 I 232 O 304 L 4.03 4.09 4.09 @#@FSLOADPOST 2023:09:13:15:39:50 mri_label2label N 12 4.03 4.09 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.MT_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.MT_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 268 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 14 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.thresh.label 282 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:50 mri_label2label N 12 e 3.77 S 0.23 U 3.54 P 99% M 492504 F 0 R 141271 W 0 c 27 w 2 I 23 O 24 L 4.03 4.09 4.08 @#@FSLOADPOST 2023:09:13:15:39:54 mri_label2label N 12 4.02 4.09 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.entorhinal_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.entorhinal_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 694 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 12 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.thresh.label 706 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:54 mri_label2label N 12 e 3.74 S 0.20 U 3.53 P 99% M 492168 F 0 R 141282 W 0 c 26 w 3 I 61 O 48 L 4.02 4.09 4.08 @#@FSLOADPOST 2023:09:13:15:39:58 mri_label2label N 12 4.02 4.08 4.08 mri_label2label --srcsubject fsaverage --srclabel /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.perirhinal_exvivo.thresh.label --trgsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /media/mt/Expansion/Disk9/EDIS_751/fsaverage/label/rh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii 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 /media/mt/Expansion/Disk9/EDIS_751 FREESURFER_HOME /usr/local/freesurfer/7.4.1 Loading source label. Found 291 points in source label. Starting surface-based mapping Reading source registration /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white Reading target registration /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/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 106948 Number of reverse mapping hits = 1 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.thresh.label 292 mri_label2label: Done @#@FSTIME 2023:09:13:15:39:58 mri_label2label N 12 e 3.81 S 0.21 U 3.60 P 99% M 492284 F 0 R 141271 W 0 c 51 w 2 I 24 O 24 L 4.02 4.08 4.08 @#@FSLOADPOST 2023:09:13:15:40:02 mri_label2label N 12 4.02 4.08 4.08 mris_label2annot --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi rh --ctab /usr/local/freesurfer/7.4.1/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 Reading ctab /usr/local/freesurfer/7.4.1/average/colortable_BA.txt Number of ctab entries 15 7.4.1 cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label cmdline mris_label2annot --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi rh --ctab /usr/local/freesurfer/7.4.1/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 mtubuntu machine x86_64 user mt subject ED751_SAG_MPRAGE_p2_NON-SSc.nii hemi rh SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 ColorTable /usr/local/freesurfer/7.4.1/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.orig Index Offset 0 0 reading rh.BA1_exvivo.label 1 1530880 BA1_exvivo 1 reading rh.BA2_exvivo.label 2 16749699 BA2_exvivo 2 reading rh.BA3a_exvivo.label 3 16711680 BA3a_exvivo 3 reading rh.BA3b_exvivo.label 4 3368703 BA3b_exvivo 4 reading rh.BA4a_exvivo.label 5 1376196 BA4a_exvivo 5 reading rh.BA4p_exvivo.label 6 13382655 BA4p_exvivo 6 reading rh.BA6_exvivo.label 7 10036737 BA6_exvivo 7 reading rh.BA44_exvivo.label 8 2490521 BA44_exvivo 8 reading rh.BA45_exvivo.label 9 39283 BA45_exvivo 9 reading rh.V1_exvivo.label 10 3993 V1_exvivo 10 reading rh.V2_exvivo.label 11 8508928 V2_exvivo 11 reading rh.MT_exvivo.label 12 10027163 MT_exvivo 12 reading rh.perirhinal_exvivo.label 13 16422433 perirhinal_exvivo 13 reading rh.entorhinal_exvivo.label 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 72543 unhit vertices Writing annot to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.BA_exvivo.annot @#@FSTIME 2023:09:13:15:40:02 mris_label2annot N 38 e 0.60 S 0.06 U 0.54 P 99% M 125916 F 0 R 34112 W 0 c 7 w 1 I 0 O 1680 L 4.02 4.08 4.08 @#@FSLOADPOST 2023:09:13:15:40:02 mris_label2annot N 38 4.02 4.08 4.08 mris_label2annot --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi rh --ctab /usr/local/freesurfer/7.4.1/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 Reading ctab /usr/local/freesurfer/7.4.1/average/colortable_BA.txt Number of ctab entries 15 7.4.1 cwd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label cmdline mris_label2annot --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi rh --ctab /usr/local/freesurfer/7.4.1/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 mtubuntu machine x86_64 user mt subject ED751_SAG_MPRAGE_p2_NON-SSc.nii hemi rh SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 ColorTable /usr/local/freesurfer/7.4.1/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.orig Index Offset 0 0 reading rh.BA1_exvivo.thresh.label 1 1530880 BA1_exvivo 1 reading rh.BA2_exvivo.thresh.label 2 16749699 BA2_exvivo 2 reading rh.BA3a_exvivo.thresh.label 3 16711680 BA3a_exvivo 3 reading rh.BA3b_exvivo.thresh.label 4 3368703 BA3b_exvivo 4 reading rh.BA4a_exvivo.thresh.label 5 1376196 BA4a_exvivo 5 reading rh.BA4p_exvivo.thresh.label 6 13382655 BA4p_exvivo 6 reading rh.BA6_exvivo.thresh.label 7 10036737 BA6_exvivo 7 reading rh.BA44_exvivo.thresh.label 8 2490521 BA44_exvivo 8 reading rh.BA45_exvivo.thresh.label 9 39283 BA45_exvivo 9 reading rh.V1_exvivo.thresh.label 10 3993 V1_exvivo 10 reading rh.V2_exvivo.thresh.label 11 8508928 V2_exvivo 11 reading rh.MT_exvivo.thresh.label 12 10027163 MT_exvivo 12 reading rh.perirhinal_exvivo.thresh.label 13 16422433 perirhinal_exvivo 13 reading rh.entorhinal_exvivo.thresh.label 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 87232 unhit vertices Writing annot to /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/label/rh.BA_exvivo.thresh.annot @#@FSTIME 2023:09:13:15:40:02 mris_label2annot N 38 e 0.59 S 0.05 U 0.53 P 99% M 125728 F 0 R 33486 W 0 c 6 w 1 I 0 O 1680 L 4.02 4.08 4.08 @#@FSLOADPOST 2023:09:13:15:40:03 mris_label2annot N 38 4.02 4.08 4.08 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.stats -b -a ./rh.BA_exvivo.annot -c ./BA_exvivo.ctab ED751_SAG_MPRAGE_p2_NON-SSc.nii rh white computing statistics for each annotation in ./rh.BA_exvivo.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 791 451 1103 1.928 0.520 0.121 0.027 8 0.9 BA1_exvivo 2447 1537 3067 1.977 0.593 0.098 0.017 16 1.8 BA2_exvivo 982 676 892 1.691 0.355 0.117 0.026 7 1.0 BA3a_exvivo 1714 1081 1698 1.484 0.353 0.096 0.016 11 1.4 BA3b_exvivo 1363 731 2365 2.690 0.448 0.074 0.016 7 0.9 BA4a_exvivo 1309 780 1945 2.594 0.521 0.085 0.017 6 1.0 BA4p_exvivo 6995 4268 12315 2.550 0.558 0.102 0.022 56 6.0 BA6_exvivo 2913 1867 4496 2.283 0.520 0.104 0.020 22 2.4 BA44_exvivo 3263 2103 4954 2.111 0.569 0.126 0.032 35 4.0 BA45_exvivo 3475 2464 4299 1.709 0.436 0.136 0.032 43 4.8 V1_exvivo 6710 4779 9220 1.862 0.465 0.153 0.035 93 10.2 V2_exvivo 1687 1121 2287 2.059 0.533 0.113 0.023 13 1.6 MT_exvivo 285 244 1289 3.625 0.882 0.140 0.031 3 0.4 perirhinal_exvivo 471 347 1620 3.067 1.182 0.136 0.043 6 1.1 entorhinal_exvivo @#@FSTIME 2023:09:13:15:40:03 mris_anatomical_stats N 12 e 3.74 S 0.16 U 3.58 P 99% M 380584 F 0 R 103992 W 0 c 37 w 1 I 0 O 40 L 4.02 4.08 4.08 @#@FSLOADPOST 2023:09:13:15:40:07 mris_anatomical_stats N 12 4.02 4.08 4.08 mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab ED751_SAG_MPRAGE_p2_NON-SSc.nii rh white computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot. reading volume /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/mri/wm.mgz... reading input surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... reading input pial surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.pial... reading input white surface /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 170482 Total vertex volume 170241 (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) = 1243302 mm^3 (det: 1.566880 ) 524 303 666 1.759 0.489 0.125 0.027 6 0.6 BA1_exvivo 1426 882 1882 2.013 0.585 0.089 0.016 8 0.9 BA2_exvivo 923 630 787 1.698 0.369 0.122 0.026 6 1.0 BA3a_exvivo 1334 871 1226 1.408 0.279 0.086 0.014 7 0.8 BA3b_exvivo 740 394 1390 2.783 0.537 0.090 0.022 5 0.7 BA4a_exvivo 1121 647 1691 2.691 0.487 0.074 0.013 4 0.7 BA4p_exvivo 4444 2698 7740 2.566 0.510 0.097 0.020 31 3.6 BA6_exvivo 671 446 1362 2.634 0.445 0.124 0.032 8 0.8 BA44_exvivo 820 532 1254 2.027 0.547 0.131 0.033 9 1.0 BA45_exvivo 3344 2355 4041 1.699 0.436 0.132 0.031 39 4.4 V1_exvivo 3643 2686 5110 1.801 0.448 0.168 0.039 59 6.4 V2_exvivo 242 157 355 2.171 0.456 0.073 0.012 1 0.1 MT_exvivo 21 18 95 4.208 0.499 0.111 0.018 0 0.0 perirhinal_exvivo 463 338 1628 3.401 0.949 0.116 0.022 3 0.5 entorhinal_exvivo @#@FSTIME 2023:09:13:15:40:07 mris_anatomical_stats N 12 e 3.77 S 0.17 U 3.59 P 99% M 380584 F 0 R 106735 W 0 c 24 w 1 I 0 O 24 L 4.02 4.08 4.08 @#@FSLOADPOST 2023:09:13:15:40:11 mris_anatomical_stats N 12 4.02 4.08 4.08 #-------------------------------------------- #@# Qdec Cache preproc lh thickness fsaverage Wed Sep 13 15:40:11 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas thickness --target fsaverage --out lh.thickness.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.1089455 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf Log file is lh.thickness.fsaverage.mris_preproc.log Wed Sep 13 15:40:11 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf /usr/local/freesurfer/7.4.1/bin/mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas thickness --target fsaverage --out lh.thickness.fsaverage.mgh Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.4.1 freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 tmpdir is ./tmp.mris_preproc.1089455 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 ED751_SAG_MPRAGE_p2_NON-SSc.nii Wed Sep 13 15:40:11 +08 2023 -------------- -rwxr-xr-x 1 mt mt 418211 Sep 13 13:13 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.thickness ----------------------- mri_surf2surf --srcsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.1089455/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --sval /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.thickness --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.4.1 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mri_surf2surf --srcsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.1089455/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --sval /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.thickness --sfmt curv --noreshape --cortex sysname Linux hostname mtubuntu machine x86_64 user mt srcsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii srcval = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.thickness srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.1089455/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.sphere.reg Loading source data Reading curvature file /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.thickness Reading source subject label mask lh.cortex.label masking the input Reading target surface reg /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (104549) Reverse Loop had 4986 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 159208, nTrgMulti = 4634, MnTrgMultiHits = 2.07596 nSrc121 = 56376, nSrcLost = 0, nSrcMulti = 48173, MnSrcMultiHits = 2.33434 Reading target space mask label lh.cortex.label masking the input Saving target data NOT Copying ctab from source Saving to ./tmp.mris_preproc.1089455/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.1089455/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --o lh.thickness.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.thickness.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.1089455 Wed Sep 13 15:40:14 +08 2023 mris_preproc done @#@FSTIME 2023:09:13:15:40:11 mris_preproc N 10 e 3.59 S 0.25 U 2.88 P 87% M 350196 F 12 R 125376 W 0 c 53 w 244 I 9824 O 3152 L 4.02 4.08 4.08 @#@FSLOADPOST 2023:09:13:15:40:14 mris_preproc N 10 4.02 4.08 4.08 #-------------------------------------------- #@# Qdec Cache preproc lh area fsaverage Wed Sep 13 15:40:14 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas area --target fsaverage --out lh.area.fsaverage.mgh nsubjects = 1 INFO: turning on jacobican correction tmpdir is ./tmp.mris_preproc.1089615 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf Log file is lh.area.fsaverage.mris_preproc.log Wed Sep 13 15:40:14 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf /usr/local/freesurfer/7.4.1/bin/mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas area --target fsaverage --out lh.area.fsaverage.mgh Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.4.1 freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 tmpdir is ./tmp.mris_preproc.1089615 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 ED751_SAG_MPRAGE_p2_NON-SSc.nii Wed Sep 13 15:40:14 +08 2023 -------------- -rwxr-xr-x 1 mt mt 418211 Sep 13 13:13 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.area ----------------------- mri_surf2surf --srcsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.1089615/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --sval /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.area --jac --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.4.1 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mri_surf2surf --srcsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.1089615/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --sval /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.area --jac --sfmt curv --noreshape --cortex sysname Linux hostname mtubuntu machine x86_64 user mt srcsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii srcval = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.area srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.1089615/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.sphere.reg Loading source data Reading curvature file /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.area Reading source subject label mask lh.cortex.label masking the input Reading target surface reg /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface with Jacobian Correction surf2surf_nnfr_jac: building source hash (res=16). Surf2SurfJac: 1st Forward Loop (163842) Surf2SurfJac: 2nd Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2SurfJac: Reverse Loop (104549) Reverse Loop had 4986 hits INFO: nSrcLost = 0 surf2surf_nnfr_jac() done nTrg121 = 159208, nTrgMulti = 4634, MnTrgMultiHits = 2.07596 nSrc121 = 56376, nSrcLost = 0, nSrcMulti = 48173, MnSrcMultiHits = 2.33434 Reading target space mask label lh.cortex.label masking the input Saving target data NOT Copying ctab from source Saving to ./tmp.mris_preproc.1089615/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.1089615/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --o lh.area.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.area.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.1089615 Wed Sep 13 15:40:18 +08 2023 mris_preproc done @#@FSTIME 2023:09:13:15:40:14 mris_preproc N 10 e 4.33 S 0.23 U 4.11 P 100% M 350196 F 0 R 125586 W 0 c 47 w 202 I 0 O 3144 L 4.02 4.08 4.08 @#@FSLOADPOST 2023:09:13:15:40:18 mris_preproc N 10 4.02 4.08 4.08 #-------------------------------------------- #@# Qdec Cache preproc lh area.pial fsaverage Wed Sep 13 15:40:19 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas area.pial --target fsaverage --out lh.area.pial.fsaverage.mgh nsubjects = 1 INFO: turning on jacobican correction tmpdir is ./tmp.mris_preproc.1089774 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf Log file is lh.area.pial.fsaverage.mris_preproc.log Wed Sep 13 15:40:19 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf /usr/local/freesurfer/7.4.1/bin/mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas area.pial --target fsaverage --out lh.area.pial.fsaverage.mgh Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.4.1 freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 tmpdir is ./tmp.mris_preproc.1089774 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 ED751_SAG_MPRAGE_p2_NON-SSc.nii Wed Sep 13 15:40:19 +08 2023 -------------- -rwxr-xr-x 1 mt mt 418211 Sep 13 13:13 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.area.pial ----------------------- mri_surf2surf --srcsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.1089774/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --sval /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.area.pial --jac --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.4.1 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mri_surf2surf --srcsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.1089774/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --sval /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.area.pial --jac --sfmt curv --noreshape --cortex sysname Linux hostname mtubuntu machine x86_64 user mt srcsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii srcval = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.area.pial srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.1089774/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.sphere.reg Loading source data Reading curvature file /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.area.pial Reading source subject label mask lh.cortex.label masking the input Reading target surface reg /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface with Jacobian Correction surf2surf_nnfr_jac: building source hash (res=16). Surf2SurfJac: 1st Forward Loop (163842) Surf2SurfJac: 2nd Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2SurfJac: Reverse Loop (104549) Reverse Loop had 4986 hits INFO: nSrcLost = 0 surf2surf_nnfr_jac() done nTrg121 = 159208, nTrgMulti = 4634, MnTrgMultiHits = 2.07596 nSrc121 = 56376, nSrcLost = 0, nSrcMulti = 48173, MnSrcMultiHits = 2.33434 Reading target space mask label lh.cortex.label masking the input Saving target data NOT Copying ctab from source Saving to ./tmp.mris_preproc.1089774/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.1089774/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --o lh.area.pial.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.area.pial.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.1089774 Wed Sep 13 15:40:23 +08 2023 mris_preproc done @#@FSTIME 2023:09:13:15:40:19 mris_preproc N 10 e 4.21 S 0.22 U 4.00 P 100% M 350448 F 0 R 125502 W 0 c 49 w 207 I 0 O 3144 L 4.02 4.08 4.08 @#@FSLOADPOST 2023:09:13:15:40:23 mris_preproc N 10 4.01 4.08 4.08 #-------------------------------------------- #@# Qdec Cache preproc lh volume fsaverage Wed Sep 13 15:40:23 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas volume --target fsaverage --out lh.volume.fsaverage.mgh nsubjects = 1 INFO: turning on jacobican correction tmpdir is ./tmp.mris_preproc.1089933 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf Log file is lh.volume.fsaverage.mris_preproc.log Wed Sep 13 15:40:23 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf /usr/local/freesurfer/7.4.1/bin/mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas volume --target fsaverage --out lh.volume.fsaverage.mgh Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.4.1 freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 tmpdir is ./tmp.mris_preproc.1089933 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 ED751_SAG_MPRAGE_p2_NON-SSc.nii Wed Sep 13 15:40:23 +08 2023 -------------- -rwxr-xr-x 1 mt mt 418211 Sep 13 13:13 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.volume ----------------------- mri_surf2surf --srcsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.1089933/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --sval /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.volume --jac --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.4.1 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mri_surf2surf --srcsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.1089933/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --sval /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.volume --jac --sfmt curv --noreshape --cortex sysname Linux hostname mtubuntu machine x86_64 user mt srcsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii srcval = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.volume srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.1089933/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.sphere.reg Loading source data Reading curvature file /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.volume Reading source subject label mask lh.cortex.label masking the input Reading target surface reg /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface with Jacobian Correction surf2surf_nnfr_jac: building source hash (res=16). Surf2SurfJac: 1st Forward Loop (163842) Surf2SurfJac: 2nd Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2SurfJac: Reverse Loop (104549) Reverse Loop had 4986 hits INFO: nSrcLost = 0 surf2surf_nnfr_jac() done nTrg121 = 159208, nTrgMulti = 4634, MnTrgMultiHits = 2.07596 nSrc121 = 56376, nSrcLost = 0, nSrcMulti = 48173, MnSrcMultiHits = 2.33434 Reading target space mask label lh.cortex.label masking the input Saving target data NOT Copying ctab from source Saving to ./tmp.mris_preproc.1089933/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.1089933/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --o lh.volume.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.volume.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.1089933 Wed Sep 13 15:40:27 +08 2023 mris_preproc done @#@FSTIME 2023:09:13:15:40:23 mris_preproc N 10 e 4.26 S 0.23 U 4.03 P 100% M 350164 F 0 R 125569 W 0 c 63 w 206 I 0 O 3144 L 4.01 4.08 4.08 @#@FSLOADPOST 2023:09:13:15:40:27 mris_preproc N 10 4.01 4.08 4.08 #-------------------------------------------- #@# Qdec Cache preproc lh curv fsaverage Wed Sep 13 15:40:27 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas curv --target fsaverage --out lh.curv.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.1090092 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf Log file is lh.curv.fsaverage.mris_preproc.log Wed Sep 13 15:40:27 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf /usr/local/freesurfer/7.4.1/bin/mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas curv --target fsaverage --out lh.curv.fsaverage.mgh Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.4.1 freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 tmpdir is ./tmp.mris_preproc.1090092 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 ED751_SAG_MPRAGE_p2_NON-SSc.nii Wed Sep 13 15:40:27 +08 2023 -------------- -rwxr-xr-x 1 mt mt 418211 Sep 13 13:13 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.curv ----------------------- mri_surf2surf --srcsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.1090092/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --sval /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.curv --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.4.1 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mri_surf2surf --srcsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.1090092/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --sval /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.curv --sfmt curv --noreshape --cortex sysname Linux hostname mtubuntu machine x86_64 user mt srcsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii srcval = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.curv srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.1090092/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.sphere.reg Loading source data Reading curvature file /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.curv Reading source subject label mask lh.cortex.label masking the input Reading target surface reg /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (104549) Reverse Loop had 4986 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 159208, nTrgMulti = 4634, MnTrgMultiHits = 2.07596 nSrc121 = 56376, nSrcLost = 0, nSrcMulti = 48173, MnSrcMultiHits = 2.33434 Reading target space mask label lh.cortex.label masking the input Saving target data NOT Copying ctab from source Saving to ./tmp.mris_preproc.1090092/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.1090092/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --o lh.curv.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.curv.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.1090092 Wed Sep 13 15:40:30 +08 2023 mris_preproc done @#@FSTIME 2023:09:13:15:40:27 mris_preproc N 10 e 3.02 S 0.24 U 2.79 P 100% M 350320 F 0 R 125438 W 0 c 53 w 205 I 0 O 3160 L 4.01 4.08 4.08 @#@FSLOADPOST 2023:09:13:15:40:30 mris_preproc N 10 4.09 4.09 4.09 #-------------------------------------------- #@# Qdec Cache preproc lh sulc fsaverage Wed Sep 13 15:40:30 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas sulc --target fsaverage --out lh.sulc.fsaverage.mgh nsubjects = 1 tmpdir is ./tmp.mris_preproc.1090233 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf Log file is lh.sulc.fsaverage.mris_preproc.log Wed Sep 13 15:40:30 +08 2023 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf /usr/local/freesurfer/7.4.1/bin/mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas sulc --target fsaverage --out lh.sulc.fsaverage.mgh Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux mris_preproc 7.4.1 freesurfer-linux-ubuntu22_x86_64-7.4.1-20230614-7eb8460 tmpdir is ./tmp.mris_preproc.1090233 Src lh sphere.reg Trg lh sphere.reg --------------------------------------------------- #@# 1/1 ED751_SAG_MPRAGE_p2_NON-SSc.nii Wed Sep 13 15:40:30 +08 2023 -------------- -rwxr-xr-x 1 mt mt 418211 Sep 11 21:09 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.sulc ----------------------- mri_surf2surf --srcsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.1090233/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --sval /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.sulc --sfmt curv --noreshape --cortex Source registration surface changed to sphere.reg Target registration surface changed to sphere.reg 7.4.1 setenv SUBJECTS_DIR /media/mt/Expansion/Disk9/EDIS_751 cd /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mri_surf2surf --srcsubject ED751_SAG_MPRAGE_p2_NON-SSc.nii --srchemi lh --srcsurfreg sphere.reg --trgsubject fsaverage --trghemi lh --trgsurfreg sphere.reg --tval ./tmp.mris_preproc.1090233/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --sval /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.sulc --sfmt curv --noreshape --cortex sysname Linux hostname mtubuntu machine x86_64 user mt srcsubject = ED751_SAG_MPRAGE_p2_NON-SSc.nii srcval = /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.sulc srctype = curv trgsubject = fsaverage trgval = ./tmp.mris_preproc.1090233/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = lh trghemi = lh frame = 0 fwhm-in = 0 fwhm-out = 0 label-src = lh.cortex.label label-trg = lh.cortex.label OKToRevFaceOrder = 1 UseDualHemi = 0 Reading source surface reg /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.sphere.reg Loading source data Reading curvature file /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.sulc Reading source subject label mask lh.cortex.label masking the input Reading target surface reg /media/mt/Expansion/Disk9/EDIS_751/fsaverage/surf/lh.sphere.reg Done Using surf2surf_nnfr() Mapping Source Volume onto Source Subject Surface surf2surf_nnfr: building source hash (res=16). Surf2Surf: Forward Loop (163842) surf2surf_nnfr: building target hash (res=16). Surf2Surf: Reverse Loop (104549) Reverse Loop had 4986 hits Surf2Surf: Dividing by number of hits (163842) INFO: nSrcLost = 0 nTrg121 = 159208, nTrgMulti = 4634, MnTrgMultiHits = 2.07596 nSrc121 = 56376, nSrcLost = 0, nSrcMulti = 48173, MnSrcMultiHits = 2.33434 Reading target space mask label lh.cortex.label masking the input Saving target data NOT Copying ctab from source Saving to ./tmp.mris_preproc.1090233/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh ----------------------- mri_concat ./tmp.mris_preproc.1090233/ED751_SAG_MPRAGE_p2_NON-SSc.nii.1.mgh --o lh.sulc.fsaverage.mgh ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Writing to lh.sulc.fsaverage.mgh Cleaning up ----------------------- rm -r ./tmp.mris_preproc.1090233 Wed Sep 13 15:40:33 +08 2023 mris_preproc done @#@FSTIME 2023:09:13:15:40:30 mris_preproc N 10 e 3.02 S 0.20 U 2.82 P 100% M 350320 F 0 R 125457 W 0 c 39 w 204 I 0 O 3144 L 4.09 4.09 4.09 @#@FSLOADPOST 2023:09:13:15:40:33 mris_preproc N 10 4.08 4.09 4.09 #-------------------------------------------- #@# Qdec Cache preproc lh white.K fsaverage Wed Sep 13 15:40:33 +08 2023 /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf mris_preproc --s ED751_SAG_MPRAGE_p2_NON-SSc.nii --hemi lh --meas white.K --target fsaverage --out lh.white.K.fsaverage.mgh nsubjects = 1 ERROR: cannot find /media/mt/Expansion/Disk9/EDIS_751/ED751_SAG_MPRAGE_p2_NON-SSc.nii/surf/lh.white.K Command exited with non-zero status 1 @#@FSTIME 2023:09:13:15:40:33 mris_preproc N 10 e 0.03 S 0.00 U 0.02 P 90% M 2944 F 0 R 1751 W 0 c 7 w 29 I 0 O 0 L 4.08 4.09 4.09 @#@FSLOADPOST 2023:09:13:15:40:33 mris_preproc N 10 4.08 4.09 4.09 Linux mtubuntu 6.2.0-26-generic #26~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Jul 13 16:27:29 UTC 2 x86_64 x86_64 x86_64 GNU/Linux recon-all -s ED751_SAG_MPRAGE_p2_NON-SSc.nii exited with ERRORS at Wed Sep 13 15:40:33 +08 2023 To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting