Mon May 15 16:29:07 HKT 2023 cd /media/data/structure/Sub-112 setenv SUBJECTS_DIR /media/data/structure /home/lab/freesurfer/bin/recon-all -i 112.nii -s Sub-112 -all subjid Sub-112 setenv SUBJECTS_DIR /media/data/structure FREESURFER_HOME /home/lab/freesurfer Actual FREESURFER_HOME /home/lab/freesurfer build-stamp.txt: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 Linux lab-Super-Server 5.19.0-32-generic #33~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 30 17:03:34 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 4092252 kbytes maxproc 127579 maxlocks unlimited maxsignal 127579 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 31Gi 2.9Gi 19Gi 99Mi 8.5Gi 27Gi Swap: 2.0Gi 0B 2.0Gi ######################################## program versions used 7.3.2 (freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275) 7.3.2 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.2 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.2 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.3.2 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:29:07-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ####################################### GCADIR /home/lab/freesurfer/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /home/lab/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### /media/data/structure/Sub-112 mri_convert /media/data/structure/112.nii /media/data/structure/Sub-112/mri/orig/001.mgz mri_convert /media/data/structure/112.nii /media/data/structure/Sub-112/mri/orig/001.mgz reading from /media/data/structure/112.nii... TR=7.24, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (0.996744, -0.0551676, -0.0588038) j_ras = (0.0554058, 0.998461, 0.00242648) k_ras = (0.0585795, -0.00567663, 0.998267) writing to /media/data/structure/Sub-112/mri/orig/001.mgz... @#@FSTIME 2023:05:15:16:29:07 mri_convert N 2 e 12.36 S 0.20 U 12.16 P 100% M 165972 F 0 R 40080 W 0 c 19 w 2 I 0 O 223632 L 2.54 2.28 2.23 @#@FSLOADPOST 2023:05:15:16:29:20 mri_convert N 2 2.76 2.33 2.25 #-------------------------------------------- #@# MotionCor Mon May 15 16:29:23 HKT 2023 Found 1 runs /media/data/structure/Sub-112/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/data/structure/Sub-112/mri/orig/001.mgz /media/data/structure/Sub-112/mri/rawavg.mgz mri_info /media/data/structure/Sub-112/mri/rawavg.mgz rawavg.mgz ======================================== Volume information for /media/data/structure/Sub-112/mri/rawavg.mgz type: MGH dimensions: 340 x 512 x 462 voxel sizes: 0.500000, 0.500000, 0.500000 type: SHORT (4) fov: 256.000 dof: 1 xstart: -85.0, xend: 85.0 ystart: -128.0, yend: 128.0 zstart: -115.5, zend: 115.5 TR: 7.24 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 = 0.9967, y_r = 0.0554, z_r = 0.0586, c_r = 0.2706 : x_a = -0.0552, y_a = 0.9985, z_a = -0.0057, c_a = -8.5150 : x_s = -0.0588, y_s = 0.0024, z_s = 0.9983, c_s = -30.0337 talairach xfm : Orientation : RAS Primary Slice Direction: axial voxel to ras transform: 0.4984 0.0277 0.0293 -98.3105 -0.0276 0.4992 -0.0028 -130.9731 -0.0294 0.0012 0.4991 -140.6458 0.0000 0.0000 0.0000 1.0000 voxel-to-ras determinant 0.125 ras to voxel transform: 1.9935 -0.1103 -0.1176 164.9890 0.1108 1.9969 0.0049 273.1195 0.1172 -0.0114 1.9965 290.8350 0.0000 0.0000 0.0000 1.0000 /media/data/structure/Sub-112 mri_convert /media/data/structure/Sub-112/mri/rawavg.mgz /media/data/structure/Sub-112/mri/orig.mgz --conform mri_convert /media/data/structure/Sub-112/mri/rawavg.mgz /media/data/structure/Sub-112/mri/orig.mgz --conform reading from /media/data/structure/Sub-112/mri/rawavg.mgz... TR=7.24, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (0.996744, -0.0551676, -0.0588038) j_ras = (0.0554058, 0.998461, 0.00242648) k_ras = (0.0585795, -0.00567663, 0.998267) changing data type from short to uchar (noscale = 0)... MRIchangeType: Building histogram 0 10181 1000, flo=0, fhi=0.999, dest_type=0 Reslicing using trilinear interpolation writing to /media/data/structure/Sub-112/mri/orig.mgz... @#@FSTIME 2023:05:15:16:29:28 mri_convert N 3 e 10.96 S 0.24 U 10.72 P 99% M 245996 F 0 R 206890 W 0 c 16 w 1 I 0 O 13328 L 2.80 2.36 2.26 @#@FSLOADPOST 2023:05:15:16:29:39 mri_convert N 3 2.83 2.38 2.27 mri_add_xform_to_header -c /media/data/structure/Sub-112/mri/transforms/talairach.xfm /media/data/structure/Sub-112/mri/orig.mgz /media/data/structure/Sub-112/mri/orig.mgz INFO: extension is mgz @#@FSTIME 2023:05:15:16:29:39 mri_add_xform_to_header N 4 e 0.83 S 0.02 U 0.80 P 99% M 23580 F 0 R 4566 W 0 c 3 w 1 I 0 O 13328 L 2.83 2.38 2.27 @#@FSLOADPOST 2023:05:15:16:29:40 mri_add_xform_to_header N 4 2.83 2.38 2.27 mri_info /media/data/structure/Sub-112/mri/orig.mgz orig.mgz ======================================== Volume information for /media/data/structure/Sub-112/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: 7.24 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 = 0.2706 : x_a = -0.0000, y_a = -0.0000, z_a = 1.0000, c_a = -8.5149 : x_s = 0.0000, y_s = -1.0000, z_s = 0.0000, c_s = -30.0337 talairach xfm : /media/data/structure/Sub-112/mri/transforms/talairach.xfm Orientation : LIA Primary Slice Direction: coronal voxel to ras transform: -1.0000 0.0000 -0.0000 128.2706 -0.0000 -0.0000 1.0000 -136.5150 0.0000 -1.0000 0.0000 97.9663 0.0000 0.0000 0.0000 1.0000 voxel-to-ras determinant -1 ras to voxel transform: -1.0000 -0.0000 -0.0000 128.2706 -0.0000 -0.0000 -1.0000 97.9663 -0.0000 1.0000 -0.0000 136.5149 -0.0000 -0.0000 -0.0000 1.0000 #-------------------------------------------- #@# Talairach Mon May 15 16:29:40 HKT 2023 /media/data/structure/Sub-112/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/data/structure/Sub-112/mri /home/lab/freesurfer/bin/mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --ants-n4 --n 1 --proto-iters 1000 --distance 50 nIters 1 mri_nu_correct.mni 7.3.2 Linux lab-Super-Server 5.19.0-32-generic #33~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 30 17:03:34 UTC 2 x86_64 x86_64 x86_64 GNU/Linux Mon May 15 16:29:40 HKT 2023 tmpdir is ./tmp.mri_nu_correct.mni.45138 cd /media/data/structure/Sub-112/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o ./tmp.mri_nu_correct.mni.45138/nu0.mgz --dtype uchar AntsN4BiasFieldCorrectionFs done mri_convert ./tmp.mri_nu_correct.mni.45138/nu0.mgz orig_nu.mgz --like orig.mgz --conform mri_convert ./tmp.mri_nu_correct.mni.45138/nu0.mgz orig_nu.mgz --like orig.mgz --conform reading from ./tmp.mri_nu_correct.mni.45138/nu0.mgz... TR=7.24, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -4.27826e-09, 0) j_ras = (7.45058e-09, -4.65661e-10, -1) k_ras = (-6.1118e-10, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to orig_nu.mgz... Mon May 15 16:32:42 HKT 2023 mri_nu_correct.mni done @#@FSTIME 2023:05:15:16:29:40 mri_nu_correct.mni N 12 e 182.50 S 0.36 U 182.12 P 99% M 507232 F 0 R 177308 W 0 c 1075 w 94 I 0 O 25504 L 2.83 2.38 2.27 @#@FSLOADPOST 2023:05:15:16:32:42 mri_nu_correct.mni N 12 3.10 2.71 2.42 talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm talairach_avi log file is transforms/talairach_avi.log... mv -f /media/data/structure/Sub-112/mri/talsrcimg_to_711-2C_as_mni_average_305_t4_vox2vox.txt /media/data/structure/Sub-112/mri/transforms/talsrcimg_to_711-2C_as_mni_average_305_t4_vox2vox.txt Started at Mon May 15 16:32:42 HKT 2023 Ended at Mon May 15 16:33:03 HKT 2023 talairach_avi done @#@FSTIME 2023:05:15:16:32:42 talairach_avi N 4 e 20.41 S 1.16 U 13.25 P 70% M 255532 F 0 R 398306 W 0 c 39 w 182 I 0 O 295304 L 3.10 2.71 2.42 @#@FSLOADPOST 2023:05:15:16:33:03 talairach_avi N 4 3.14 2.75 2.44 cp transforms/talairach.auto.xfm transforms/talairach.xfm lta_convert --src orig.mgz --trg /home/lab/freesurfer/average/mni305.cor.mgz --inxfm transforms/talairach.xfm --outlta transforms/talairach.xfm.lta --subject fsaverage --ltavox2vox 7.3.2 --src: orig.mgz src image (geometry). --trg: /home/lab/freesurfer/average/mni305.cor.mgz trg image (geometry). --inmni: transforms/talairach.xfm input MNI/XFM transform. --outlta: transforms/talairach.xfm.lta output LTA. --s: fsaverage subject name --ltavox2vox: output LTA as VOX_TO_VOX transform. LTA read, type : 1 0.78718 -0.33062 -0.18942 -18.33428; -0.43424 2.58624 -1.70159 -182.65698; 1.27142 -0.68671 2.62055 267.89734; 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 May 15 16:33:05 HKT 2023 /media/data/structure/Sub-112/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm ***FAILED*** (p=0.0000, pval=0.0000 < threshold=0.0050) Command exited with non-zero status 1 @#@FSTIME 2023:05:15:16:33:05 talairach_afd N 4 e 0.00 S 0.00 U 0.00 P 100% M 5888 F 0 R 220 W 0 c 0 w 1 I 0 O 0 L 3.14 2.75 2.44 @#@FSLOADPOST 2023:05:15:16:33:05 talairach_afd N 4 3.14 2.75 2.44 Manual Talairach alignment may be necessary, or include the -notal-check flag to skip this test, making sure the -notal-check flag follows -all or -autorecon1 in the command string. See: http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Talairach INFO: Retrying Talairach align using 3T-based atlas... #-------------------------------------------- #@# Talairach Mon May 15 16:33:05 HKT 2023 /media/data/structure/Sub-112/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/data/structure/Sub-112/mri /home/lab/freesurfer/bin/mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --ants-n4 --n 1 --proto-iters 1000 --distance 50 nIters 1 mri_nu_correct.mni 7.3.2 Linux lab-Super-Server 5.19.0-32-generic #33~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 30 17:03:34 UTC 2 x86_64 x86_64 x86_64 GNU/Linux Mon May 15 16:33:05 HKT 2023 tmpdir is ./tmp.mri_nu_correct.mni.45389 cd /media/data/structure/Sub-112/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o ./tmp.mri_nu_correct.mni.45389/nu0.mgz --dtype uchar AntsN4BiasFieldCorrectionFs done mri_convert ./tmp.mri_nu_correct.mni.45389/nu0.mgz orig_nu.mgz --like orig.mgz --conform mri_convert ./tmp.mri_nu_correct.mni.45389/nu0.mgz orig_nu.mgz --like orig.mgz --conform reading from ./tmp.mri_nu_correct.mni.45389/nu0.mgz... TR=7.24, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -4.27826e-09, 0) j_ras = (7.45058e-09, -4.65661e-10, -1) k_ras = (-6.1118e-10, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to orig_nu.mgz... Mon May 15 16:35:52 HKT 2023 mri_nu_correct.mni done @#@FSTIME 2023:05:15:16:33:05 mri_nu_correct.mni N 12 e 166.63 S 0.35 U 166.19 P 99% M 519664 F 0 R 212522 W 0 c 173 w 97 I 0 O 25504 L 3.14 2.75 2.44 @#@FSLOADPOST 2023:05:15:16:35:52 mri_nu_correct.mni N 12 3.04 2.88 2.55 talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm --atlas 3T18yoSchwartzReactN32_as_orig talairach_avi log file is transforms/talairach_avi.log... mv -f /media/data/structure/Sub-112/mri/talsrcimg_to_3T18yoSchwartzReactN32_as_orig_t4_vox2vox.txt /media/data/structure/Sub-112/mri/transforms/talsrcimg_to_3T18yoSchwartzReactN32_as_orig_t4_vox2vox.txt Started at Mon May 15 16:35:52 HKT 2023 Ended at Mon May 15 16:36:13 HKT 2023 talairach_avi done @#@FSTIME 2023:05:15:16:35:52 talairach_avi N 6 e 21.34 S 1.28 U 14.06 P 71% M 255564 F 0 R 483867 W 0 c 40 w 184 I 0 O 295296 L 3.04 2.88 2.55 @#@FSLOADPOST 2023:05:15:16:36:13 talairach_avi N 6 2.88 2.86 2.55 cp transforms/talairach.auto.xfm transforms/talairach.xfm lta_convert --src orig.mgz --trg /home/lab/freesurfer/average/mni305.cor.mgz --inxfm transforms/talairach.xfm --outlta transforms/talairach.xfm.lta --subject fsaverage --ltavox2vox 7.3.2 --src: orig.mgz src image (geometry). --trg: /home/lab/freesurfer/average/mni305.cor.mgz trg image (geometry). --inmni: transforms/talairach.xfm input MNI/XFM transform. --outlta: transforms/talairach.xfm.lta output LTA. --s: fsaverage subject name --ltavox2vox: output LTA as VOX_TO_VOX transform. LTA read, type : 1 0.92356 0.15435 0.07969 11.43915; -0.55639 0.17098 -5.54503 -702.05280; 0.29525 0.95422 3.26479 416.17944; 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 May 15 16:36:15 HKT 2023 /media/data/structure/Sub-112/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm ***FAILED*** (p=0.0000, pval=0.0000 < threshold=0.0050) Command exited with non-zero status 1 @#@FSTIME 2023:05:15:16:36:15 talairach_afd N 4 e 0.00 S 0.00 U 0.00 P 100% M 5956 F 0 R 218 W 0 c 0 w 1 I 0 O 0 L 2.88 2.86 2.55 @#@FSLOADPOST 2023:05:15:16:36:15 talairach_afd N 4 2.88 2.86 2.55 Manual Talairach alignment may be necessary, or include the -notal-check flag to skip this test, making sure the -notal-check flag follows -all or -autorecon1 in the command string. See: http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Talairach INFO: Trying MINC mritotal to perform Talairach align... #-------------------------------------------- #@# Talairach Mon May 15 16:36:15 HKT 2023 /media/data/structure/Sub-112/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/data/structure/Sub-112/mri /home/lab/freesurfer/bin/mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --ants-n4 --n 1 --proto-iters 1000 --distance 50 nIters 1 mri_nu_correct.mni 7.3.2 Linux lab-Super-Server 5.19.0-32-generic #33~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 30 17:03:34 UTC 2 x86_64 x86_64 x86_64 GNU/Linux Mon May 15 16:36:15 HKT 2023 tmpdir is ./tmp.mri_nu_correct.mni.45747 cd /media/data/structure/Sub-112/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o ./tmp.mri_nu_correct.mni.45747/nu0.mgz --dtype uchar AntsN4BiasFieldCorrectionFs done mri_convert ./tmp.mri_nu_correct.mni.45747/nu0.mgz orig_nu.mgz --like orig.mgz --conform mri_convert ./tmp.mri_nu_correct.mni.45747/nu0.mgz orig_nu.mgz --like orig.mgz --conform reading from ./tmp.mri_nu_correct.mni.45747/nu0.mgz... TR=7.24, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -4.27826e-09, 0) j_ras = (7.45058e-09, -4.65661e-10, -1) k_ras = (-6.1118e-10, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to orig_nu.mgz... Mon May 15 16:39:12 HKT 2023 mri_nu_correct.mni done @#@FSTIME 2023:05:15:16:36:15 mri_nu_correct.mni N 12 e 176.18 S 0.34 U 175.74 P 99% M 519568 F 0 R 187523 W 0 c 128 w 95 I 0 O 25504 L 2.88 2.86 2.55 @#@FSLOADPOST 2023:05:15:16:39:12 mri_nu_correct.mni N 12 3.34 3.05 2.68 talairach --i orig_nu.mgz --xfm transforms/talairach.auto.xfm /media/data/structure/Sub-112/mri /home/lab/freesurfer/bin/talairach --i orig_nu.mgz --xfm transforms/talairach.auto.xfm talairach 7.3.2 Linux lab-Super-Server 5.19.0-32-generic #33~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 30 17:03:34 UTC 2 x86_64 x86_64 x86_64 GNU/Linux Mon May 15 16:39:12 HKT 2023 tmpdir is transforms/tmp.talairach.45932 /media/data/structure/Sub-112/mri mri_convert orig_nu.mgz transforms/tmp.talairach.45932/src.mnc mri_convert orig_nu.mgz transforms/tmp.talairach.45932/src.mnc reading from orig_nu.mgz... TR=7.24, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -4.27826e-09, 0) j_ras = (7.45058e-09, -4.65661e-10, -1) k_ras = (-6.1118e-10, 1, 0) writing to transforms/tmp.talairach.45932/src.mnc... -------------------------------------------- mritotal -verbose -debug -clobber -modeldir /home/lab/freesurfer/mni/bin/../share/mni_autoreg -protocol icbm transforms/tmp.talairach.45932/src.mnc transforms/talairach.auto.xfm Transforming slices:................................................................................................................................Done Copying chunks:......................................................................................................................................................Done. Copying chunks:..........................................................................................................Done. Transforming slices:......................................................................................................................................................Done Copying chunks:....................................................................................................................Done. Copying chunks:....................................................................................................................Done. Source volume size: 74 by 108 by 106 Source voxel size = 2.000 2.000 2.000 Source min/max real range = -0.000 180.714 Source min/max voxel= -0.000 180.714 Target volume size: 58 by 110 by 86 Target voxel = 2.000 2.000 2.000 Target min/max real range= 0.970 123.710 Target min/max voxel = -0.000 123.710 AFTER init_params() Transform matrix = 1.0000 0.0000 0.0000 -0.0837 0.0000 1.0000 0.0000 -16.7880 0.0000 0.0000 1.0000 66.5869 Transform center = 0.411 -0.803 -57.133 Transform rotations = 0.000 0.000 0.000 Transform trans = -0.084 -16.788 66.587 Transform scale = 1.000 1.000 1.000 Transform shear = 0.000 0.000 0.000 Target volume is smallest Lattice step size = 4.000 4.000 4.000 Lattice start = -85.095 -125.510 -47.250 Lattice count = 43 55 29 Source volume size: 84 by 118 by 116 Source voxel size = 2.000 2.000 2.000 Source min/max real range = -0.000 194.938 Source min/max voxel= -0.000 194.938 Target volume size: 68 by 110 by 86 Target voxel = 2.000 2.000 2.000 Target min/max real range= -0.000 144.070 Target min/max voxel = -0.000 144.070 AFTER init_params() Transform matrix = 0.7372 -0.1155 -0.0105 -6.1158 0.0630 0.4556 -0.5877 -66.3397 0.0973 0.5797 0.4598 149.8732 Transform center = 0.411 -0.803 -57.133 Transform rotations = 0.900 -0.131 0.085 Transform trans = -5.532 -32.297 180.311 Transform scale = 0.746 0.746 0.746 Transform shear = 0.000 -0.000 -0.000 Target volume is smallest Lattice step size = 4.000 4.000 4.000 Lattice start = -85.095 -125.510 -57.250 Lattice count = 43 55 34 Source volume size: 84 by 118 by 116 Source voxel size = 2.000 2.000 2.000 Source min/max real range = 0.098 21.754 Source min/max voxel= 0.098 22.158 Target volume size: 68 by 110 by 86 Target voxel = 2.000 2.000 2.000 Target min/max real range= 0.037 11.652 Target min/max voxel = 0.037 11.652 AFTER init_params() Transform matrix = 0.7353 0.0766 -0.2158 -11.0063 -0.2215 0.0533 -0.7356 -104.3058 -0.0582 0.7644 0.0730 131.2086 Transform center = 0.411 -0.803 -57.133 Transform rotations = 1.476 0.076 -0.293 Transform trans = 1.154 -61.608 183.535 Transform scale = 0.770 0.770 0.770 Transform shear = 0.000 -0.000 0.000 Target volume is smallest Lattice step size = 4.000 4.000 4.000 Lattice start = -65.095 -105.510 -57.250 Lattice count = 35 46 34 Source volume size: 84 by 118 by 116 Source voxel size = 2.000 2.000 2.000 Source min/max real range = 0.098 21.754 Source min/max voxel= 0.098 22.158 Target volume size: 68 by 110 by 86 Target voxel = 2.000 2.000 2.000 Target min/max real range= 0.037 11.652 Target min/max voxel = 0.037 11.652 AFTER init_params() Transform matrix = 0.7353 0.0766 -0.2158 -11.0063 -0.2215 0.0533 -0.7356 -104.3058 -0.0582 0.7644 0.0730 133.2086 Transform center = 0.411 -0.803 -57.133 Transform rotations = 1.476 0.076 -0.293 Transform trans = 1.154 -61.608 185.535 Transform scale = 0.770 0.770 0.770 Transform shear = 0.000 -0.000 -0.000 Target volume is smallest Lattice step size = 4.000 4.000 4.000 Lattice start = -65.095 -105.510 -57.250 Lattice count = 35 46 34 Source volume size: 84 by 118 by 116 Source voxel size = 2.000 2.000 2.000 Source min/max real range = 0.098 21.754 Source min/max voxel= 0.098 22.158 Target volume size: 68 by 110 by 86 Target voxel = 2.000 2.000 2.000 Target min/max real range= 0.037 11.652 Target min/max voxel = 0.037 11.652 AFTER init_params() Transform matrix = 0.7353 0.0766 -0.2158 -11.0063 -0.2215 0.0533 -0.7356 -102.3057 -0.0582 0.7644 0.0730 133.2086 Transform center = 0.411 -0.803 -57.133 Transform rotations = 1.476 0.076 -0.293 Transform trans = 1.154 -59.608 185.535 Transform scale = 0.770 0.770 0.770 Transform shear = -0.000 -0.000 -0.000 Target volume is smallest Lattice step size = 4.000 4.000 4.000 Lattice start = -65.095 -105.510 -57.250 Lattice count = 35 46 34 Source volume size: 84 by 118 by 116 Source voxel size = 2.000 2.000 2.000 Source min/max real range = 0.098 21.754 Source min/max voxel= 0.098 22.158 Target volume size: 68 by 110 by 86 Target voxel = 2.000 2.000 2.000 Target min/max real range= 0.037 11.652 Target min/max voxel = 0.037 11.652 AFTER init_params() Transform matrix = 0.7353 0.0766 -0.2158 -9.0064 -0.2215 0.0533 -0.7356 -102.3057 -0.0582 0.7644 0.0730 133.2086 Transform center = 0.411 -0.803 -57.133 Transform rotations = 1.476 0.076 -0.293 Transform trans = 3.154 -59.608 185.535 Transform scale = 0.770 0.770 0.770 Transform shear = -0.000 -0.000 0.000 Target volume is smallest Lattice step size = 4.000 4.000 4.000 Lattice start = -65.095 -105.510 -57.250 Lattice count = 35 46 34 lta_convert --src orig_nu.mgz --trg /home/lab/freesurfer/mni/bin/../share/mni_autoreg/average_305.mnc --inxfm transforms/talairach.auto.xfm --outlta transforms/talairach.auto.xfm.lta --subject fsaverage Mon May 15 16:39:23 HKT 2023 talairach done @#@FSTIME 2023:05:15:16:39:12 talairach N 4 e 11.41 S 0.37 U 11.06 P 100% M 40640 F 0 R 74465 W 0 c 27 w 217 I 0 O 100272 L 3.34 3.05 2.68 @#@FSLOADPOST 2023:05:15:16:39:23 talairach N 4 3.26 3.05 2.69 cp transforms/talairach.auto.xfm transforms/talairach.xfm lta_convert --src orig.mgz --trg /home/lab/freesurfer/average/mni305.cor.mgz --inxfm transforms/talairach.xfm --outlta transforms/talairach.xfm.lta --subject fsaverage --ltavox2vox 7.3.2 --src: orig.mgz src image (geometry). --trg: /home/lab/freesurfer/average/mni305.cor.mgz trg image (geometry). --inmni: transforms/talairach.xfm input MNI/XFM transform. --outlta: transforms/talairach.xfm.lta output LTA. --s: fsaverage subject name --ltavox2vox: output LTA as VOX_TO_VOX transform. LTA read, type : 1 0.73527 0.07658 -0.21583 -7.00635; -0.22149 0.05335 -0.73564 -102.30571; -0.05820 0.76442 0.07296 133.20863; 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 May 15 16:39:25 HKT 2023 /media/data/structure/Sub-112/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm ***FAILED*** (p=0.0000, pval=0.0000 < threshold=0.0050) Command exited with non-zero status 1 @#@FSTIME 2023:05:15:16:39:25 talairach_afd N 4 e 0.00 S 0.00 U 0.00 P 100% M 6580 F 0 R 262 W 0 c 1 w 1 I 0 O 0 L 3.26 3.05 2.69 @#@FSLOADPOST 2023:05:15:16:39:25 talairach_afd N 4 3.26 3.05 2.69 Manual Talairach alignment may be necessary, or include the -notal-check flag to skip this test, making sure the -notal-check flag follows -all or -autorecon1 in the command string. See: http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Talairach ERROR: Talairach failed! Linux lab-Super-Server 5.19.0-32-generic #33~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 30 17:03:34 UTC 2 x86_64 x86_64 x86_64 GNU/Linux recon-all -s Sub-112 exited with ERRORS at Mon May 15 16:39:25 HKT 2023 To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting #New# invocation of recon-all Mon May 15 16:44:50 HKT 2023 cd /media/data/structure/Sub-112 setenv SUBJECTS_DIR /media/data/structure /home/lab/freesurfer/bin/recon-all -all -subjid Sub-112 subjid Sub-112 setenv SUBJECTS_DIR /media/data/structure FREESURFER_HOME /home/lab/freesurfer Actual FREESURFER_HOME /home/lab/freesurfer build-stamp.txt: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 Linux lab-Super-Server 5.19.0-32-generic #33~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 30 17:03:34 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 4092252 kbytes maxproc 127579 maxlocks unlimited maxsignal 127579 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 31Gi 2.9Gi 19Gi 99Mi 8.7Gi 27Gi Swap: 2.0Gi 0B 2.0Gi ######################################## program versions used 7.3.2 (freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275) 7.3.2 ProgramName: lta_convert ProgramArguments: lta_convert -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_and ProgramArguments: mri_and -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_annotation2label ProgramArguments: mri_annotation2label -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_aparc2aseg ProgramArguments: mri_aparc2aseg -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2volseg ProgramArguments: mri_surf2volseg -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_binarize ProgramArguments: mri_binarize -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_label ProgramArguments: mri_ca_label -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_normalize ProgramArguments: mri_ca_normalize -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_ca_register ProgramArguments: mri_ca_register -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_cc ProgramArguments: mri_cc -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_overlap ProgramArguments: mri_compute_overlap -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_compute_seg_overlap ProgramArguments: mri_compute_seg_overlap -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concat ProgramArguments: mri_concat -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_concatenate_lta ProgramArguments: mri_concatenate_lta -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_diff ProgramArguments: mri_diff -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_edit_wm_with_aseg ProgramArguments: mri_edit_wm_with_aseg -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_em_register ProgramArguments: mri_em_register -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fill ProgramArguments: mri_fill -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fuse_segmentations ProgramArguments: mri_fuse_segmentations -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_fwhm ProgramArguments: mri_fwhm -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_gcut ProgramArguments: mri_gcut -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_info ProgramArguments: mri_info -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2label ProgramArguments: mri_label2label -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_label2vol ProgramArguments: mri_label2vol -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_log_likelihood ProgramArguments: mri_log_likelihood -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_mask ProgramArguments: mri_mask -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_matrix_multiply ProgramArguments: mri_matrix_multiply -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize ProgramArguments: mri_normalize -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_normalize_tp2 ProgramArguments: mri_normalize_tp2 -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_or ProgramArguments: mri_or -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_hypointensities ProgramArguments: mri_relabel_hypointensities -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_relabel_nonwm_hypos ProgramArguments: mri_relabel_nonwm_hypos -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_remove_neck ProgramArguments: mri_remove_neck -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.2 ProgramName: mri_robust_register ProgramArguments: mri_robust_register -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 7.3.2 ProgramName: mri_robust_template ProgramArguments: mri_robust_template -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_anatomical_stats ProgramArguments: mris_anatomical_stats -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_ca_label ProgramArguments: mris_ca_label -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_calc ProgramArguments: mris_calc -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_convert ProgramArguments: mris_convert -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature ProgramArguments: mris_curvature -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_curvature_stats ProgramArguments: mris_curvature_stats -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_diff ProgramArguments: mris_diff -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:50-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_divide_parcellation ProgramArguments: mris_divide_parcellation -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segment ProgramArguments: mri_segment -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_segstats ProgramArguments: mri_segstats -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_euler_number ProgramArguments: mris_euler_number -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_fix_topology ProgramArguments: mris_fix_topology -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_jacobian ProgramArguments: mris_jacobian -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_label2annot ProgramArguments: mris_label2annot -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_left_right_register ProgramArguments: mris_left_right_register -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_place_surface ProgramArguments: mris_place_surface -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mrisp_paint ProgramArguments: mrisp_paint -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_register ProgramArguments: mris_register -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_smooth ProgramArguments: mris_smooth -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_sphere ProgramArguments: mris_sphere -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_surface_stats ProgramArguments: mris_surface_stats -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_stats2seg ProgramArguments: mri_stats2seg -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness ProgramArguments: mris_thickness -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_thickness_diff ProgramArguments: mris_thickness_diff -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_topo_fixer ProgramArguments: mris_topo_fixer -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2surf ProgramArguments: mri_surf2surf -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surf2vol ProgramArguments: mri_surf2vol -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_surfcluster ProgramArguments: mri_surfcluster -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mris_volmask ProgramArguments: mris_volmask -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_tessellate ProgramArguments: mri_tessellate -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2surf ProgramArguments: mri_vol2surf -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_vol2vol ProgramArguments: mri_vol2vol -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_voldiff ProgramArguments: mri_voldiff -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: mri_watershed ProgramArguments: mri_watershed -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 ProgramName: tkregister2 ProgramArguments: tkregister2_cmdl -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 mri_motion_correct.fsl 7.3.2 mri_convert -all-info ProgramName: mri_convert ProgramArguments: mri_convert -all-info ProgramVersion: 7.3.2 TimeStamp: 2023/05/15-08:44:51-GMT BuildTime: Aug 4 2022 06:17:15 BuildStamp: freesurfer-linux-ubuntu22_x86_64-7.3.2-20220804-6354275 User: lab Machine: lab-Super-Server Platform: Linux PlatformVersion: 5.19.0-32-generic CompilerName: GCC CompilerVersion: 8.4.0 Program nu_correct, built from: Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34 ####################################### GCADIR /home/lab/freesurfer/average GCA RB_all_2020-01-02.gca GCASkull RB_all_withskull_2020_01_02.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /home/lab/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### #-------------------------------------------- #@# MotionCor Mon May 15 16:44:51 HKT 2023 Found 1 runs /media/data/structure/Sub-112/mri/orig/001.mgz Checking for (invalid) multi-frame inputs... INFO: /media/data/structure/Sub-112/mri/rawavg.mgz does not need updating mri_info /media/data/structure/Sub-112/mri/rawavg.mgz rawavg.mgz ======================================== Volume information for /media/data/structure/Sub-112/mri/rawavg.mgz type: MGH dimensions: 340 x 512 x 462 voxel sizes: 0.500000, 0.500000, 0.500000 type: SHORT (4) fov: 256.000 dof: 1 xstart: -85.0, xend: 85.0 ystart: -128.0, yend: 128.0 zstart: -115.5, zend: 115.5 TR: 7.24 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 = 0.9967, y_r = 0.0554, z_r = 0.0586, c_r = 0.2706 : x_a = -0.0552, y_a = 0.9985, z_a = -0.0057, c_a = -8.5150 : x_s = -0.0588, y_s = 0.0024, z_s = 0.9983, c_s = -30.0337 talairach xfm : Orientation : RAS Primary Slice Direction: axial voxel to ras transform: 0.4984 0.0277 0.0293 -98.3105 -0.0276 0.4992 -0.0028 -130.9731 -0.0294 0.0012 0.4991 -140.6458 0.0000 0.0000 0.0000 1.0000 voxel-to-ras determinant 0.125 ras to voxel transform: 1.9935 -0.1103 -0.1176 164.9890 0.1108 1.9969 0.0049 273.1195 0.1172 -0.0114 1.9965 290.8350 0.0000 0.0000 0.0000 1.0000 INFO: /media/data/structure/Sub-112/mri/orig.mgz does not need updating mri_info /media/data/structure/Sub-112/mri/orig.mgz orig.mgz ======================================== Volume information for /media/data/structure/Sub-112/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: 7.24 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 = 0.2706 : x_a = -0.0000, y_a = -0.0000, z_a = 1.0000, c_a = -8.5149 : x_s = 0.0000, y_s = -1.0000, z_s = 0.0000, c_s = -30.0337 talairach xfm : /media/data/structure/Sub-112/mri/transforms/talairach.xfm Orientation : LIA Primary Slice Direction: coronal voxel to ras transform: -1.0000 0.0000 -0.0000 128.2706 -0.0000 -0.0000 1.0000 -136.5150 0.0000 -1.0000 0.0000 97.9663 0.0000 0.0000 0.0000 1.0000 voxel-to-ras determinant -1 ras to voxel transform: -1.0000 -0.0000 -0.0000 128.2706 -0.0000 -0.0000 -1.0000 97.9663 -0.0000 1.0000 -0.0000 136.5149 -0.0000 -0.0000 -0.0000 1.0000 #-------------------------------------------- #@# Talairach Mon May 15 16:44:53 HKT 2023 /media/data/structure/Sub-112/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/data/structure/Sub-112/mri /home/lab/freesurfer/bin/mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --ants-n4 --n 1 --proto-iters 1000 --distance 50 nIters 1 mri_nu_correct.mni 7.3.2 Linux lab-Super-Server 5.19.0-32-generic #33~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 30 17:03:34 UTC 2 x86_64 x86_64 x86_64 GNU/Linux Mon May 15 16:44:53 HKT 2023 tmpdir is ./tmp.mri_nu_correct.mni.46472 cd /media/data/structure/Sub-112/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o ./tmp.mri_nu_correct.mni.46472/nu0.mgz --dtype uchar AntsN4BiasFieldCorrectionFs done mri_convert ./tmp.mri_nu_correct.mni.46472/nu0.mgz orig_nu.mgz --like orig.mgz --conform mri_convert ./tmp.mri_nu_correct.mni.46472/nu0.mgz orig_nu.mgz --like orig.mgz --conform reading from ./tmp.mri_nu_correct.mni.46472/nu0.mgz... TR=7.24, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -4.27826e-09, 0) j_ras = (7.45058e-09, -4.65661e-10, -1) k_ras = (-6.1118e-10, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to orig_nu.mgz... Mon May 15 16:47:38 HKT 2023 mri_nu_correct.mni done @#@FSTIME 2023:05:15:16:44:53 mri_nu_correct.mni N 12 e 165.06 S 0.31 U 164.66 P 99% M 519480 F 0 R 212596 W 0 c 159 w 96 I 0 O 25504 L 2.14 2.43 2.51 @#@FSLOADPOST 2023:05:15:16:47:38 mri_nu_correct.mni N 12 3.17 2.79 2.64 talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm talairach_avi log file is transforms/talairach_avi.log... mv -f /media/data/structure/Sub-112/mri/talsrcimg_to_711-2C_as_mni_average_305_t4_vox2vox.txt /media/data/structure/Sub-112/mri/transforms/talsrcimg_to_711-2C_as_mni_average_305_t4_vox2vox.txt Started at Mon May 15 16:47:38 HKT 2023 Ended at Mon May 15 16:47:57 HKT 2023 talairach_avi done @#@FSTIME 2023:05:15:16:47:38 talairach_avi N 4 e 19.64 S 1.33 U 12.32 P 69% M 255608 F 0 R 482604 W 0 c 31 w 184 I 0 O 295304 L 3.17 2.79 2.64 @#@FSLOADPOST 2023:05:15:16:47:57 talairach_avi N 4 2.98 2.77 2.64 INFO: transforms/talairach.xfm already exists! The new transforms/talairach.auto.xfm will not be copied to transforms/talairach.xfm This is done to retain any edits made to transforms/talairach.xfm Add the -clean-tal flag to recon-all to overwrite transforms/talairach.xfm #-------------------------------------------- #@# Talairach Failure Detection Mon May 15 16:47:57 HKT 2023 /media/data/structure/Sub-112/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm ***FAILED*** (p=0.0000, pval=0.0000 < threshold=0.0050) Command exited with non-zero status 1 @#@FSTIME 2023:05:15:16:47:57 talairach_afd N 4 e 0.00 S 0.00 U 0.00 P 100% M 6556 F 0 R 262 W 0 c 0 w 1 I 0 O 0 L 2.98 2.77 2.64 @#@FSLOADPOST 2023:05:15:16:47:57 talairach_afd N 4 2.98 2.77 2.64 Manual Talairach alignment may be necessary, or include the -notal-check flag to skip this test, making sure the -notal-check flag follows -all or -autorecon1 in the command string. See: http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Talairach INFO: Retrying Talairach align using 3T-based atlas... #-------------------------------------------- #@# Talairach Mon May 15 16:47:57 HKT 2023 /media/data/structure/Sub-112/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/data/structure/Sub-112/mri /home/lab/freesurfer/bin/mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --ants-n4 --n 1 --proto-iters 1000 --distance 50 nIters 1 mri_nu_correct.mni 7.3.2 Linux lab-Super-Server 5.19.0-32-generic #33~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 30 17:03:34 UTC 2 x86_64 x86_64 x86_64 GNU/Linux Mon May 15 16:47:58 HKT 2023 tmpdir is ./tmp.mri_nu_correct.mni.46728 cd /media/data/structure/Sub-112/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o ./tmp.mri_nu_correct.mni.46728/nu0.mgz --dtype uchar AntsN4BiasFieldCorrectionFs done mri_convert ./tmp.mri_nu_correct.mni.46728/nu0.mgz orig_nu.mgz --like orig.mgz --conform mri_convert ./tmp.mri_nu_correct.mni.46728/nu0.mgz orig_nu.mgz --like orig.mgz --conform reading from ./tmp.mri_nu_correct.mni.46728/nu0.mgz... TR=7.24, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -4.27826e-09, 0) j_ras = (7.45058e-09, -4.65661e-10, -1) k_ras = (-6.1118e-10, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to orig_nu.mgz... Mon May 15 16:50:42 HKT 2023 mri_nu_correct.mni done @#@FSTIME 2023:05:15:16:47:58 mri_nu_correct.mni N 12 e 164.12 S 0.35 U 163.67 P 99% M 519620 F 0 R 212631 W 0 c 129 w 93 I 0 O 25504 L 2.98 2.77 2.64 @#@FSLOADPOST 2023:05:15:16:50:42 mri_nu_correct.mni N 12 3.08 2.91 2.72 talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm --atlas 3T18yoSchwartzReactN32_as_orig talairach_avi log file is transforms/talairach_avi.log... mv -f /media/data/structure/Sub-112/mri/talsrcimg_to_3T18yoSchwartzReactN32_as_orig_t4_vox2vox.txt /media/data/structure/Sub-112/mri/transforms/talsrcimg_to_3T18yoSchwartzReactN32_as_orig_t4_vox2vox.txt Started at Mon May 15 16:50:42 HKT 2023 Ended at Mon May 15 16:51:02 HKT 2023 talairach_avi done @#@FSTIME 2023:05:15:16:50:42 talairach_avi N 6 e 20.64 S 1.34 U 13.30 P 70% M 255560 F 0 R 493240 W 0 c 39 w 188 I 0 O 295296 L 3.08 2.91 2.72 @#@FSLOADPOST 2023:05:15:16:51:02 talairach_avi N 6 2.90 2.89 2.72 cp transforms/talairach.auto.xfm transforms/talairach.xfm lta_convert --src orig.mgz --trg /home/lab/freesurfer/average/mni305.cor.mgz --inxfm transforms/talairach.xfm --outlta transforms/talairach.xfm.lta --subject fsaverage --ltavox2vox 7.3.2 --src: orig.mgz src image (geometry). --trg: /home/lab/freesurfer/average/mni305.cor.mgz trg image (geometry). --inmni: transforms/talairach.xfm input MNI/XFM transform. --outlta: transforms/talairach.xfm.lta output LTA. --s: fsaverage subject name --ltavox2vox: output LTA as VOX_TO_VOX transform. LTA read, type : 1 0.92356 0.15435 0.07969 11.43915; -0.55639 0.17098 -5.54503 -702.05280; 0.29525 0.95422 3.26479 416.17944; 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 May 15 16:51:04 HKT 2023 /media/data/structure/Sub-112/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm ***FAILED*** (p=0.0000, pval=0.0000 < threshold=0.0050) Command exited with non-zero status 1 @#@FSTIME 2023:05:15:16:51:05 talairach_afd N 4 e 0.00 S 0.00 U 0.00 P 100% M 5968 F 0 R 218 W 0 c 0 w 1 I 0 O 0 L 2.83 2.87 2.71 @#@FSLOADPOST 2023:05:15:16:51:05 talairach_afd N 4 2.83 2.87 2.71 Manual Talairach alignment may be necessary, or include the -notal-check flag to skip this test, making sure the -notal-check flag follows -all or -autorecon1 in the command string. See: http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Talairach INFO: Trying MINC mritotal to perform Talairach align... #-------------------------------------------- #@# Talairach Mon May 15 16:51:05 HKT 2023 /media/data/structure/Sub-112/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/data/structure/Sub-112/mri /home/lab/freesurfer/bin/mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --ants-n4 --n 1 --proto-iters 1000 --distance 50 nIters 1 mri_nu_correct.mni 7.3.2 Linux lab-Super-Server 5.19.0-32-generic #33~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 30 17:03:34 UTC 2 x86_64 x86_64 x86_64 GNU/Linux Mon May 15 16:51:05 HKT 2023 tmpdir is ./tmp.mri_nu_correct.mni.46988 cd /media/data/structure/Sub-112/mri AntsN4BiasFieldCorrectionFs -i orig.mgz -o ./tmp.mri_nu_correct.mni.46988/nu0.mgz --dtype uchar AntsN4BiasFieldCorrectionFs done mri_convert ./tmp.mri_nu_correct.mni.46988/nu0.mgz orig_nu.mgz --like orig.mgz --conform mri_convert ./tmp.mri_nu_correct.mni.46988/nu0.mgz orig_nu.mgz --like orig.mgz --conform reading from ./tmp.mri_nu_correct.mni.46988/nu0.mgz... TR=7.24, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -4.27826e-09, 0) j_ras = (7.45058e-09, -4.65661e-10, -1) k_ras = (-6.1118e-10, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to orig_nu.mgz... Mon May 15 16:53:49 HKT 2023 mri_nu_correct.mni done @#@FSTIME 2023:05:15:16:51:05 mri_nu_correct.mni N 12 e 164.48 S 0.40 U 163.99 P 99% M 519336 F 0 R 212635 W 0 c 130 w 95 I 0 O 25504 L 2.83 2.87 2.71 @#@FSLOADPOST 2023:05:15:16:53:49 mri_nu_correct.mni N 12 3.06 2.96 2.77 talairach --i orig_nu.mgz --xfm transforms/talairach.auto.xfm /media/data/structure/Sub-112/mri /home/lab/freesurfer/bin/talairach --i orig_nu.mgz --xfm transforms/talairach.auto.xfm talairach 7.3.2 Linux lab-Super-Server 5.19.0-32-generic #33~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 30 17:03:34 UTC 2 x86_64 x86_64 x86_64 GNU/Linux Mon May 15 16:53:49 HKT 2023 tmpdir is transforms/tmp.talairach.47072 /media/data/structure/Sub-112/mri mri_convert orig_nu.mgz transforms/tmp.talairach.47072/src.mnc mri_convert orig_nu.mgz transforms/tmp.talairach.47072/src.mnc reading from orig_nu.mgz... TR=7.24, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -4.27826e-09, 0) j_ras = (7.45058e-09, -4.65661e-10, -1) k_ras = (-6.1118e-10, 1, 0) writing to transforms/tmp.talairach.47072/src.mnc... -------------------------------------------- mritotal -verbose -debug -clobber -modeldir /home/lab/freesurfer/mni/bin/../share/mni_autoreg -protocol icbm transforms/tmp.talairach.47072/src.mnc transforms/talairach.auto.xfm Transforming slices:................................................................................................................................Done Copying chunks:......................................................................................................................................................Done. Copying chunks:..........................................................................................................Done. Transforming slices:......................................................................................................................................................Done Copying chunks:....................................................................................................................Done. Copying chunks:....................................................................................................................Done. Source volume size: 74 by 108 by 106 Source voxel size = 2.000 2.000 2.000 Source min/max real range = -0.000 180.714 Source min/max voxel= -0.000 180.714 Target volume size: 58 by 110 by 86 Target voxel = 2.000 2.000 2.000 Target min/max real range= 0.970 123.710 Target min/max voxel = -0.000 123.710 AFTER init_params() Transform matrix = 1.0000 0.0000 0.0000 -0.0837 0.0000 1.0000 0.0000 -16.7880 0.0000 0.0000 1.0000 66.5869 Transform center = 0.411 -0.803 -57.133 Transform rotations = 0.000 0.000 0.000 Transform trans = -0.084 -16.788 66.587 Transform scale = 1.000 1.000 1.000 Transform shear = 0.000 0.000 0.000 Target volume is smallest Lattice step size = 4.000 4.000 4.000 Lattice start = -85.095 -125.510 -47.250 Lattice count = 43 55 29 Source volume size: 84 by 118 by 116 Source voxel size = 2.000 2.000 2.000 Source min/max real range = -0.000 194.938 Source min/max voxel= -0.000 194.938 Target volume size: 68 by 110 by 86 Target voxel = 2.000 2.000 2.000 Target min/max real range= -0.000 144.070 Target min/max voxel = -0.000 144.070 AFTER init_params() Transform matrix = 0.7372 -0.1155 -0.0105 -6.1158 0.0630 0.4556 -0.5877 -66.3397 0.0973 0.5797 0.4598 149.8732 Transform center = 0.411 -0.803 -57.133 Transform rotations = 0.900 -0.131 0.085 Transform trans = -5.532 -32.297 180.311 Transform scale = 0.746 0.746 0.746 Transform shear = 0.000 -0.000 -0.000 Target volume is smallest Lattice step size = 4.000 4.000 4.000 Lattice start = -85.095 -125.510 -57.250 Lattice count = 43 55 34 Source volume size: 84 by 118 by 116 Source voxel size = 2.000 2.000 2.000 Source min/max real range = 0.098 21.754 Source min/max voxel= 0.098 22.158 Target volume size: 68 by 110 by 86 Target voxel = 2.000 2.000 2.000 Target min/max real range= 0.037 11.652 Target min/max voxel = 0.037 11.652 AFTER init_params() Transform matrix = 0.7353 0.0766 -0.2158 -11.0063 -0.2215 0.0533 -0.7356 -104.3058 -0.0582 0.7644 0.0730 131.2086 Transform center = 0.411 -0.803 -57.133 Transform rotations = 1.476 0.076 -0.293 Transform trans = 1.154 -61.608 183.535 Transform scale = 0.770 0.770 0.770 Transform shear = 0.000 -0.000 0.000 Target volume is smallest Lattice step size = 4.000 4.000 4.000 Lattice start = -65.095 -105.510 -57.250 Lattice count = 35 46 34 Source volume size: 84 by 118 by 116 Source voxel size = 2.000 2.000 2.000 Source min/max real range = 0.098 21.754 Source min/max voxel= 0.098 22.158 Target volume size: 68 by 110 by 86 Target voxel = 2.000 2.000 2.000 Target min/max real range= 0.037 11.652 Target min/max voxel = 0.037 11.652 AFTER init_params() Transform matrix = 0.7353 0.0766 -0.2158 -11.0063 -0.2215 0.0533 -0.7356 -104.3058 -0.0582 0.7644 0.0730 133.2086 Transform center = 0.411 -0.803 -57.133 Transform rotations = 1.476 0.076 -0.293 Transform trans = 1.154 -61.608 185.535 Transform scale = 0.770 0.770 0.770 Transform shear = 0.000 -0.000 -0.000 Target volume is smallest Lattice step size = 4.000 4.000 4.000 Lattice start = -65.095 -105.510 -57.250 Lattice count = 35 46 34 Source volume size: 84 by 118 by 116 Source voxel size = 2.000 2.000 2.000 Source min/max real range = 0.098 21.754 Source min/max voxel= 0.098 22.158 Target volume size: 68 by 110 by 86 Target voxel = 2.000 2.000 2.000 Target min/max real range= 0.037 11.652 Target min/max voxel = 0.037 11.652 AFTER init_params() Transform matrix = 0.7353 0.0766 -0.2158 -11.0063 -0.2215 0.0533 -0.7356 -102.3057 -0.0582 0.7644 0.0730 133.2086 Transform center = 0.411 -0.803 -57.133 Transform rotations = 1.476 0.076 -0.293 Transform trans = 1.154 -59.608 185.535 Transform scale = 0.770 0.770 0.770 Transform shear = -0.000 -0.000 -0.000 Target volume is smallest Lattice step size = 4.000 4.000 4.000 Lattice start = -65.095 -105.510 -57.250 Lattice count = 35 46 34 Source volume size: 84 by 118 by 116 Source voxel size = 2.000 2.000 2.000 Source min/max real range = 0.098 21.754 Source min/max voxel= 0.098 22.158 Target volume size: 68 by 110 by 86 Target voxel = 2.000 2.000 2.000 Target min/max real range= 0.037 11.652 Target min/max voxel = 0.037 11.652 AFTER init_params() Transform matrix = 0.7353 0.0766 -0.2158 -9.0064 -0.2215 0.0533 -0.7356 -102.3057 -0.0582 0.7644 0.0730 133.2086 Transform center = 0.411 -0.803 -57.133 Transform rotations = 1.476 0.076 -0.293 Transform trans = 3.154 -59.608 185.535 Transform scale = 0.770 0.770 0.770 Transform shear = -0.000 -0.000 0.000 Target volume is smallest Lattice step size = 4.000 4.000 4.000 Lattice start = -65.095 -105.510 -57.250 Lattice count = 35 46 34 lta_convert --src orig_nu.mgz --trg /home/lab/freesurfer/mni/bin/../share/mni_autoreg/average_305.mnc --inxfm transforms/talairach.auto.xfm --outlta transforms/talairach.auto.xfm.lta --subject fsaverage Mon May 15 16:53:59 HKT 2023 talairach done @#@FSTIME 2023:05:15:16:53:49 talairach N 4 e 10.29 S 0.24 U 10.06 P 100% M 40584 F 0 R 74543 W 0 c 33 w 219 I 0 O 100272 L 3.06 2.96 2.77 @#@FSLOADPOST 2023:05:15:16:53:59 talairach N 4 3.05 2.96 2.78 cp transforms/talairach.auto.xfm transforms/talairach.xfm lta_convert --src orig.mgz --trg /home/lab/freesurfer/average/mni305.cor.mgz --inxfm transforms/talairach.xfm --outlta transforms/talairach.xfm.lta --subject fsaverage --ltavox2vox 7.3.2 --src: orig.mgz src image (geometry). --trg: /home/lab/freesurfer/average/mni305.cor.mgz trg image (geometry). --inmni: transforms/talairach.xfm input MNI/XFM transform. --outlta: transforms/talairach.xfm.lta output LTA. --s: fsaverage subject name --ltavox2vox: output LTA as VOX_TO_VOX transform. LTA read, type : 1 0.73527 0.07658 -0.21583 -7.00635; -0.22149 0.05335 -0.73564 -102.30571; -0.05820 0.76442 0.07296 133.20863; 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 May 15 16:54:02 HKT 2023 /media/data/structure/Sub-112/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm ***FAILED*** (p=0.0000, pval=0.0000 < threshold=0.0050) Command exited with non-zero status 1 @#@FSTIME 2023:05:15:16:54:02 talairach_afd N 4 e 0.00 S 0.00 U 0.00 P 100% M 6652 F 0 R 261 W 0 c 0 w 1 I 0 O 0 L 3.05 2.96 2.78 @#@FSLOADPOST 2023:05:15:16:54:02 talairach_afd N 4 3.05 2.96 2.78 Manual Talairach alignment may be necessary, or include the -notal-check flag to skip this test, making sure the -notal-check flag follows -all or -autorecon1 in the command string. See: http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Talairach ERROR: Talairach failed! Linux lab-Super-Server 5.19.0-32-generic #33~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 30 17:03:34 UTC 2 x86_64 x86_64 x86_64 GNU/Linux recon-all -s Sub-112 exited with ERRORS at Mon May 15 16:54:02 HKT 2023 To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting