Tue May 25 21:06:26 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02 /opt/freesurfer/bin/recon-all -autorecon-hemi lh -noparcstats -noparcstats2 -noparcstats3 -nohyporelabel -nobalabels -openmp 8 -subjid sub-02 -sd /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer subjid sub-02 setenv SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Actual FREESURFER_HOME /opt/freesurfer build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.1-f53a55a Linux blg8112.int.ets1.calculquebec.ca 3.10.0-1160.25.1.el7.x86_64 #1 SMP Wed Apr 28 21:49:45 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize unlimited coredumpsize unlimited memoryuse 67108864 kbytes vmemoryuse unlimited descriptors 51200 memorylocked unlimited maxproc 767933 maxlocks unlimited maxsignal 767933 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 196638432 69056552 118537468 2022896 9044412 122402872 Swap: 0 0 0 ######################################## program versions used $Id: recon-all,v 1.580.2.16 2017/01/18 14:11:24 zkaufman Exp $ $Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $ mri_convert.bin -all-info ProgramName: mri_convert.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:26-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 FLIRT version 5.5 $Id: talairach_avi,v 1.13 2015/12/23 04:25:17 greve Exp $ mri_convert.bin --version stable6 ProgramName: tkregister2_cmdl ProgramArguments: --all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: tkregister2.c,v 1.132.2.1 2016/08/02 21:17:29 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 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 ProgramName: mri_make_uchar ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_normalize.c,v 1.88.2.3 2016/12/27 16:47:13 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_watershed.cpp,v 1.103 2016/06/17 18:00:49 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_segment.c,v 1.43.2.1 2016/10/27 22:24:52 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_label2label.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_label2label.c,v 1.48.2.2 2016/12/12 14:15:26 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_em_register.c,v 1.105.2.1 2016/10/27 22:25:10 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_ca_normalize.c,v 1.67.2.2 2016/10/27 22:25:09 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_ca_register.c,v 1.96.2.3 2016/10/27 22:25:10 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_ca_label.c,v 1.113.2.2 2016/10/27 22:25:10 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_pretess ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_pretess.c,v 1.22 2013/08/30 18:12:25 mreuter Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_fill.c,v 1.119 2011/10/25 14:09:58 fischl Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_concatenate_lta.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_concatenate_lta.c,v 1.16 2015/11/21 00:06:20 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_smooth.c,v 1.30 2014/01/21 18:48:21 fischl Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_inflate ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_inflate.c,v 1.45 2016/01/20 23:42:15 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_euler_number.c,v 1.10 2013/01/14 22:39:14 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_volmask ProgramArguments: --all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_volmask.cpp,v 1.26.2.2 2016/11/18 20:05:18 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mrisp_paint.c,v 1.12 2016/03/22 14:47:57 fischl Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_curvature_stats.c,v 1.65 2015/06/04 20:50:51 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_calc.c,v 1.54.2.1 2016/09/27 18:51:28 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $ ProgramName: mri_robust_register.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $ ProgramName: mri_robust_template ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_or.c,v 1.5 2013/03/20 15:03:29 lzollei Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_relabel_hypointensities ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/25-21:06:27-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_relabel_hypointensities.c,v 1.13 2015/05/15 18:44:10 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ####################################### GCADIR /opt/freesurfer/average GCA RB_all_2016-05-10.vc700.gca GCASkull RB_all_withskull_2016-05-10.vc700.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /opt/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### #-------------------------------------------- #@# Tessellate lh Tue May 25 21:06:28 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz Iteration Number : 1 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 1 found - 1 modified | TOTAL: 1 pass 2 (yz+): 0 found - 1 modified | TOTAL: 1 pass 1 (yz-): 1 found - 1 modified | TOTAL: 2 pass 2 (yz-): 0 found - 1 modified | TOTAL: 2 pass 1 (xz+): 0 found - 0 modified | TOTAL: 2 pass 1 (xz-): 0 found - 0 modified | TOTAL: 2 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 1 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 1 found - 1 modified | TOTAL: 1 pass 2 (+-): 0 found - 1 modified | TOTAL: 1 pass 1 (--): 0 found - 0 modified | TOTAL: 1 pass 1 (-+): 0 found - 0 modified | TOTAL: 1 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 3 (out of 621576: 0.000483) Ambiguous edge configurations... mri_pretess done mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ slice 40: 3377 vertices, 3596 faces slice 50: 13281 vertices, 13706 faces slice 60: 26241 vertices, 26710 faces slice 70: 41092 vertices, 41634 faces slice 80: 56871 vertices, 57458 faces slice 90: 73036 vertices, 73560 faces slice 100: 87401 vertices, 87935 faces slice 110: 102678 vertices, 103243 faces slice 120: 117736 vertices, 118297 faces slice 130: 132735 vertices, 133322 faces slice 140: 147478 vertices, 148074 faces slice 150: 161925 vertices, 162522 faces slice 160: 175959 vertices, 176545 faces slice 170: 189892 vertices, 190424 faces slice 180: 200188 vertices, 200661 faces slice 190: 210728 vertices, 211187 faces slice 200: 219392 vertices, 219772 faces slice 210: 226669 vertices, 227022 faces slice 220: 232645 vertices, 232953 faces slice 230: 236690 vertices, 236897 faces slice 240: 237662 vertices, 237780 faces slice 250: 237662 vertices, 237780 faces slice 260: 237662 vertices, 237780 faces slice 270: 237662 vertices, 237780 faces slice 280: 237662 vertices, 237780 faces slice 290: 237662 vertices, 237780 faces slice 300: 237662 vertices, 237780 faces slice 310: 237662 vertices, 237780 faces slice 320: 237662 vertices, 237780 faces using the conformed surface RAS to save vertex points... writing ../surf/lh.orig.nofix using vox2ras matrix: -0.80000 0.00000 0.00000 127.99999; 0.00000 0.00000 0.80000 -127.99999; 0.00000 -0.80000 0.00000 127.99999; 0.00000 0.00000 0.00000 1.00000; rm -f ../mri/filled-pretess255.mgz mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix counting number of connected components... 237662 voxel in cpt #1: X=-118 [v=237662,e=713340,f=475560] located at (-26.996031, -30.200680, 7.881525) For the whole surface: X=-118 [v=237662,e=713340,f=475560] One single component has been found nothing to do done #-------------------------------------------- #@# Smooth1 lh Tue May 25 21:06:34 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... #-------------------------------------------- #@# Inflation1 lh Tue May 25 21:06:42 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_inflate -no-save-sulc -n 50 ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix niterations = 50 Not saving sulc Reading ../surf/lh.smoothwm.nofix avg radius = 49.5 mm, total surface area = 84419 mm^2 writing inflated surface to ../surf/lh.inflated.nofix inflation took 1.9 minutes step 000: RMS=0.140 (target=0.015) step 005: RMS=0.108 (target=0.015) step 010: RMS=0.084 (target=0.015) step 015: RMS=0.072 (target=0.015) step 020: RMS=0.064 (target=0.015) step 025: RMS=0.059 (target=0.015) step 030: RMS=0.053 (target=0.015) step 035: RMS=0.049 (target=0.015) step 040: RMS=0.046 (target=0.015) step 045: RMS=0.044 (target=0.015) step 050: RMS=0.042 (target=0.015) step 055: RMS=0.041 (target=0.015) step 060: RMS=0.041 (target=0.015) step 065: RMS=0.040 (target=0.015) step 070: RMS=0.040 (target=0.015) step 075: RMS=0.039 (target=0.015) step 080: RMS=0.039 (target=0.015) step 085: RMS=0.039 (target=0.015) step 090: RMS=0.038 (target=0.015) step 095: RMS=0.038 (target=0.015) step 100: RMS=0.038 (target=0.015) step 105: RMS=0.038 (target=0.015) step 110: RMS=0.038 (target=0.015) step 115: RMS=0.038 (target=0.015) step 120: RMS=0.038 (target=0.015) step 125: RMS=0.038 (target=0.015) step 130: RMS=0.038 (target=0.015) step 135: RMS=0.037 (target=0.015) step 140: RMS=0.037 (target=0.015) step 145: RMS=0.037 (target=0.015) step 150: RMS=0.037 (target=0.015) step 155: RMS=0.037 (target=0.015) step 160: RMS=0.037 (target=0.015) step 165: RMS=0.037 (target=0.015) step 170: RMS=0.037 (target=0.015) step 175: RMS=0.037 (target=0.015) step 180: RMS=0.037 (target=0.015) step 185: RMS=0.037 (target=0.015) step 190: RMS=0.037 (target=0.015) step 195: RMS=0.037 (target=0.015) step 200: RMS=0.037 (target=0.015) step 205: RMS=0.037 (target=0.015) step 210: RMS=0.037 (target=0.015) step 215: RMS=0.037 (target=0.015) step 220: RMS=0.037 (target=0.015) step 225: RMS=0.037 (target=0.015) step 230: RMS=0.037 (target=0.015) step 235: RMS=0.037 (target=0.015) step 240: RMS=0.037 (target=0.015) step 245: RMS=0.037 (target=0.015) step 250: RMS=0.037 (target=0.015) step 255: RMS=0.038 (target=0.015) step 260: RMS=0.039 (target=0.015) step 265: RMS=0.039 (target=0.015) step 270: RMS=0.039 (target=0.015) step 275: RMS=0.039 (target=0.015) step 280: RMS=0.039 (target=0.015) step 285: RMS=0.039 (target=0.015) step 290: RMS=0.039 (target=0.015) step 295: RMS=0.039 (target=0.015) step 300: RMS=0.039 (target=0.015) inflation complete. Not saving sulc mris_inflate utimesec 552.951816 mris_inflate stimesec 1.757761 mris_inflate ru_maxrss 379316 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 989060 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 16720 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 51114 mris_inflate ru_nivcsw 2999 #-------------------------------------------- #@# QSphere lh Tue May 25 21:08:35 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix doing quick spherical unfolding. setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... vertex spacing 0.74 +- 0.42 (0.00-->5.60) (max @ vno 108076 --> 109596) face area 0.02 +- 0.02 (-0.19-->0.51) == Number of threads available to mris_sphere for OpenMP = 8 == scaling brain by 0.309... inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=174.064, avgs=0 005/300: dt: 0.9000, rms radial error=173.804, avgs=0 010/300: dt: 0.9000, rms radial error=173.247, avgs=0 015/300: dt: 0.9000, rms radial error=172.515, avgs=0 020/300: dt: 0.9000, rms radial error=171.681, avgs=0 025/300: dt: 0.9000, rms radial error=170.790, avgs=0 030/300: dt: 0.9000, rms radial error=169.870, avgs=0 035/300: dt: 0.9000, rms radial error=168.933, avgs=0 040/300: dt: 0.9000, rms radial error=167.989, avgs=0 045/300: dt: 0.9000, rms radial error=167.042, avgs=0 050/300: dt: 0.9000, rms radial error=166.096, avgs=0 055/300: dt: 0.9000, rms radial error=165.153, avgs=0 060/300: dt: 0.9000, rms radial error=164.216, avgs=0 065/300: dt: 0.9000, rms radial error=163.286, avgs=0 070/300: dt: 0.9000, rms radial error=162.361, avgs=0 075/300: dt: 0.9000, rms radial error=161.440, avgs=0 080/300: dt: 0.9000, rms radial error=160.525, avgs=0 085/300: dt: 0.9000, rms radial error=159.614, avgs=0 090/300: dt: 0.9000, rms radial error=158.709, avgs=0 095/300: dt: 0.9000, rms radial error=157.810, avgs=0 100/300: dt: 0.9000, rms radial error=156.916, avgs=0 105/300: dt: 0.9000, rms radial error=156.026, avgs=0 110/300: dt: 0.9000, rms radial error=155.142, avgs=0 115/300: dt: 0.9000, rms radial error=154.263, avgs=0 120/300: dt: 0.9000, rms radial error=153.388, avgs=0 125/300: dt: 0.9000, rms radial error=152.519, avgs=0 130/300: dt: 0.9000, rms radial error=151.654, avgs=0 135/300: dt: 0.9000, rms radial error=150.795, avgs=0 140/300: dt: 0.9000, rms radial error=149.940, avgs=0 145/300: dt: 0.9000, rms radial error=149.090, avgs=0 150/300: dt: 0.9000, rms radial error=148.245, avgs=0 155/300: dt: 0.9000, rms radial error=147.404, avgs=0 160/300: dt: 0.9000, rms radial error=146.569, avgs=0 165/300: dt: 0.9000, rms radial error=145.738, avgs=0 170/300: dt: 0.9000, rms radial error=144.912, avgs=0 175/300: dt: 0.9000, rms radial error=144.091, avgs=0 180/300: dt: 0.9000, rms radial error=143.275, avgs=0 185/300: dt: 0.9000, rms radial error=142.463, avgs=0 190/300: dt: 0.9000, rms radial error=141.656, avgs=0 195/300: dt: 0.9000, rms radial error=140.853, avgs=0 200/300: dt: 0.9000, rms radial error=140.055, avgs=0 205/300: dt: 0.9000, rms radial error=139.262, avgs=0 210/300: dt: 0.9000, rms radial error=138.473, avgs=0 215/300: dt: 0.9000, rms radial error=137.688, avgs=0 220/300: dt: 0.9000, rms radial error=136.908, avgs=0 225/300: dt: 0.9000, rms radial error=136.132, avgs=0 230/300: dt: 0.9000, rms radial error=135.361, avgs=0 235/300: dt: 0.9000, rms radial error=134.594, avgs=0 240/300: dt: 0.9000, rms radial error=133.832, avgs=0 245/300: dt: 0.9000, rms radial error=133.073, avgs=0 250/300: dt: 0.9000, rms radial error=132.319, avgs=0 255/300: dt: 0.9000, rms radial error=131.570, avgs=0 260/300: dt: 0.9000, rms radial error=130.824, avgs=0 265/300: dt: 0.9000, rms radial error=130.083, avgs=0 270/300: dt: 0.9000, rms radial error=129.346, avgs=0 275/300: dt: 0.9000, rms radial error=128.613, avgs=0 280/300: dt: 0.9000, rms radial error=127.885, avgs=0 285/300: dt: 0.9000, rms radial error=127.160, avgs=0 290/300: dt: 0.9000, rms radial error=126.440, avgs=0 295/300: dt: 0.9000, rms radial error=125.724, avgs=0 300/300: dt: 0.9000, rms radial error=125.011, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 29348.44 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00015 epoch 2 (K=40.0), pass 1, starting sse = 5436.21 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00005 epoch 3 (K=160.0), pass 1, starting sse = 652.87 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.05/10 = 0.00461 epoch 4 (K=640.0), pass 1, starting sse = 47.41 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.12/12 = 0.01006 final distance error %24.54 writing spherical brain to ../surf/lh.qsphere.nofix spherical transformation took 0.04 hours mris_sphere utimesec 604.323088 mris_sphere stimesec 2.762549 mris_sphere ru_maxrss 379288 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 949048 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 16720 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 117098 mris_sphere ru_nivcsw 2188 FSRUNTIME@ mris_sphere 0.0403 hours 1 threads #-------------------------------------------- #@# Fix Topology Copy lh Tue May 25 21:11:00 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts cp ../surf/lh.orig.nofix ../surf/lh.orig cp ../surf/lh.inflated.nofix ../surf/lh.inflated #@# Fix Topology lh Tue May 25 21:11:00 UTC 2021 mris_fix_topology -rusage /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 sub-02 lh reading spherical homeomorphism from 'qsphere.nofix' using genetic algorithm with optimized parameters setting seed for random number genererator to 1234 ************************************************************* Topology Correction Parameters retessellation mode: genetic search number of patches/generation : 10 number of generations : 10 surface mri loglikelihood coefficient : 1.0 volume mri loglikelihood coefficient : 10.0 normal dot loglikelihood coefficient : 1.0 quadratic curvature loglikelihood coefficient : 1.0 volume resolution : 2 eliminate vertices during search : 1 initial patch selection : 1 select all defect vertices : 0 ordering dependant retessellation: 0 use precomputed edge table : 0 smooth retessellated patch : 2 match retessellated patch : 1 verbose mode : 0 ************************************************************* INFO: assuming .mgz format $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ before topology correction, eno=-118 (nv=237662, nf=475560, ne=713340, g=60) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 8 iterations marking ambiguous vertices... 9846 ambiguous faces found in tessellation segmenting defects... 72 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 26 into 24 -merging segment 68 into 64 -merging segment 67 into 64 69 defects to be corrected 0 vertices coincident reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Computing Initial Surface Statistics -face loglikelihood: -9.2793 (-4.6397) -vertex loglikelihood: -5.9435 (-2.9718) -normal dot loglikelihood: -3.5745 (-3.5745) -quad curv loglikelihood: -6.4230 (-3.2115) Total Loglikelihood : -25.2203 CORRECTING DEFECT 0 (vertices=39, convex hull=28, v0=484) After retessellation of defect 0 (v0=484), euler #=-65 (231803,693516,461648) : difference with theory (-66) = -1 CORRECTING DEFECT 1 (vertices=46, convex hull=89, v0=591) After retessellation of defect 1 (v0=591), euler #=-64 (231812,693586,461710) : difference with theory (-65) = -1 CORRECTING DEFECT 2 (vertices=7, convex hull=23, v0=738) After retessellation of defect 2 (v0=738), euler #=-63 (231814,693600,461723) : difference with theory (-64) = -1 CORRECTING DEFECT 3 (vertices=271, convex hull=116, v0=1621) After retessellation of defect 3 (v0=1621), euler #=-62 (231826,693689,461801) : difference with theory (-63) = -1 CORRECTING DEFECT 4 (vertices=25, convex hull=25, v0=1654) After retessellation of defect 4 (v0=1654), euler #=-61 (231827,693700,461812) : difference with theory (-62) = -1 CORRECTING DEFECT 5 (vertices=85, convex hull=95, v0=2232) After retessellation of defect 5 (v0=2232), euler #=-60 (231836,693766,461870) : difference with theory (-61) = -1 CORRECTING DEFECT 6 (vertices=127, convex hull=99, v0=2642) After retessellation of defect 6 (v0=2642), euler #=-59 (231846,693844,461939) : difference with theory (-60) = -1 CORRECTING DEFECT 7 (vertices=33, convex hull=67, v0=8671) After retessellation of defect 7 (v0=8671), euler #=-58 (231855,693893,461980) : difference with theory (-59) = -1 CORRECTING DEFECT 8 (vertices=18, convex hull=18, v0=10801) After retessellation of defect 8 (v0=10801), euler #=-57 (231855,693896,461984) : difference with theory (-58) = -1 CORRECTING DEFECT 9 (vertices=71, convex hull=75, v0=10883) After retessellation of defect 9 (v0=10883), euler #=-57 (231866,693964,462041) : difference with theory (-57) = 0 CORRECTING DEFECT 10 (vertices=36, convex hull=29, v0=25234) After retessellation of defect 10 (v0=25234), euler #=-56 (231868,693979,462055) : difference with theory (-56) = 0 CORRECTING DEFECT 11 (vertices=21, convex hull=30, v0=26680) After retessellation of defect 11 (v0=26680), euler #=-55 (231870,693992,462067) : difference with theory (-55) = 0 CORRECTING DEFECT 12 (vertices=64, convex hull=81, v0=31702) After retessellation of defect 12 (v0=31702), euler #=-54 (231879,694055,462122) : difference with theory (-54) = 0 CORRECTING DEFECT 13 (vertices=21, convex hull=48, v0=33639) After retessellation of defect 13 (v0=33639), euler #=-53 (231885,694091,462153) : difference with theory (-53) = 0 CORRECTING DEFECT 14 (vertices=24, convex hull=20, v0=44126) After retessellation of defect 14 (v0=44126), euler #=-52 (231885,694099,462162) : difference with theory (-52) = 0 CORRECTING DEFECT 15 (vertices=34, convex hull=44, v0=48647) After retessellation of defect 15 (v0=48647), euler #=-51 (231892,694137,462194) : difference with theory (-51) = 0 CORRECTING DEFECT 16 (vertices=27, convex hull=34, v0=51594) After retessellation of defect 16 (v0=51594), euler #=-50 (231896,694162,462216) : difference with theory (-50) = 0 CORRECTING DEFECT 17 (vertices=45, convex hull=34, v0=58884) After retessellation of defect 17 (v0=58884), euler #=-49 (231899,694183,462235) : difference with theory (-49) = 0 CORRECTING DEFECT 18 (vertices=18, convex hull=53, v0=59732) After retessellation of defect 18 (v0=59732), euler #=-48 (231904,694218,462266) : difference with theory (-48) = 0 CORRECTING DEFECT 19 (vertices=13, convex hull=27, v0=76502) After retessellation of defect 19 (v0=76502), euler #=-47 (231906,694232,462279) : difference with theory (-47) = 0 CORRECTING DEFECT 20 (vertices=66, convex hull=49, v0=79578) After retessellation of defect 20 (v0=79578), euler #=-46 (231914,694277,462317) : difference with theory (-46) = 0 CORRECTING DEFECT 21 (vertices=20, convex hull=55, v0=84718) After retessellation of defect 21 (v0=84718), euler #=-45 (231919,694316,462352) : difference with theory (-45) = 0 CORRECTING DEFECT 22 (vertices=16, convex hull=51, v0=85225) After retessellation of defect 22 (v0=85225), euler #=-44 (231923,694348,462381) : difference with theory (-44) = 0 CORRECTING DEFECT 23 (vertices=67, convex hull=45, v0=85410) After retessellation of defect 23 (v0=85410), euler #=-43 (231931,694386,462412) : difference with theory (-43) = 0 CORRECTING DEFECT 24 (vertices=365, convex hull=258, v0=95976) After retessellation of defect 24 (v0=95976), euler #=-42 (231956,694597,462599) : difference with theory (-42) = 0 CORRECTING DEFECT 25 (vertices=21, convex hull=64, v0=96592) After retessellation of defect 25 (v0=96592), euler #=-41 (231964,694649,462644) : difference with theory (-41) = 0 CORRECTING DEFECT 26 (vertices=72, convex hull=88, v0=107841) After retessellation of defect 26 (v0=107841), euler #=-40 (231978,694733,462715) : difference with theory (-40) = 0 CORRECTING DEFECT 27 (vertices=32, convex hull=26, v0=108542) After retessellation of defect 27 (v0=108542), euler #=-39 (231981,694749,462729) : difference with theory (-39) = 0 CORRECTING DEFECT 28 (vertices=15, convex hull=36, v0=111249) After retessellation of defect 28 (v0=111249), euler #=-38 (231981,694760,462741) : difference with theory (-38) = 0 CORRECTING DEFECT 29 (vertices=32, convex hull=36, v0=112596) After retessellation of defect 29 (v0=112596), euler #=-37 (231986,694794,462771) : difference with theory (-37) = 0 CORRECTING DEFECT 30 (vertices=63, convex hull=51, v0=112643) After retessellation of defect 30 (v0=112643), euler #=-36 (231990,694829,462803) : difference with theory (-36) = 0 CORRECTING DEFECT 31 (vertices=13, convex hull=30, v0=119953) After retessellation of defect 31 (v0=119953), euler #=-35 (231993,694846,462818) : difference with theory (-35) = 0 CORRECTING DEFECT 32 (vertices=41, convex hull=68, v0=120364) After retessellation of defect 32 (v0=120364), euler #=-34 (232004,694902,462864) : difference with theory (-34) = 0 CORRECTING DEFECT 33 (vertices=84, convex hull=67, v0=120502) After retessellation of defect 33 (v0=120502), euler #=-33 (232016,694966,462917) : difference with theory (-33) = 0 CORRECTING DEFECT 34 (vertices=9, convex hull=19, v0=121396) After retessellation of defect 34 (v0=121396), euler #=-32 (232016,694973,462925) : difference with theory (-32) = 0 CORRECTING DEFECT 35 (vertices=5, convex hull=19, v0=124181) After retessellation of defect 35 (v0=124181), euler #=-31 (232017,694979,462931) : difference with theory (-31) = 0 CORRECTING DEFECT 36 (vertices=1119, convex hull=379, v0=132384) After retessellation of defect 36 (v0=132384), euler #=-30 (232071,695326,463225) : difference with theory (-30) = 0 CORRECTING DEFECT 37 (vertices=112, convex hull=56, v0=134071) After retessellation of defect 37 (v0=134071), euler #=-29 (232076,695366,463261) : difference with theory (-29) = 0 CORRECTING DEFECT 38 (vertices=43, convex hull=52, v0=134198) After retessellation of defect 38 (v0=134198), euler #=-28 (232081,695402,463293) : difference with theory (-28) = 0 CORRECTING DEFECT 39 (vertices=33, convex hull=35, v0=137016) After retessellation of defect 39 (v0=137016), euler #=-27 (232085,695427,463315) : difference with theory (-27) = 0 CORRECTING DEFECT 40 (vertices=20, convex hull=22, v0=138901) After retessellation of defect 40 (v0=138901), euler #=-26 (232085,695437,463326) : difference with theory (-26) = 0 CORRECTING DEFECT 41 (vertices=9, convex hull=35, v0=142278) After retessellation of defect 41 (v0=142278), euler #=-25 (232087,695454,463342) : difference with theory (-25) = 0 CORRECTING DEFECT 42 (vertices=113, convex hull=34, v0=143827) After retessellation of defect 42 (v0=143827), euler #=-24 (232095,695490,463371) : difference with theory (-24) = 0 CORRECTING DEFECT 43 (vertices=30, convex hull=30, v0=147254) After retessellation of defect 43 (v0=147254), euler #=-23 (232097,695504,463384) : difference with theory (-23) = 0 CORRECTING DEFECT 44 (vertices=20, convex hull=22, v0=147978) After retessellation of defect 44 (v0=147978), euler #=-22 (232098,695512,463392) : difference with theory (-22) = 0 CORRECTING DEFECT 45 (vertices=51, convex hull=33, v0=152649) After retessellation of defect 45 (v0=152649), euler #=-21 (232105,695546,463420) : difference with theory (-21) = 0 CORRECTING DEFECT 46 (vertices=63, convex hull=33, v0=155193) After retessellation of defect 46 (v0=155193), euler #=-20 (232109,695568,463439) : difference with theory (-20) = 0 CORRECTING DEFECT 47 (vertices=158, convex hull=36, v0=158256) After retessellation of defect 47 (v0=158256), euler #=-19 (232120,695614,463475) : difference with theory (-19) = 0 CORRECTING DEFECT 48 (vertices=52, convex hull=29, v0=159122) After retessellation of defect 48 (v0=159122), euler #=-18 (232123,695634,463493) : difference with theory (-18) = 0 CORRECTING DEFECT 49 (vertices=89, convex hull=44, v0=163089) After retessellation of defect 49 (v0=163089), euler #=-17 (232128,695673,463528) : difference with theory (-17) = 0 CORRECTING DEFECT 50 (vertices=8, convex hull=28, v0=163962) After retessellation of defect 50 (v0=163962), euler #=-16 (232129,695684,463539) : difference with theory (-16) = 0 CORRECTING DEFECT 51 (vertices=107, convex hull=103, v0=168202) After retessellation of defect 51 (v0=168202), euler #=-15 (232138,695770,463617) : difference with theory (-15) = 0 CORRECTING DEFECT 52 (vertices=84, convex hull=50, v0=168425) After retessellation of defect 52 (v0=168425), euler #=-14 (232148,695822,463660) : difference with theory (-14) = 0 CORRECTING DEFECT 53 (vertices=350, convex hull=263, v0=168515) After retessellation of defect 53 (v0=168515), euler #=-14 (232185,696063,463864) : difference with theory (-13) = 1 CORRECTING DEFECT 54 (vertices=13, convex hull=16, v0=172575) After retessellation of defect 54 (v0=172575), euler #=-13 (232187,696073,463873) : difference with theory (-12) = 1 CORRECTING DEFECT 55 (vertices=259, convex hull=96, v0=173823) After retessellation of defect 55 (v0=173823), euler #=-12 (232202,696162,463948) : difference with theory (-11) = 1 CORRECTING DEFECT 56 (vertices=389, convex hull=63, v0=173839) After retessellation of defect 56 (v0=173839), euler #=-11 (232211,696214,463992) : difference with theory (-10) = 1 CORRECTING DEFECT 57 (vertices=64, convex hull=59, v0=173950) After retessellation of defect 57 (v0=173950), euler #=-10 (232222,696271,464039) : difference with theory (-9) = 1 CORRECTING DEFECT 58 (vertices=9, convex hull=25, v0=175350) After retessellation of defect 58 (v0=175350), euler #=-9 (232224,696282,464049) : difference with theory (-8) = 1 CORRECTING DEFECT 59 (vertices=7, convex hull=21, v0=175823) After retessellation of defect 59 (v0=175823), euler #=-8 (232226,696294,464060) : difference with theory (-7) = 1 CORRECTING DEFECT 60 (vertices=108, convex hull=116, v0=176694) After retessellation of defect 60 (v0=176694), euler #=-8 (232241,696404,464155) : difference with theory (-6) = 2 CORRECTING DEFECT 61 (vertices=55, convex hull=83, v0=177146) After retessellation of defect 61 (v0=177146), euler #=-7 (232248,696456,464201) : difference with theory (-5) = 2 CORRECTING DEFECT 62 (vertices=90, convex hull=67, v0=179500) After retessellation of defect 62 (v0=179500), euler #=-6 (232260,696521,464255) : difference with theory (-4) = 2 CORRECTING DEFECT 63 (vertices=134, convex hull=170, v0=180119) After retessellation of defect 63 (v0=180119), euler #=-3 (232269,696633,464361) : difference with theory (-3) = 0 CORRECTING DEFECT 64 (vertices=133, convex hull=131, v0=181238) After retessellation of defect 64 (v0=181238), euler #=-2 (232295,696769,464472) : difference with theory (-2) = 0 CORRECTING DEFECT 65 (vertices=38, convex hull=56, v0=183896) After retessellation of defect 65 (v0=183896), euler #=-1 (232302,696811,464508) : difference with theory (-1) = 0 CORRECTING DEFECT 66 (vertices=43, convex hull=33, v0=187070) After retessellation of defect 66 (v0=187070), euler #=0 (232308,696839,464531) : difference with theory (0) = 0 CORRECTING DEFECT 67 (vertices=56, convex hull=77, v0=189524) After retessellation of defect 67 (v0=189524), euler #=1 (232321,696914,464594) : difference with theory (1) = 0 CORRECTING DEFECT 68 (vertices=52, convex hull=95, v0=197030) After retessellation of defect 68 (v0=197030), euler #=2 (232333,696993,464662) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.71 +- 0.19 (0.05-->7.75) (max @ vno 130439 --> 143325) face area 0.00 +- 0.00 (0.00-->0.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.71 +- 0.19 (0.05-->7.75) (max @ vno 130439 --> 143325) face area 0.00 +- 0.00 (0.00-->0.00) tessellation finished, orienting corrected surface... 253 mutations (36.2%), 445 crossovers (63.8%), 266 vertices were eliminated building final representation... 5329 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=232333, nf=464662, ne=696993, g=0) writing corrected surface to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.orig... 0.000 % of the vertices (0 vertices) exhibit an orientation change topology fixing took 46.3 minutes 0 defective edges removing intersecting faces 000: 494 intersecting 001: 8 intersecting 002: 2 intersecting mris_fix_topology utimesec 2789.358234 mris_fix_topology stimesec 0.503799 mris_fix_topology ru_maxrss 761216 mris_fix_topology ru_ixrss 0 mris_fix_topology ru_idrss 0 mris_fix_topology ru_isrss 0 mris_fix_topology ru_minflt 265110 mris_fix_topology ru_majflt 0 mris_fix_topology ru_nswap 0 mris_fix_topology ru_inblock 0 mris_fix_topology ru_oublock 21936 mris_fix_topology ru_msgsnd 0 mris_fix_topology ru_msgrcv 0 mris_fix_topology ru_nsignals 0 mris_fix_topology ru_nvcsw 6487 mris_fix_topology ru_nivcsw 2593 FSRUNTIME@ mris_fix_topology lh 0.7721 hours 1 threads mris_euler_number ../surf/lh.orig euler # = v-e+f = 2g-2: 232333 - 696993 + 464662 = 2 --> 0 holes F =2V-4: 464662 = 464666-4 (0) 2E=3F: 1393986 = 1393986 (0) total defect index = 0 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_remove_intersection ../surf/lh.orig ../surf/lh.orig intersection removal took 0.00 hours removing intersecting faces 000: 46 intersecting 001: 5 intersecting writing corrected surface to ../surf/lh.orig rm ../surf/lh.inflated #-------------------------------------------- #@# Make White Surf lh Tue May 25 21:57:26 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs sub-02 lh using white.preaparc as white matter name... only generating white matter surface using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline not using aparc to prevent surfaces crossing the midline INFO: assuming MGZ format for volumes. using brain.finalsurfs as T1 volume... $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/filled.mgz... reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/brain.finalsurfs.mgz... reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/../mri/aseg.presurf.mgz... reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/wm.mgz... 51007 bright wm thresholded. 116 bright non-wm voxels segmented. reading original surface position from /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.orig... computing class statistics... border white: 510838 voxels (1.56%) border gray 492141 voxels (1.50%) WM (103.0): 102.6 +- 6.3 [70.0 --> 110.0] GM (83.0) : 81.8 +- 10.5 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 67.5 (was 70) setting MAX_BORDER_WHITE to 115.3 (was 105) setting MIN_BORDER_WHITE to 78.0 (was 85) setting MAX_CSF to 57.0 (was 40) setting MAX_GRAY to 102.7 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 67.5 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 46.4 (was 40) repositioning cortical surface to gray/white boundary smoothing T1 volume with sigma = 2.000 vertex spacing 0.67 +- 0.17 (0.01-->3.77) (max @ vno 103725 --> 106564) face area 0.19 +- 0.08 (0.00-->4.30) mean absolute distance = 1.58 +- 1.61 7550 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... spring scale = 1.25 using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=109+-3.5, GM=78+-7.0 mean inside = 100.6, mean outside = 83.3 smoothing surface for 5 iterations... inhibiting deformation at non-cortical midline structures... mean border=96.2, 165 (165) missing vertices, mean dist -0.8 [2.2 (%54.5)->0.6 (%45.5))] %41 local maxima, %44 large gradients and %10 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=blg81, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 smoothing T1 volume with sigma = 1.000 vertex spacing 0.71 +- 0.19 (0.04-->5.49) (max @ vno 103725 --> 109714) face area 0.19 +- 0.09 (0.00-->6.39) mean absolute distance = 0.65 +- 0.85 7200 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=5115342.0, rms=9.510 001: dt: 0.5000, sse=2443359.5, rms=5.733 (39.714%) 002: dt: 0.5000, sse=1588353.9, rms=3.679 (35.828%) 003: dt: 0.5000, sse=1423776.0, rms=3.094 (15.900%) 004: dt: 0.5000, sse=1383135.4, rms=2.946 (4.792%) 005: dt: 0.5000, sse=1373598.1, rms=2.892 (1.820%) rms = 2.87, time step reduction 1 of 3 to 0.250... 006: dt: 0.5000, sse=1378091.0, rms=2.868 (0.845%) 007: dt: 0.2500, sse=1153445.0, rms=1.732 (39.621%) 008: dt: 0.2500, sse=1109740.0, rms=1.439 (16.879%) 009: dt: 0.2500, sse=1096351.0, rms=1.345 (6.558%) 010: dt: 0.2500, sse=1105210.5, rms=1.289 (4.187%) rms = 1.26, time step reduction 2 of 3 to 0.125... 011: dt: 0.2500, sse=1089425.1, rms=1.263 (1.982%) rms = 1.23, time step reduction 3 of 3 to 0.062... 012: dt: 0.1250, sse=1078440.9, rms=1.233 (2.350%) positioning took 1.5 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 2 vertex label from ripped group removing 2 vertex label from ripped group mean border=95.7, 251 (104) missing vertices, mean dist -0.2 [1.0 (%43.2)->0.4 (%56.8))] %81 local maxima, %12 large gradients and % 3 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=blg81, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.500 vertex spacing 0.70 +- 0.19 (0.01-->5.74) (max @ vno 103725 --> 109714) face area 0.21 +- 0.10 (0.00-->7.63) mean absolute distance = 0.37 +- 0.60 9722 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1960275.8, rms=4.372 013: dt: 0.5000, sse=1453122.6, rms=2.764 (36.784%) 014: dt: 0.5000, sse=1408370.1, rms=2.622 (5.139%) rms = 2.77, time step reduction 1 of 3 to 0.250... 015: dt: 0.2500, sse=1221308.9, rms=1.711 (34.746%) 016: dt: 0.2500, sse=1178834.0, rms=1.197 (30.047%) 017: dt: 0.2500, sse=1155926.5, rms=1.068 (10.761%) rms = 1.02, time step reduction 2 of 3 to 0.125... 018: dt: 0.2500, sse=1159688.2, rms=1.019 (4.585%) rms = 0.98, time step reduction 3 of 3 to 0.062... 019: dt: 0.1250, sse=1144420.5, rms=0.978 (3.984%) positioning took 1.0 minutes inhibiting deformation at non-cortical midline structures... removing 2 vertex label from ripped group removing 2 vertex label from ripped group removing 2 vertex label from ripped group mean border=95.6, 229 (94) missing vertices, mean dist -0.1 [0.6 (%36.9)->0.2 (%63.1))] %90 local maxima, % 4 large gradients and % 1 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=blg81, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.250 vertex spacing 0.70 +- 0.19 (0.01-->5.76) (max @ vno 103725 --> 109714) face area 0.20 +- 0.10 (0.00-->7.47) mean absolute distance = 0.26 +- 0.45 8036 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1318284.9, rms=2.359 020: dt: 0.5000, sse=1263656.9, rms=1.997 (15.344%) rms = 2.30, time step reduction 1 of 3 to 0.250... 021: dt: 0.2500, sse=1143513.2, rms=1.330 (33.406%) 022: dt: 0.2500, sse=1134183.4, rms=1.028 (22.670%) 023: dt: 0.2500, sse=1140525.6, rms=0.964 (6.233%) rms = 0.94, time step reduction 2 of 3 to 0.125... 024: dt: 0.2500, sse=1115491.2, rms=0.939 (2.600%) rms = 0.90, time step reduction 3 of 3 to 0.062... 025: dt: 0.1250, sse=1116015.2, rms=0.904 (3.707%) positioning took 0.8 minutes inhibiting deformation at non-cortical midline structures... removing 2 vertex label from ripped group mean border=95.2, 241 (82) missing vertices, mean dist -0.0 [0.5 (%31.8)->0.2 (%68.2))] %92 local maxima, % 3 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=blg81, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 writing white matter surface to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white.preaparc... writing smoothed curvature to lh.curv 000: dt: 0.0000, sse=1198996.9, rms=1.627 026: dt: 0.5000, sse=1172403.8, rms=1.445 (11.181%) rms = 1.88, time step reduction 1 of 3 to 0.250... 027: dt: 0.2500, sse=1095619.6, rms=0.929 (35.709%) 028: dt: 0.2500, sse=1093497.4, rms=0.797 (14.213%) rms = 0.76, time step reduction 2 of 3 to 0.125... 029: dt: 0.2500, sse=1097215.5, rms=0.764 (4.164%) rms = 0.73, time step reduction 3 of 3 to 0.062... 030: dt: 0.1250, sse=1081222.4, rms=0.725 (5.045%) positioning took 0.7 minutes generating cortex label... 13 non-cortical segments detected only using segment with 12768 vertices erasing segment 1 (vno[0] = 105126) erasing segment 2 (vno[0] = 106472) erasing segment 3 (vno[0] = 167411) erasing segment 4 (vno[0] = 171105) erasing segment 5 (vno[0] = 173754) erasing segment 6 (vno[0] = 173779) erasing segment 7 (vno[0] = 177371) erasing segment 8 (vno[0] = 180016) erasing segment 9 (vno[0] = 180308) erasing segment 10 (vno[0] = 181307) erasing segment 11 (vno[0] = 187058) erasing segment 12 (vno[0] = 232219) writing cortex label to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/lh.cortex.label... writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.curv writing smoothed area to lh.area writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.area vertex spacing 0.70 +- 0.19 (0.01-->5.86) (max @ vno 103725 --> 109714) face area 0.20 +- 0.10 (0.00-->7.65) refinement took 5.9 minutes #-------------------------------------------- #@# Smooth2 lh Tue May 25 22:03:23 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... #-------------------------------------------- #@# Inflation2 lh Tue May 25 22:03:31 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_inflate -rusage /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/touch/rusage.mris_inflate.lh.dat -n 50 ../surf/lh.smoothwm ../surf/lh.inflated niterations = 50 Reading ../surf/lh.smoothwm avg radius = 49.7 mm, total surface area = 87773 mm^2 writing inflated surface to ../surf/lh.inflated writing sulcal depths to ../surf/lh.sulc step 000: RMS=0.149 (target=0.015) step 005: RMS=0.107 (target=0.015) step 010: RMS=0.081 (target=0.015) step 015: RMS=0.067 (target=0.015) step 020: RMS=0.056 (target=0.015) step 025: RMS=0.047 (target=0.015) step 030: RMS=0.041 (target=0.015) step 035: RMS=0.035 (target=0.015) step 040: RMS=0.031 (target=0.015) step 045: RMS=0.028 (target=0.015) step 050: RMS=0.025 (target=0.015) step 055: RMS=0.023 (target=0.015) step 060: RMS=0.022 (target=0.015) step 065: RMS=0.021 (target=0.015) step 070: RMS=0.020 (target=0.015) step 075: RMS=0.019 (target=0.015) step 080: RMS=0.018 (target=0.015) step 085: RMS=0.018 (target=0.015) step 090: RMS=0.017 (target=0.015) step 095: RMS=0.017 (target=0.015) step 100: RMS=0.017 (target=0.015) step 105: RMS=0.016 (target=0.015) step 110: RMS=0.016 (target=0.015) step 115: RMS=0.016 (target=0.015) step 120: RMS=0.016 (target=0.015) step 125: RMS=0.016 (target=0.015) step 130: RMS=0.015 (target=0.015) step 135: RMS=0.015 (target=0.015) step 140: RMS=0.015 (target=0.015) step 145: RMS=0.015 (target=0.015) step 150: RMS=0.015 (target=0.015) inflation complete. inflation took 1.1 minutes mris_inflate utimesec 351.427739 mris_inflate stimesec 1.819782 mris_inflate ru_maxrss 370804 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 878002 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 18160 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 43183 mris_inflate ru_nivcsw 2099 #-------------------------------------------- #@# Curv .H and .K lh Tue May 25 22:04:37 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf mris_curvature -w lh.white.preaparc total integrated curvature = 44.311*4pi (556.831) --> -43 handles ICI = 255.7, FI = 2463.5, variation=38849.244 writing Gaussian curvature to ./lh.white.preaparc.K...done. writing mean curvature to ./lh.white.preaparc.H...done. rm -f lh.white.H ln -s lh.white.preaparc.H lh.white.H rm -f lh.white.K ln -s lh.white.preaparc.K lh.white.K mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 361 vertices thresholded to be in k1 ~ [-0.16 0.81], k2 ~ [-0.08 0.05] total integrated curvature = 0.729*4pi (9.161) --> 0 handles ICI = 1.3, FI = 5.2, variation=98.629 223 vertices thresholded to be in [-0.01 0.01] writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 236 vertices thresholded to be in [-0.11 0.09] done. writing mean curvature to ./lh.inflated.H...curvature mean = -0.015, std = 0.016 done. #----------------------------------------- #@# Curvature Stats lh Tue May 25 22:06:10 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm sub-02 lh curv sulc Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/lh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ sub-02/lh.smoothwm ] Reading surface... [ ok ] Setting texture [ curv ] Reading texture... [ ok ] Setting texture [ sulc ] Reading texture...Gb_filter = 0 [ ok ] Calculating Discrete Principal Curvatures... Determining geometric order for vertex faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 403 ] Gb_filter = 0 WARN: S lookup min: -0.324950 WARN: S explicit min: 0.000000 vertex = 41 #-------------------------------------------- #@# Sphere lh Tue May 25 22:06:16 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_sphere -rusage /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... == Number of threads available to mris_sphere for OpenMP = 8 == scaling brain by 0.298... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=blg81, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 1234 -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %38.11 pass 1: epoch 2 of 3 starting distance error %20.43 unfolding complete - removing small folds... starting distance error %20.28 removing remaining folds... final distance error %20.29 MRISunfold() return, current seed 1234 -01: dt=0.0000, 396 negative triangles 097: dt=0.9900, 396 negative triangles 098: dt=0.9900, 269 negative triangles 099: dt=0.9900, 256 negative triangles 100: dt=0.9900, 253 negative triangles 101: dt=0.9900, 240 negative triangles 102: dt=0.9900, 233 negative triangles 103: dt=0.9900, 243 negative triangles 104: dt=0.9900, 231 negative triangles 105: dt=0.9900, 223 negative triangles 106: dt=0.9900, 216 negative triangles 107: dt=0.9900, 209 negative triangles 108: dt=0.9900, 203 negative triangles 109: dt=0.9900, 201 negative triangles 110: dt=0.9900, 186 negative triangles 111: dt=0.9900, 203 negative triangles 112: dt=0.9900, 176 negative triangles 113: dt=0.9900, 190 negative triangles 114: dt=0.9900, 171 negative triangles 115: dt=0.9900, 171 negative triangles 116: dt=0.9900, 151 negative triangles 117: dt=0.9900, 156 negative triangles 118: dt=0.9900, 161 negative triangles 119: dt=0.9900, 157 negative triangles 120: dt=0.9900, 151 negative triangles 121: dt=0.9900, 154 negative triangles 122: dt=0.9900, 143 negative triangles 123: dt=0.9900, 127 negative triangles 124: dt=0.9900, 121 negative triangles 125: dt=0.9900, 127 negative triangles 126: dt=0.9900, 123 negative triangles 127: dt=0.9900, 117 negative triangles 128: dt=0.9900, 112 negative triangles 129: dt=0.9900, 109 negative triangles 130: dt=0.9900, 103 negative triangles 131: dt=0.9900, 99 negative triangles 132: dt=0.9900, 81 negative triangles 133: dt=0.9900, 94 negative triangles 134: dt=0.9900, 86 negative triangles 135: dt=0.9900, 88 negative triangles 136: dt=0.9900, 82 negative triangles 137: dt=0.9900, 76 negative triangles 138: dt=0.9900, 82 negative triangles 139: dt=0.9900, 78 negative triangles 140: dt=0.9900, 81 negative triangles 141: dt=0.9900, 73 negative triangles 142: dt=0.9900, 75 negative triangles 143: dt=0.9900, 71 negative triangles 144: dt=0.9900, 58 negative triangles 145: dt=0.9900, 67 negative triangles 146: dt=0.9900, 61 negative triangles 147: dt=0.9900, 59 negative triangles 148: dt=0.9900, 62 negative triangles 149: dt=0.9900, 58 negative triangles 150: dt=0.9900, 56 negative triangles 151: dt=0.9900, 53 negative triangles 152: dt=0.9900, 53 negative triangles 153: dt=0.9900, 54 negative triangles 154: dt=0.9900, 48 negative triangles 155: dt=0.9900, 57 negative triangles 156: dt=0.9900, 50 negative triangles 157: dt=0.9900, 50 negative triangles 158: dt=0.9900, 48 negative triangles 159: dt=0.9900, 45 negative triangles 160: dt=0.9900, 48 negative triangles 161: dt=0.9900, 42 negative triangles 162: dt=0.9900, 42 negative triangles 163: dt=0.9900, 43 negative triangles 164: dt=0.9900, 42 negative triangles 165: dt=0.9900, 33 negative triangles 166: dt=0.9900, 37 negative triangles 167: dt=0.9900, 34 negative triangles 168: dt=0.9900, 26 negative triangles 169: dt=0.9900, 32 negative triangles 170: dt=0.9900, 27 negative triangles 171: dt=0.9900, 27 negative triangles 172: dt=0.9900, 32 negative triangles 173: dt=0.9900, 31 negative triangles 174: dt=0.9900, 25 negative triangles 175: dt=0.9900, 20 negative triangles 176: dt=0.9900, 21 negative triangles 177: dt=0.9900, 23 negative triangles 178: dt=0.9900, 24 negative triangles 179: dt=0.9900, 16 negative triangles 180: dt=0.9900, 16 negative triangles 181: dt=0.9900, 17 negative triangles 182: dt=0.9900, 18 negative triangles 183: dt=0.9900, 16 negative triangles 184: dt=0.9900, 14 negative triangles 185: dt=0.9900, 17 negative triangles 186: dt=0.9900, 16 negative triangles 187: dt=0.9900, 14 negative triangles 188: dt=0.9900, 14 negative triangles 189: dt=0.9900, 10 negative triangles 190: dt=0.9900, 14 negative triangles 191: dt=0.9900, 10 negative triangles 192: dt=0.9900, 14 negative triangles 193: dt=0.9900, 13 negative triangles 194: dt=0.9900, 15 negative triangles 195: dt=0.9900, 10 negative triangles 196: dt=0.9900, 14 negative triangles 197: dt=0.9900, 11 negative triangles 198: dt=0.9900, 12 negative triangles 199: dt=0.9900, 8 negative triangles 200: dt=0.9900, 7 negative triangles 201: dt=0.9900, 8 negative triangles 202: dt=0.9900, 7 negative triangles 203: dt=0.9900, 4 negative triangles 204: dt=0.9900, 4 negative triangles 205: dt=0.9900, 6 negative triangles 206: dt=0.9900, 4 negative triangles writing spherical brain to ../surf/lh.sphere spherical transformation took 0.13 hours mris_sphere utimesec 3155.766380 mris_sphere stimesec 4.033231 mris_sphere ru_maxrss 512876 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 2240499 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 16344 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 99823 mris_sphere ru_nivcsw 1294 FSRUNTIME@ mris_sphere 0.1321 hours 1 threads #-------------------------------------------- #@# Surf Reg lh Tue May 25 22:14:11 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_register -curv -rusage /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /opt/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg using smoothwm curvature for final alignment cwd /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts cmdline mris_register -curv -rusage /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /opt/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading surface from ../surf/lh.sphere... reading template parameterization from /opt/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=blg81, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height -1.000000 momentum 0.950000 nbhd_size -10 max_nbrs 10 niterations 25 nsurfaces 0 SURFACES 3 flags 16 (10) use curv 16 no sulc 0 no rigid align 0 mris->nsize 1 mris->hemisphere 0 randomSeed 0 tol=5.0e-01, sigma=0.0, host=blg81, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization -------------------- 1 Reading lh.sulc curvature mean = -0.000, std = 6.208 curvature mean = 0.029, std = 0.821 curvature mean = 0.018, std = 0.885 Starting MRISrigidBodyAlignGlobal() d=64.00 min @ (16.00, 0.00, -16.00) sse = 561052.3, tmin=1.1681 d=32.00 min @ (-8.00, -8.00, 8.00) sse = 357866.6, tmin=2.3593 d=16.00 min @ (-4.00, 0.00, 0.00) sse = 337227.2, tmin=3.6408 d=8.00 min @ (2.00, 0.00, 0.00) sse = 331627.0, tmin=4.9280 d=4.00 min @ (0.00, 1.00, 1.00) sse = 327033.1, tmin=6.2198 d=2.00 min @ (-0.50, 0.00, -0.50) sse = 325670.5, tmin=7.5103 d=1.00 min @ (0.25, 0.00, 0.00) sse = 325662.3, tmin=8.8014 d=0.50 min @ (-0.12, 0.00, 0.12) sse = 325586.5, tmin=10.0938 tol=1.0e+00, sigma=0.5, host=blg81, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000 using quadratic fit line minimization MRISrigidBodyAlignGlobal() done 10.09 min curvature mean = -0.007, std = 0.848 curvature mean = 0.006, std = 0.955 curvature mean = -0.016, std = 0.854 curvature mean = 0.002, std = 0.981 curvature mean = -0.021, std = 0.855 curvature mean = 0.001, std = 0.992 2 Reading smoothwm curvature mean = -0.032, std = 0.308 curvature mean = 0.037, std = 0.247 curvature mean = 0.039, std = 0.326 curvature mean = 0.034, std = 0.303 curvature mean = 0.017, std = 0.510 curvature mean = 0.034, std = 0.328 curvature mean = 0.008, std = 0.654 curvature mean = 0.034, std = 0.340 curvature mean = 0.003, std = 0.761 MRISregister() return, current seed 0 -01: dt=0.0000, 95 negative triangles 123: dt=0.9900, 95 negative triangles expanding nbhd size to 1 124: dt=0.9900, 118 negative triangles 125: dt=0.9900, 106 negative triangles 126: dt=0.9900, 98 negative triangles 127: dt=0.9900, 99 negative triangles 128: dt=0.9900, 89 negative triangles 129: dt=0.9900, 85 negative triangles 130: dt=0.9900, 82 negative triangles 131: dt=0.9900, 76 negative triangles 132: dt=0.9900, 72 negative triangles 133: dt=0.9900, 70 negative triangles 134: dt=0.9900, 66 negative triangles 135: dt=0.9900, 65 negative triangles 136: dt=0.9900, 65 negative triangles 137: dt=0.9900, 63 negative triangles 138: dt=0.9900, 58 negative triangles 139: dt=0.9900, 55 negative triangles 140: dt=0.9900, 54 negative triangles 141: dt=0.9900, 56 negative triangles 142: dt=0.9900, 54 negative triangles 143: dt=0.9900, 55 negative triangles 144: dt=0.9900, 52 negative triangles 145: dt=0.9900, 51 negative triangles 146: dt=0.9900, 52 negative triangles 147: dt=0.9900, 52 negative triangles 148: dt=0.9900, 48 negative triangles 149: dt=0.9900, 46 negative triangles 150: dt=0.9900, 42 negative triangles 151: dt=0.9900, 39 negative triangles 152: dt=0.9900, 41 negative triangles 153: dt=0.9900, 36 negative triangles 154: dt=0.9900, 35 negative triangles 155: dt=0.9900, 34 negative triangles 156: dt=0.9900, 36 negative triangles 157: dt=0.9900, 33 negative triangles 158: dt=0.9900, 32 negative triangles 159: dt=0.9900, 30 negative triangles 160: dt=0.9900, 31 negative triangles 161: dt=0.9900, 29 negative triangles 162: dt=0.9900, 27 negative triangles 163: dt=0.9900, 25 negative triangles 164: dt=0.9900, 27 negative triangles 165: dt=0.9900, 24 negative triangles 166: dt=0.9900, 23 negative triangles 167: dt=0.9900, 23 negative triangles 168: dt=0.9900, 24 negative triangles 169: dt=0.9900, 19 negative triangles 170: dt=0.9900, 19 negative triangles 171: dt=0.9900, 18 negative triangles 172: dt=0.9900, 20 negative triangles 173: dt=0.9900, 21 negative triangles 174: dt=0.9900, 19 negative triangles 175: dt=0.9900, 16 negative triangles 176: dt=0.9900, 16 negative triangles 177: dt=0.9900, 14 negative triangles 178: dt=0.9900, 14 negative triangles 179: dt=0.9900, 14 negative triangles 180: dt=0.9900, 11 negative triangles 181: dt=0.9900, 12 negative triangles 182: dt=0.9900, 11 negative triangles 183: dt=0.9900, 10 negative triangles 184: dt=0.9900, 8 negative triangles 185: dt=0.9900, 7 negative triangles 186: dt=0.9900, 10 negative triangles 187: dt=0.9900, 11 negative triangles 188: dt=0.9900, 9 negative triangles 189: dt=0.9900, 6 negative triangles 190: dt=0.9900, 6 negative triangles 191: dt=0.9900, 5 negative triangles 192: dt=0.9900, 4 negative triangles 193: dt=0.9900, 5 negative triangles 194: dt=0.9900, 4 negative triangles 195: dt=0.9900, 4 negative triangles 196: dt=0.9900, 3 negative triangles 197: dt=0.9900, 4 negative triangles 198: dt=0.9900, 2 negative triangles 199: dt=0.9900, 3 negative triangles 200: dt=0.9900, 1 negative triangles 201: dt=0.9900, 3 negative triangles 202: dt=0.9900, 1 negative triangles 203: dt=0.9900, 2 negative triangles 204: dt=0.9900, 2 negative triangles writing registered surface to ../surf/lh.sphere.reg... registration took 0.59 hours mris_register utimesec 10032.881518 mris_register stimesec 2.475667 mris_register ru_maxrss 420204 mris_register ru_ixrss 0 mris_register ru_idrss 0 mris_register ru_isrss 0 mris_register ru_minflt 260256 mris_register ru_majflt 0 mris_register ru_nswap 0 mris_register ru_inblock 5580 mris_register ru_oublock 16344 mris_register ru_msgsnd 0 mris_register ru_msgrcv 0 mris_register ru_nsignals 0 mris_register ru_nvcsw 121151 mris_register ru_nivcsw 34247 FSRUNTIME@ mris_register 0.5871 hours 1 threads #-------------------------------------------- #@# Jacobian white lh Tue May 25 22:49:25 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white reading surface from ../surf/lh.white.preaparc... writing curvature file ../surf/lh.jacobian_white #-------------------------------------------- #@# AvgCurv lh Tue May 25 22:49:27 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mrisp_paint -a 5 /opt/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/lh.sphere.reg... reading template parameterization from /opt/freesurfer/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/lh.avg_curv... #----------------------------------------- #@# Cortical Parc lh Tue May 25 22:49:29 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-02 lh ../surf/lh.sphere.reg /opt/freesurfer/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading atlas from /opt/freesurfer/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.8 using min determinant for regularization = 0.006 0 singular and 342 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 2507 labels changed using aseg relabeling using gibbs priors... 000: 4745 changed, 232333 examined... 001: 1139 changed, 19791 examined... 002: 299 changed, 6229 examined... 003: 109 changed, 1738 examined... 004: 49 changed, 624 examined... 005: 30 changed, 298 examined... 006: 15 changed, 175 examined... 007: 8 changed, 96 examined... 008: 6 changed, 55 examined... 009: 4 changed, 36 examined... 010: 3 changed, 25 examined... 011: 0 changed, 19 examined... 335 labels changed using aseg 000: 164 total segments, 118 labels (717 vertices) changed 001: 49 total segments, 5 labels (16 vertices) changed 002: 43 total segments, 3 labels (17 vertices) changed 003: 40 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 12 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 3469 vertices marked for relabeling... 3469 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 17 seconds. #-------------------------------------------- #@# Make Pial Surf lh Tue May 25 22:49:46 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs sub-02 lh using white.preaparc starting white location... using white.preaparc starting pial locations... using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline INFO: assuming MGZ format for volumes. using brain.finalsurfs as T1 volume... $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/filled.mgz... reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/brain.finalsurfs.mgz... reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/../mri/aseg.presurf.mgz... reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/wm.mgz... 51007 bright wm thresholded. 116 bright non-wm voxels segmented. reading original surface position from /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.orig... computing class statistics... border white: 510838 voxels (1.56%) border gray 492141 voxels (1.50%) WM (103.0): 102.6 +- 6.3 [70.0 --> 110.0] GM (83.0) : 81.8 +- 10.5 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 67.5 (was 70) setting MAX_BORDER_WHITE to 115.3 (was 105) setting MIN_BORDER_WHITE to 78.0 (was 85) setting MAX_CSF to 57.0 (was 40) setting MAX_GRAY to 102.7 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 67.5 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 46.4 (was 40) spring scale = 1.25 using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=109+-3.5, GM=78+-7.0 mean inside = 100.6, mean outside = 83.3 smoothing surface for 5 iterations... reading initial white vertex positions from white.preaparc... reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) repositioning cortical surface to gray/white boundary smoothing T1 volume with sigma = 2.000 vertex spacing 0.70 +- 0.19 (0.01-->5.86) (max @ vno 103725 --> 109714) face area 0.20 +- 0.10 (0.00-->7.69) mean absolute distance = 1.43 +- 1.44 6553 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 2 vertex label from ripped group removing 1 vertex label from ripped group deleting segment 4 with 149 points - only 0.00% unknown deleting segment 5 with 415 points - only 0.00% unknown deleting segment 7 with 16 points - only 0.00% unknown deleting segment 8 with 51 points - only 0.00% unknown removing 1 vertex label from ripped group mean border=95.9, 247 (229) missing vertices, mean dist -0.6 [2.4 (%41.2)->0.6 (%58.8))] %41 local maxima, %44 large gradients and %10 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=blg81, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 smoothing T1 volume with sigma = 1.000 vertex spacing 0.71 +- 0.19 (0.03-->6.12) (max @ vno 103725 --> 109714) face area 0.20 +- 0.10 (0.00-->7.91) mean absolute distance = 0.62 +- 0.84 6631 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=2435166.8, rms=5.546 001: dt: 0.5000, sse=1498242.2, rms=3.072 (44.604%) 002: dt: 0.5000, sse=1372986.9, rms=2.613 (14.942%) rms = 2.64, time step reduction 1 of 3 to 0.250... 003: dt: 0.2500, sse=1217105.0, rms=1.831 (29.925%) 004: dt: 0.2500, sse=1170744.1, rms=1.387 (24.281%) 005: dt: 0.2500, sse=1154170.5, rms=1.266 (8.690%) 006: dt: 0.2500, sse=1146326.8, rms=1.205 (4.835%) rms = 1.18, time step reduction 2 of 3 to 0.125... 007: dt: 0.2500, sse=1160235.8, rms=1.177 (2.327%) rms = 1.15, time step reduction 3 of 3 to 0.062... 008: dt: 0.1250, sse=1138570.4, rms=1.150 (2.299%) positioning took 1.1 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 125 points - only 0.00% unknown deleting segment 1 with 430 points - only 0.00% unknown deleting segment 2 with 20 points - only 0.00% unknown deleting segment 3 with 19 points - only 0.00% unknown deleting segment 4 with 38 points - only 0.00% unknown mean border=95.6, 225 (107) missing vertices, mean dist -0.2 [1.0 (%42.8)->0.3 (%57.2))] %81 local maxima, %11 large gradients and % 3 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=blg81, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.500 vertex spacing 0.69 +- 0.19 (0.02-->6.24) (max @ vno 103725 --> 109714) face area 0.21 +- 0.10 (0.00-->8.54) mean absolute distance = 0.36 +- 0.59 9440 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1881469.4, rms=4.188 009: dt: 0.5000, sse=1423491.2, rms=2.662 (36.438%) 010: dt: 0.5000, sse=1385040.0, rms=2.560 (3.830%) rms = 2.76, time step reduction 1 of 3 to 0.250... 011: dt: 0.2500, sse=1209452.5, rms=1.640 (35.944%) 012: dt: 0.2500, sse=1172862.9, rms=1.147 (30.076%) 013: dt: 0.2500, sse=1153191.5, rms=1.032 (9.972%) rms = 1.00, time step reduction 2 of 3 to 0.125... 014: dt: 0.2500, sse=1142010.5, rms=0.997 (3.453%) rms = 0.96, time step reduction 3 of 3 to 0.062... 015: dt: 0.1250, sse=1139898.5, rms=0.961 (3.597%) positioning took 0.9 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 143 points - only 0.00% unknown deleting segment 1 with 384 points - only 0.00% unknown deleting segment 2 with 17 points - only 0.00% unknown deleting segment 3 with 75 points - only 0.00% unknown deleting segment 4 with 49 points - only 0.00% unknown mean border=95.6, 221 (92) missing vertices, mean dist -0.1 [0.6 (%37.2)->0.2 (%62.8))] %90 local maxima, % 4 large gradients and % 1 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=blg81, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.250 vertex spacing 0.69 +- 0.19 (0.04-->6.30) (max @ vno 103725 --> 109714) face area 0.20 +- 0.10 (0.00-->8.38) mean absolute distance = 0.26 +- 0.45 7871 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1300516.6, rms=2.294 016: dt: 0.5000, sse=1248716.8, rms=1.968 (14.210%) rms = 2.29, time step reduction 1 of 3 to 0.250... 017: dt: 0.2500, sse=1136794.2, rms=1.298 (34.020%) 018: dt: 0.2500, sse=1119010.5, rms=1.002 (22.801%) 019: dt: 0.2500, sse=1108505.5, rms=0.943 (5.965%) rms = 0.93, time step reduction 2 of 3 to 0.125... 020: dt: 0.2500, sse=1102791.8, rms=0.926 (1.724%) rms = 0.89, time step reduction 3 of 3 to 0.062... 021: dt: 0.1250, sse=1098930.5, rms=0.886 (4.339%) positioning took 0.8 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 142 points - only 0.00% unknown deleting segment 1 with 372 points - only 0.00% unknown deleting segment 2 with 7 points - only 0.00% unknown deleting segment 3 with 75 points - only 0.00% unknown deleting segment 4 with 45 points - only 0.00% unknown mean border=95.2, 240 (87) missing vertices, mean dist -0.0 [0.5 (%31.8)->0.2 (%68.2))] %92 local maxima, % 3 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=blg81, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 writing white matter surface to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white... writing smoothed curvature to lh.curv 000: dt: 0.0000, sse=1177912.8, rms=1.598 022: dt: 0.5000, sse=1158886.0, rms=1.441 (9.835%) rms = 1.87, time step reduction 1 of 3 to 0.250... 023: dt: 0.2500, sse=1094279.6, rms=0.923 (35.925%) 024: dt: 0.2500, sse=1102711.2, rms=0.793 (14.093%) rms = 0.76, time step reduction 2 of 3 to 0.125... 025: dt: 0.2500, sse=1102791.5, rms=0.759 (4.320%) rms = 0.72, time step reduction 3 of 3 to 0.062... 026: dt: 0.1250, sse=1089185.0, rms=0.715 (5.760%) positioning took 0.7 minutes generating cortex label... 11 non-cortical segments detected only using segment with 12772 vertices erasing segment 1 (vno[0] = 107965) erasing segment 2 (vno[0] = 147333) erasing segment 3 (vno[0] = 167411) erasing segment 4 (vno[0] = 169998) erasing segment 5 (vno[0] = 171105) erasing segment 6 (vno[0] = 173779) erasing segment 7 (vno[0] = 177371) erasing segment 8 (vno[0] = 177402) erasing segment 9 (vno[0] = 180016) erasing segment 10 (vno[0] = 187058) writing cortex label to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/lh.cortex.label... writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.curv writing smoothed area to lh.area writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.area vertex spacing 0.70 +- 0.20 (0.01-->6.13) (max @ vno 103725 --> 109714) face area 0.20 +- 0.10 (0.00-->8.09) repositioning cortical surface to gray/csf boundary. smoothing T1 volume with sigma = 2.000 averaging target values for 5 iterations... inhibiting deformation at non-cortical midline structures... deleting segment 0 with 106 points - only 0.00% unknown deleting segment 1 with 6 points - only 0.00% unknown deleting segment 2 with 7 points - only 0.00% unknown deleting segment 3 with 66 points - only 0.00% unknown deleting segment 4 with 12 points - only 0.00% unknown deleting segment 5 with 6 points - only 0.00% unknown deleting segment 7 with 5 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 11 with 18 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 12 with 3 points - only 0.00% unknown deleting segment 13 with 60 points - only 0.00% unknown deleting segment 14 with 34 points - only 0.00% unknown smoothing surface for 5 iterations... reading initial pial vertex positions from white.preaparc... mean border=75.2, 265 (265) missing vertices, mean dist 0.9 [0.3 (%0.0)->1.3 (%100.0))] %24 local maxima, %44 large gradients and %27 min vals, 50 gradients ignored perforing initial smooth deformation to move away from white surface tol=1.0e-04, sigma=2.0, host=blg81, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=20875628.0, rms=21.186 001: dt: 0.0500, sse=16534123.0, rms=18.723 (11.625%) 002: dt: 0.0500, sse=14216126.0, rms=17.265 (7.791%) 003: dt: 0.0500, sse=12695773.0, rms=16.236 (5.955%) 004: dt: 0.0500, sse=11582775.0, rms=15.440 (4.903%) 005: dt: 0.0500, sse=10705986.0, rms=14.783 (4.258%) 006: dt: 0.0500, sse=9982064.0, rms=14.217 (3.828%) 007: dt: 0.0500, sse=9362481.0, rms=13.714 (3.538%) 008: dt: 0.0500, sse=8817938.0, rms=13.256 (3.339%) 009: dt: 0.0500, sse=8332200.0, rms=12.834 (3.187%) 010: dt: 0.0500, sse=7892767.5, rms=12.439 (3.075%) positioning took 1.1 minutes mean border=69.4, 155 (121) missing vertices, mean dist 0.9 [0.1 (%0.0)->1.3 (%100.0))] %24 local maxima, %45 large gradients and %26 min vals, 100 gradients ignored tol=1.0e-04, sigma=2.0, host=blg81, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=16554953.0, rms=18.729 011: dt: 0.0500, sse=15912846.0, rms=18.336 (2.098%) 012: dt: 0.0500, sse=15339954.0, rms=17.978 (1.952%) 013: dt: 0.0500, sse=14824244.0, rms=17.650 (1.827%) 014: dt: 0.0500, sse=14356122.0, rms=17.346 (1.720%) 015: dt: 0.0500, sse=13929178.0, rms=17.064 (1.624%) 016: dt: 0.0500, sse=13535791.0, rms=16.800 (1.546%) 017: dt: 0.0500, sse=13170811.0, rms=16.552 (1.480%) 018: dt: 0.0500, sse=12825930.0, rms=16.313 (1.441%) 019: dt: 0.0500, sse=12493471.0, rms=16.080 (1.430%) 020: dt: 0.0500, sse=12170220.0, rms=15.850 (1.430%) positioning took 1.1 minutes mean border=67.3, 168 (102) missing vertices, mean dist 0.9 [0.1 (%0.2)->1.3 (%99.8))] %24 local maxima, %44 large gradients and %26 min vals, 122 gradients ignored tol=1.0e-04, sigma=2.0, host=blg81, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=13885161.0, rms=17.037 021: dt: 0.0500, sse=13488738.0, rms=16.771 (1.566%) 022: dt: 0.0500, sse=13117094.0, rms=16.517 (1.515%) 023: dt: 0.0500, sse=12767426.0, rms=16.274 (1.470%) 024: dt: 0.0500, sse=12436467.0, rms=16.041 (1.433%) 025: dt: 0.0500, sse=12120719.0, rms=15.815 (1.408%) 026: dt: 0.0500, sse=11815854.0, rms=15.594 (1.399%) 027: dt: 0.0500, sse=11519695.0, rms=15.376 (1.398%) 028: dt: 0.0500, sse=11230743.0, rms=15.160 (1.403%) 029: dt: 0.0500, sse=10946849.0, rms=14.945 (1.418%) 030: dt: 0.0500, sse=10667125.0, rms=14.730 (1.438%) positioning took 1.1 minutes mean border=66.2, 199 (87) missing vertices, mean dist 0.8 [0.1 (%1.6)->1.1 (%98.4))] %24 local maxima, %45 large gradients and %26 min vals, 142 gradients ignored tol=1.0e-04, sigma=2.0, host=blg81, nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 1.000 averaging target values for 5 iterations... 000: dt: 0.0000, sse=11585384.0, rms=15.420 031: dt: 0.5000, sse=9569714.0, rms=13.850 (10.186%) 032: dt: 0.5000, sse=7810794.0, rms=12.319 (11.053%) 033: dt: 0.5000, sse=6278247.5, rms=10.823 (12.138%) 034: dt: 0.5000, sse=4992259.0, rms=9.377 (13.363%) 035: dt: 0.5000, sse=4020620.8, rms=8.123 (13.374%) 036: dt: 0.5000, sse=3376759.2, rms=7.169 (11.748%) 037: dt: 0.5000, sse=3067320.0, rms=6.666 (7.009%) 038: dt: 0.5000, sse=2905756.0, rms=6.384 (4.232%) 039: dt: 0.5000, sse=2834507.5, rms=6.259 (1.959%) 040: dt: 0.5000, sse=2774419.8, rms=6.146 (1.804%) rms = 6.10, time step reduction 1 of 3 to 0.250... 041: dt: 0.5000, sse=2748898.0, rms=6.102 (0.727%) 042: dt: 0.2500, sse=2368700.5, rms=5.288 (13.342%) 043: dt: 0.2500, sse=2298385.2, rms=5.134 (2.902%) rms = 5.18, time step reduction 2 of 3 to 0.125... 044: dt: 0.1250, sse=2233857.0, rms=4.982 (2.958%) 045: dt: 0.1250, sse=2155124.0, rms=4.787 (3.911%) rms = 4.76, time step reduction 3 of 3 to 0.062... 046: dt: 0.1250, sse=2142994.5, rms=4.756 (0.648%) positioning took 2.4 minutes mean border=62.9, 2584 (35) missing vertices, mean dist 0.2 [0.2 (%16.8)->0.4 (%83.2))] %46 local maxima, %24 large gradients and %24 min vals, 126 gradients ignored tol=1.0e-04, sigma=1.0, host=blg81, nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.500 averaging target values for 5 iterations... 000: dt: 0.0000, sse=3742367.2, rms=7.261 047: dt: 0.5000, sse=3598140.8, rms=7.009 (3.462%) 048: dt: 0.5000, sse=3126228.2, rms=6.217 (11.300%) rms = 6.33, time step reduction 1 of 3 to 0.250... 049: dt: 0.2500, sse=2687972.5, rms=5.303 (14.699%) 050: dt: 0.2500, sse=2537681.5, rms=4.933 (6.988%) 051: dt: 0.2500, sse=2430736.5, rms=4.673 (5.255%) 052: dt: 0.2500, sse=2276546.8, rms=4.276 (8.510%) 053: dt: 0.2500, sse=2169592.0, rms=3.977 (6.976%) 054: dt: 0.2500, sse=2048843.0, rms=3.614 (9.134%) 055: dt: 0.2500, sse=2005807.6, rms=3.475 (3.849%) 056: dt: 0.2500, sse=1954893.4, rms=3.305 (4.896%) rms = 3.30, time step reduction 2 of 3 to 0.125... 057: dt: 0.2500, sse=1954326.4, rms=3.305 (0.004%) 058: dt: 0.1250, sse=1714832.1, rms=2.283 (30.904%) 059: dt: 0.1250, sse=1681613.2, rms=2.114 (7.427%) rms = 2.08, time step reduction 3 of 3 to 0.062... 060: dt: 0.1250, sse=1675428.4, rms=2.081 (1.543%) positioning took 2.4 minutes mean border=61.3, 3167 (26) missing vertices, mean dist 0.1 [0.2 (%21.2)->0.1 (%78.8))] %54 local maxima, %17 large gradients and %23 min vals, 111 gradients ignored tol=1.0e-04, sigma=0.5, host=blg81, nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.250 averaging target values for 5 iterations... 000: dt: 0.0000, sse=1984814.6, rms=3.317 rms = 4.84, time step reduction 1 of 3 to 0.250... 061: dt: 0.2500, sse=1832042.6, rms=2.723 (17.896%) rms = 2.68, time step reduction 2 of 3 to 0.125... 062: dt: 0.2500, sse=1822705.8, rms=2.677 (1.697%) 063: dt: 0.1250, sse=1763713.1, rms=2.406 (10.117%) 064: dt: 0.1250, sse=1739201.1, rms=2.292 (4.766%) rms = 2.26, time step reduction 3 of 3 to 0.062... 065: dt: 0.1250, sse=1732665.8, rms=2.262 (1.284%) positioning took 1.0 minutes mean border=60.6, 5880 (22) missing vertices, mean dist 0.0 [0.2 (%29.2)->0.1 (%70.8))] %55 local maxima, %15 large gradients and %22 min vals, 84 gradients ignored tol=1.0e-04, sigma=0.2, host=blg81, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 writing pial surface to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.pial... writing smoothed curvature to lh.curv.pial 000: dt: 0.0000, sse=1784811.1, rms=2.488 rms = 3.77, time step reduction 1 of 3 to 0.250... 066: dt: 0.2500, sse=1742889.0, rms=2.280 (8.370%) rms = 2.44, time step reduction 2 of 3 to 0.125... rms = 2.24, time step reduction 3 of 3 to 0.062... 067: dt: 0.1250, sse=1735049.9, rms=2.240 (1.763%) positioning took 0.5 minutes writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.curv.pial writing smoothed area to lh.area.pial writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.area.pial vertex spacing 0.79 +- 0.35 (0.06-->6.67) (max @ vno 170079 --> 170080) face area 0.25 +- 0.20 (0.00-->7.39) measuring cortical thickness... writing cortical thickness estimate to 'thickness' file. 0 of 232333 vertices processed 25000 of 232333 vertices processed 50000 of 232333 vertices processed 75000 of 232333 vertices processed 100000 of 232333 vertices processed 125000 of 232333 vertices processed 150000 of 232333 vertices processed 175000 of 232333 vertices processed 200000 of 232333 vertices processed 225000 of 232333 vertices processed 0 of 232333 vertices processed 25000 of 232333 vertices processed 50000 of 232333 vertices processed 75000 of 232333 vertices processed 100000 of 232333 vertices processed 125000 of 232333 vertices processed 150000 of 232333 vertices processed 175000 of 232333 vertices processed 200000 of 232333 vertices processed 225000 of 232333 vertices processed thickness calculation complete, 134:373 truncations. 42288 vertices at 0 distance 140549 vertices at 1 distance 143068 vertices at 2 distance 73903 vertices at 3 distance 28410 vertices at 4 distance 9175 vertices at 5 distance 2898 vertices at 6 distance 1007 vertices at 7 distance 388 vertices at 8 distance 143 vertices at 9 distance 75 vertices at 10 distance 39 vertices at 11 distance 40 vertices at 12 distance 28 vertices at 13 distance 13 vertices at 14 distance 16 vertices at 15 distance 11 vertices at 16 distance 8 vertices at 17 distance 3 vertices at 18 distance 2 vertices at 19 distance 2 vertices at 20 distance writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.thickness positioning took 17.1 minutes #-------------------------------------------- #@# Surf Volume lh Tue May 25 23:06:51 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf mris_calc -o lh.area.mid lh.area add lh.area.pial Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o lh.area.mid lh.area.mid div 2 Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume sub-02 lh /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.volume masking with /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/lh.cortex.label Total face volume 260712 Total vertex volume 258434 (mask=0) #@# sub-02 lh 258434 vertexvol Done #----------------------------------------- #@# Cortical Parc 2 lh Tue May 25 23:06:55 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-02 lh ../surf/lh.sphere.reg /opt/freesurfer/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading atlas from /opt/freesurfer/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 2.9 using min determinant for regularization = 0.086 0 singular and 762 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 85 labels changed using aseg relabeling using gibbs priors... 000: 13726 changed, 232333 examined... 001: 3380 changed, 53389 examined... 002: 1057 changed, 17425 examined... 003: 465 changed, 5912 examined... 004: 231 changed, 2675 examined... 005: 122 changed, 1303 examined... 006: 61 changed, 683 examined... 007: 23 changed, 315 examined... 008: 10 changed, 136 examined... 009: 6 changed, 57 examined... 010: 4 changed, 41 examined... 011: 3 changed, 20 examined... 012: 2 changed, 19 examined... 013: 3 changed, 13 examined... 014: 1 changed, 12 examined... 015: 0 changed, 7 examined... 14 labels changed using aseg 000: 379 total segments, 288 labels (4241 vertices) changed 001: 108 total segments, 17 labels (109 vertices) changed 002: 91 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 62 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 2028 vertices marked for relabeling... 2028 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 0 minutes and 21 seconds. #----------------------------------------- #@# Cortical Parc 3 lh Tue May 25 23:07:16 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-02 lh ../surf/lh.sphere.reg /opt/freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading atlas from /opt/freesurfer/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.020 0 singular and 383 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 2752 labels changed using aseg relabeling using gibbs priors... 000: 3080 changed, 232333 examined... 001: 713 changed, 13865 examined... 002: 209 changed, 3994 examined... 003: 92 changed, 1227 examined... 004: 54 changed, 526 examined... 005: 41 changed, 319 examined... 006: 24 changed, 235 examined... 007: 18 changed, 127 examined... 008: 14 changed, 95 examined... 009: 12 changed, 73 examined... 010: 9 changed, 61 examined... 011: 7 changed, 44 examined... 012: 8 changed, 44 examined... 013: 11 changed, 46 examined... 014: 11 changed, 57 examined... 015: 15 changed, 59 examined... 016: 13 changed, 63 examined... 017: 11 changed, 66 examined... 018: 12 changed, 60 examined... 019: 9 changed, 65 examined... 020: 7 changed, 46 examined... 021: 6 changed, 44 examined... 022: 5 changed, 37 examined... 023: 1 changed, 30 examined... 024: 1 changed, 7 examined... 025: 0 changed, 7 examined... 516 labels changed using aseg 000: 74 total segments, 41 labels (559 vertices) changed 001: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 12 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1752 vertices marked for relabeling... 1752 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas.annot... classification took 0 minutes and 16 seconds. #----------------------------------------- #@# WM/GM Contrast lh Tue May 25 23:07:32 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts pctsurfcon --s sub-02 --lh-only Log file is /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts/pctsurfcon.log Tue May 25 23:07:32 UTC 2021 setenv SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer cd /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts /opt/freesurfer/bin/pctsurfcon $Id: pctsurfcon,v 1.15 2016/02/12 21:43:15 zkaufman Exp $ Linux blg8112.int.ets1.calculquebec.ca 3.10.0-1160.25.1.el7.x86_64 #1 SMP Wed Apr 28 21:49:45 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /opt/freesurfer mri_vol2surf --mov /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/tmp.pctsurfcon.63614/lh.wm.mgh --regheader sub-02 --cortex srcvol = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Computing registration from header. Using /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/orig.mgz as target reference. -------- original matrix ----------- -1.00000 0.00000 0.00000 -0.00002; 0.00000 0.00000 1.00000 0.00001; 0.00000 -1.00000 0.00000 0.00002; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/lh.cortex.label Reading surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Done reading source surface Mapping Source Volume onto Source Subject Surface 1 -1 -1 -1 using old Done mapping volume to surface Number of source voxels hit = 126667 Masking with /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/lh.cortex.label Writing to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/tmp.pctsurfcon.63614/lh.wm.mgh Dim: 232333 1 1 mri_vol2surf --mov /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/tmp.pctsurfcon.63614/lh.gm.mgh --projfrac 0.3 --regheader sub-02 --cortex srcvol = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume Computing registration from header. Using /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/orig.mgz as target reference. -------- original matrix ----------- -1.00000 0.00000 0.00000 -0.00002; 0.00000 0.00000 1.00000 0.00001; 0.00000 -1.00000 0.00000 0.00002; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/lh.cortex.label Reading surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Done reading source surface Reading thickness /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.thickness Done Mapping Source Volume onto Source Subject Surface 1 0.3 0.3 0.3 using old Done mapping volume to surface Number of source voxels hit = 146167 Masking with /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/lh.cortex.label Writing to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/tmp.pctsurfcon.63614/lh.gm.mgh Dim: 232333 1 1 mri_concat /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/tmp.pctsurfcon.63614/lh.wm.mgh /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/tmp.pctsurfcon.63614/lh.gm.mgh --paired-diff-norm --mul 100 --o /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.w-g.pct.mgh ninputs = 2 Checking inputs nframestot = 2 Allocing output Done allocing Combining pairs nframes = 1 Multiplying by 100.000000 Writing to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.w-g.pct.mgh mri_segstats --in /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.w-g.pct.mgh --annot sub-02 lh aparc --sum /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/stats/lh.w-g.pct.stats --snr $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ cwd cmdline mri_segstats --in /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.w-g.pct.mgh --annot sub-02 lh aparc --sum /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/stats/lh.w-g.pct.stats --snr sysname Linux hostname blg8112.int.ets1.calculquebec.ca machine x86_64 user bpinsard UseRobust 0 Constructing seg from annotation Reading annotation /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/lh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Seg base 1000 Loading /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.w-g.pct.mgh Vertex Area is 0.407206 mm^3 Generating list of segmentation ids Found 36 segmentations Computing statistics for each segmentation Reporting on 35 segmentations Using PrintSegStat mri_segstats done Cleaning up Started at Tue May 25 21:06:24 UTC 2021 Ended at Tue May 25 23:07:41 UTC 2021 #@#%# recon-all-run-time-hours 2.021 recon-all -s sub-02 finished without error at Tue May 25 23:07:41 UTC 2021 New invocation of recon-all Wed May 26 00:16:54 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02 /opt/freesurfer/bin/recon-all -autorecon-hemi lh -nohyporelabel -openmp 8 -subjid sub-02 -sd /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer -notessellate -nosmooth1 -noinflate1 -noqsphere -nofix -nowhite -nosmooth2 -noinflate2 -nocurvHK -nocurvstats -nosphere -nosurfreg -nojacobian_white -noavgcurv -nocortparc -nopial -nocortparc2 -nocortparc3 -nopctsurfcon subjid sub-02 setenv SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Actual FREESURFER_HOME /opt/freesurfer build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.1-f53a55a Linux blg8112.int.ets1.calculquebec.ca 3.10.0-1160.25.1.el7.x86_64 #1 SMP Wed Apr 28 21:49:45 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize unlimited coredumpsize unlimited memoryuse 67108864 kbytes vmemoryuse unlimited descriptors 51200 memorylocked unlimited maxproc 767933 maxlocks unlimited maxsignal 767933 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 196638432 70867760 116724156 2014744 9046516 120575660 Swap: 0 0 0 ######################################## program versions used $Id: recon-all,v 1.580.2.16 2017/01/18 14:11:24 zkaufman Exp $ $Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $ mri_convert.bin -all-info ProgramName: mri_convert.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 FLIRT version 5.5 $Id: talairach_avi,v 1.13 2015/12/23 04:25:17 greve Exp $ mri_convert.bin --version stable6 ProgramName: tkregister2_cmdl ProgramArguments: --all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: tkregister2.c,v 1.132.2.1 2016/08/02 21:17:29 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 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 ProgramName: mri_make_uchar ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_normalize.c,v 1.88.2.3 2016/12/27 16:47:13 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_watershed.cpp,v 1.103 2016/06/17 18:00:49 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_segment.c,v 1.43.2.1 2016/10/27 22:24:52 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_label2label.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_label2label.c,v 1.48.2.2 2016/12/12 14:15:26 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_em_register.c,v 1.105.2.1 2016/10/27 22:25:10 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_ca_normalize.c,v 1.67.2.2 2016/10/27 22:25:09 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_ca_register.c,v 1.96.2.3 2016/10/27 22:25:10 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_ca_label.c,v 1.113.2.2 2016/10/27 22:25:10 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_pretess ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_pretess.c,v 1.22 2013/08/30 18:12:25 mreuter Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_fill.c,v 1.119 2011/10/25 14:09:58 fischl Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_concatenate_lta.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_concatenate_lta.c,v 1.16 2015/11/21 00:06:20 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:54-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_smooth.c,v 1.30 2014/01/21 18:48:21 fischl Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_inflate ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_inflate.c,v 1.45 2016/01/20 23:42:15 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_euler_number.c,v 1.10 2013/01/14 22:39:14 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_volmask ProgramArguments: --all-info ProgramVersion: $Name: $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_volmask.cpp,v 1.26.2.2 2016/11/18 20:05:18 zkaufman Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mrisp_paint.c,v 1.12 2016/03/22 14:47:57 fischl Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_curvature_stats.c,v 1.65 2015/06/04 20:50:51 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mris_calc.c,v 1.54.2.1 2016/09/27 18:51:28 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $ ProgramName: mri_robust_register.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $ ProgramName: mri_robust_template ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_or.c,v 1.5 2013/03/20 15:03:29 lzollei Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_relabel_hypointensities ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2021/05/26-00:16:55-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_relabel_hypointensities.c,v 1.13 2015/05/15 18:44:10 nicks Exp $ User: bpinsard Machine: blg8112.int.ets1.calculquebec.ca Platform: Linux PlatformVersion: 3.10.0-1160.25.1.el7.x86_64 CompilerName: GCC CompilerVersion: 40400 ####################################### GCADIR /opt/freesurfer/average GCA RB_all_2016-05-10.vc700.gca GCASkull RB_all_withskull_2016-05-10.vc700.gca AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif GCSDIR /opt/freesurfer/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### #----------------------------------------- #@# Parcellation Stats lh Wed May 26 00:16:55 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab sub-02 lh white computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/wm.mgz... reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 265959 Total vertex volume 263521 (mask=0) reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1840909 mm^3 (det: 1.058230 ) lhCtxGM: 259016.730 511385.000 diff=-252368.3 pctdiff=-97.433 rhCtxGM: 256125.607 502936.000 diff=-246810.4 pctdiff=-96.363 lhCtxWM: 227970.968 515199.500 diff=-287228.5 pctdiff=-125.993 rhCtxWM: 226703.819 509995.500 diff=-283291.7 pctdiff=-124.961 SubCortGMVol 119686.000 SupraTentVol 1120650.124 (2208268.000) diff=-1087617.876 pctdiff=-97.052 SupraTentVolNotVent 1071644.124 (2159262.000) diff=-1087617.876 pctdiff=-101.491 BrainSegVol 2524979.000 (2518415.000) diff=6564.000 pctdiff=0.260 BrainSegVolNotVent 2467319.000 (1397378.124) diff=1069940.876 pctdiff=43.365 BrainSegVolNotVent 2467319.000 CerebellumVol 307815.000 VentChorVol 49006.000 3rd4th5thCSF 8654.000 CSFVol 2090.000, OptChiasmVol 242.000 MaskVol 3327007.000 2301 969 2221 2.417 0.348 0.068 0.013 11 1.2 bankssts 1786 705 2152 2.499 0.852 0.094 0.022 23 1.5 caudalanteriorcingulate 5076 2106 5753 2.533 0.375 0.077 0.016 33 3.5 caudalmiddlefrontal 5239 1970 4520 2.094 0.545 0.092 0.026 53 6.2 cuneus 1520 586 3033 3.453 0.718 0.109 0.055 23 3.9 entorhinal 7330 3133 11426 2.971 0.644 0.094 0.026 76 8.5 fusiform 9391 3899 11020 2.528 0.507 0.079 0.016 76 6.5 inferiorparietal 8036 3368 12011 2.858 0.602 0.092 0.025 96 9.0 inferiortemporal 2511 987 2438 2.138 0.962 0.090 0.032 28 2.7 isthmuscingulate 14724 5885 14461 2.213 0.644 0.096 0.028 168 17.8 lateraloccipital 6408 2630 8992 2.937 0.568 0.097 0.032 78 9.7 lateralorbitofrontal 7312 2902 8320 2.386 0.652 0.096 0.031 86 10.0 lingual 4756 1934 5775 2.636 0.741 0.094 0.032 78 6.7 medialorbitofrontal 8417 3433 11578 2.704 0.782 0.090 0.025 93 9.7 middletemporal 1649 664 2650 3.298 0.788 0.069 0.022 10 1.6 parahippocampal 4245 1607 4671 2.608 0.484 0.075 0.021 35 3.7 paracentral 3244 1388 4098 2.582 0.609 0.078 0.018 27 2.3 parsopercularis 1935 794 2903 2.740 0.578 0.094 0.022 21 1.8 parsorbitalis 2796 1195 3692 2.620 0.560 0.091 0.021 28 2.7 parstriangularis 3685 1413 2773 2.098 0.476 0.081 0.031 40 5.3 pericalcarine 12873 4843 11806 2.189 0.505 0.071 0.020 98 11.1 postcentral 3062 1275 3524 2.298 0.763 0.095 0.022 35 2.8 posteriorcingulate 14503 5506 16277 2.736 0.479 0.069 0.022 128 15.5 precentral 9199 3838 10722 2.468 0.555 0.083 0.020 79 8.1 precuneus 1874 750 2767 3.009 0.656 0.094 0.033 31 2.7 rostralanteriorcingulate 13432 5572 15484 2.468 0.460 0.094 0.023 156 12.6 rostralmiddlefrontal 19603 8151 26665 2.767 0.605 0.091 0.026 195 22.6 superiorfrontal 12071 4837 11825 2.237 0.402 0.080 0.020 102 10.3 superiorparietal 9954 4120 13564 2.802 0.652 0.073 0.018 69 7.8 superiortemporal 10573 4388 12712 2.572 0.482 0.086 0.020 100 8.9 supramarginal 854 340 1266 2.691 0.475 0.114 0.036 14 1.3 frontalpole 1407 607 2788 3.353 0.857 0.102 0.042 19 2.7 temporalpole 1475 549 1665 2.630 0.367 0.086 0.027 15 1.4 transversetemporal 5802 2519 7916 3.186 0.781 0.108 0.050 73 13.2 insula mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab sub-02 lh pial computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/wm.mgz... reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.pial... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 265959 Total vertex volume 263521 (mask=0) reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Saving annotation colortable ../label/aparc.annot.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1840909 mm^3 (det: 1.058230 ) lhCtxGM: 259016.730 511385.000 diff=-252368.3 pctdiff=-97.433 rhCtxGM: 256125.607 502936.000 diff=-246810.4 pctdiff=-96.363 lhCtxWM: 227970.968 515199.500 diff=-287228.5 pctdiff=-125.993 rhCtxWM: 226703.819 509995.500 diff=-283291.7 pctdiff=-124.961 SubCortGMVol 119686.000 SupraTentVol 1120650.124 (2208268.000) diff=-1087617.876 pctdiff=-97.052 SupraTentVolNotVent 1071644.124 (2159262.000) diff=-1087617.876 pctdiff=-101.491 BrainSegVol 2524979.000 (2518415.000) diff=6564.000 pctdiff=0.260 BrainSegVolNotVent 2467319.000 (1397378.124) diff=1069940.876 pctdiff=43.365 BrainSegVolNotVent 2467319.000 CerebellumVol 307815.000 VentChorVol 49006.000 3rd4th5thCSF 8654.000 CSFVol 2090.000, OptChiasmVol 242.000 MaskVol 3327007.000 2301 838 2221 2.417 0.348 0.067 0.019 30 1.8 bankssts 1786 901 2152 2.499 0.852 0.102 0.026 216 1.8 caudalanteriorcingulate 5076 2349 5753 2.533 0.375 0.074 0.015 48 3.2 caudalmiddlefrontal 5239 2307 4520 2.094 0.545 0.083 0.020 43 4.9 cuneus 1520 1090 3033 3.453 0.718 0.110 0.025 22 1.7 entorhinal 7330 4061 11426 2.971 0.644 0.092 0.027 83 6.6 fusiform 9391 4617 11020 2.528 0.507 0.079 0.017 68 6.3 inferiorparietal 8036 4549 12011 2.858 0.602 0.090 0.021 86 7.1 inferiortemporal 2511 1163 2438 2.138 0.962 0.096 0.161 106 28.4 isthmuscingulate 14724 6999 14461 2.213 0.644 0.078 0.022 290 12.7 lateraloccipital 6408 3252 8992 2.937 0.568 0.090 0.023 93 5.8 lateralorbitofrontal 7312 3787 8320 2.386 0.652 0.089 0.021 76 6.5 lingual 4756 2418 5775 2.636 0.741 0.094 0.040 127 4.9 medialorbitofrontal 8417 4622 11578 2.704 0.782 0.090 0.021 74 7.7 middletemporal 1649 944 2650 3.298 0.788 0.071 0.013 6 0.9 parahippocampal 4245 1905 4671 2.608 0.484 0.068 0.016 24 2.5 paracentral 3244 1715 4098 2.582 0.609 0.084 0.017 26 2.4 parsopercularis 1935 1188 2903 2.740 0.578 0.098 0.020 16 1.7 parsorbitalis 2796 1524 3692 2.620 0.560 0.096 0.022 26 2.5 parstriangularis 3685 1202 2773 2.098 0.476 0.068 0.023 130 3.9 pericalcarine 12873 5797 11806 2.189 0.505 0.074 0.023 79 16.4 postcentral 3062 1559 3524 2.298 0.763 0.097 0.027 40 3.1 posteriorcingulate 14503 6121 16277 2.736 0.479 0.061 0.016 134 9.6 precentral 9199 4454 10722 2.468 0.555 0.086 0.020 95 7.6 precuneus 1874 1066 2767 3.009 0.656 0.098 0.021 22 1.6 rostralanteriorcingulate 13432 6678 15484 2.468 0.460 0.087 0.020 134 11.7 rostralmiddlefrontal 19603 10192 26665 2.767 0.605 0.086 0.022 193 18.3 superiorfrontal 12071 5507 11825 2.237 0.402 0.078 0.017 113 8.6 superiorparietal 9954 5161 13564 2.802 0.652 0.093 0.339 13039 259.8 superiortemporal 10573 5246 12712 2.572 0.482 0.086 0.019 90 8.8 supramarginal 854 559 1266 2.691 0.475 0.114 0.022 7 0.9 frontalpole 1407 1009 2788 3.353 0.857 0.116 0.025 15 1.9 temporalpole 1475 723 1665 2.630 0.367 0.083 0.020 10 1.2 transversetemporal 5802 2492 7916 3.186 0.781 0.096 0.044 192 12.2 insula #----------------------------------------- #@# Parcellation Stats 2 lh Wed May 26 00:18:59 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.a2009s.stats -b -a ../label/lh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab sub-02 lh white computing statistics for each annotation in ../label/lh.aparc.a2009s.annot. reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/wm.mgz... reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 265959 Total vertex volume 263521 (mask=0) reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2008.txt) Saving annotation colortable ../label/aparc.annot.a2009s.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1840909 mm^3 (det: 1.058230 ) lhCtxGM: 259016.730 511385.000 diff=-252368.3 pctdiff=-97.433 rhCtxGM: 256125.607 502936.000 diff=-246810.4 pctdiff=-96.363 lhCtxWM: 227970.968 515199.500 diff=-287228.5 pctdiff=-125.993 rhCtxWM: 226703.819 509995.500 diff=-283291.7 pctdiff=-124.961 SubCortGMVol 119686.000 SupraTentVol 1120650.124 (2208268.000) diff=-1087617.876 pctdiff=-97.052 SupraTentVolNotVent 1071644.124 (2159262.000) diff=-1087617.876 pctdiff=-101.491 BrainSegVol 2524979.000 (2518415.000) diff=6564.000 pctdiff=0.260 BrainSegVolNotVent 2467319.000 (1397378.124) diff=1069940.876 pctdiff=43.365 BrainSegVolNotVent 2467319.000 CerebellumVol 307815.000 VentChorVol 49006.000 3rd4th5thCSF 8654.000 CSFVol 2090.000, OptChiasmVol 242.000 MaskVol 3327007.000 2689 1125 2873 2.318 0.432 0.101 0.026 36 2.8 G&S_frontomargin 2600 1073 3597 2.648 0.526 0.093 0.021 27 2.3 G&S_occipital_inf 3635 1243 3603 2.467 0.527 0.074 0.025 39 3.8 G&S_paracentral 2403 992 3350 2.716 0.507 0.090 0.023 25 2.2 G&S_subcentral 1522 606 1882 2.408 0.519 0.104 0.029 22 1.8 G&S_transv_frontopol 3378 1404 4577 2.964 0.558 0.089 0.027 39 4.0 G&S_cingul-Ant 2343 981 2756 2.637 0.565 0.083 0.022 20 2.0 G&S_cingul-Mid-Ant 2351 996 2707 2.543 0.428 0.085 0.019 19 1.8 G&S_cingul-Mid-Post 758 335 1613 3.136 0.622 0.114 0.027 10 0.9 G_cingul-Post-dorsal 658 254 765 2.518 0.972 0.115 0.053 13 1.3 G_cingul-Post-ventral 4597 1661 4133 2.054 0.510 0.099 0.031 59 6.3 G_cuneus 1880 786 2996 2.850 0.632 0.099 0.027 26 2.0 G_front_inf-Opercular 803 326 1511 3.110 0.524 0.109 0.030 13 1.0 G_front_inf-Orbital 1393 598 2292 2.711 0.503 0.107 0.029 21 1.8 G_front_inf-Triangul 7225 2921 10177 2.648 0.448 0.102 0.027 101 8.0 G_front_middle 13802 5638 21644 2.906 0.608 0.102 0.030 185 19.2 G_front_sup 1158 525 1748 3.251 0.862 0.122 0.057 19 2.9 G_Ins_lg&S_cent_ins 1435 577 2928 3.723 0.661 0.132 0.072 25 5.1 G_insular_short 3611 1312 4563 2.545 0.526 0.094 0.030 49 4.7 G_occipital_middle 3202 1208 2869 2.025 0.568 0.091 0.028 35 4.1 G_occipital_sup 2840 1202 5699 3.343 0.583 0.109 0.033 43 4.1 G_oc-temp_lat-fusifor 5180 1922 6258 2.448 0.669 0.104 0.037 74 8.6 G_oc-temp_med-Lingual 2634 1025 5015 3.478 0.763 0.097 0.043 31 5.5 G_oc-temp_med-Parahip 4486 1801 7539 2.983 0.586 0.108 0.035 73 7.5 G_orbital 3846 1565 5866 2.779 0.455 0.098 0.024 55 3.8 G_pariet_inf-Angular 5027 2039 7289 2.778 0.527 0.094 0.025 59 5.5 G_pariet_inf-Supramar 3643 1439 4165 2.327 0.386 0.082 0.018 35 2.5 G_parietal_sup 5537 1864 4996 2.156 0.441 0.077 0.024 56 5.8 G_postcentral 5803 2079 7427 2.920 0.443 0.070 0.023 49 6.5 G_precentral 4049 1614 6114 2.648 0.637 0.098 0.033 61 5.7 G_precuneus 1481 568 2626 2.936 0.520 0.110 0.039 35 2.9 G_rectus 902 363 972 2.673 1.016 0.071 0.030 7 0.8 G_subcallosal 1284 484 1722 2.781 0.380 0.092 0.027 16 1.4 G_temp_sup-G_T_transv 3506 1330 6165 3.153 0.577 0.088 0.027 41 4.1 G_temp_sup-Lateral 1172 520 1980 3.539 0.515 0.067 0.018 5 0.9 G_temp_sup-Plan_polar 1716 695 2267 2.754 0.468 0.072 0.017 10 1.2 G_temp_sup-Plan_tempo 4261 1757 7773 3.031 0.589 0.107 0.032 73 6.4 G_temporal_inf 4879 1922 7639 2.814 0.761 0.098 0.031 69 6.9 G_temporal_middle 381 154 372 2.632 0.401 0.060 0.010 1 0.2 Lat_Fis-ant-Horizont 600 256 499 2.212 0.285 0.064 0.010 2 0.2 Lat_Fis-ant-Vertical 1973 863 1776 2.478 0.388 0.076 0.018 10 1.5 Lat_Fis-post 4750 1952 4145 1.996 0.756 0.108 0.034 63 7.3 Pole_occipital 3261 1363 6977 3.380 0.792 0.112 0.046 50 7.0 Pole_temporal 4009 1654 3197 2.211 0.553 0.080 0.026 34 5.0 S_calcarine 6640 2626 5383 2.293 0.531 0.063 0.021 57 7.1 S_central 1987 834 1639 2.179 0.394 0.068 0.014 8 1.1 S_cingul-Marginalis 903 393 985 2.973 0.429 0.081 0.026 5 1.0 S_circular_insula_ant 2535 1096 2429 2.586 0.609 0.068 0.018 12 2.2 S_circular_insula_inf 2671 1189 2809 2.912 0.579 0.074 0.025 14 2.8 S_circular_insula_sup 1496 667 1494 2.660 0.392 0.062 0.011 4 0.6 S_collat_transv_ant 939 412 757 2.253 0.340 0.085 0.018 5 0.7 S_collat_transv_post 2591 1138 2341 2.304 0.348 0.070 0.014 12 1.4 S_front_inf 2223 911 1826 2.327 0.407 0.076 0.015 13 1.4 S_front_middle 5201 2220 5345 2.485 0.453 0.069 0.015 26 3.6 S_front_sup 888 384 728 2.252 0.349 0.065 0.009 3 0.4 S_interm_prim-Jensen 4781 2017 4209 2.274 0.356 0.075 0.017 28 3.3 S_intrapariet&P_trans 2503 1029 1888 2.013 0.471 0.081 0.021 23 2.2 S_oc_middle&Lunatus 2115 887 1767 2.190 0.338 0.079 0.014 12 1.2 S_oc_sup&transversal 1108 461 984 2.417 0.329 0.081 0.018 7 0.7 S_occipital_ant 1708 717 1704 2.473 0.314 0.083 0.017 14 1.2 S_oc-temp_lat 3599 1565 3693 2.479 0.524 0.074 0.016 19 2.2 S_oc-temp_med&Lingual 968 410 812 2.193 0.331 0.072 0.013 4 0.6 S_orbital_lateral 1096 450 994 2.515 0.596 0.073 0.018 6 0.9 S_orbital_med-olfact 2253 944 2597 2.733 0.558 0.084 0.023 16 2.1 S_orbital-H_Shaped 4651 1934 4286 2.388 0.424 0.073 0.016 24 3.2 S_parieto_occipital 2451 907 1059 1.494 0.609 0.079 0.021 25 1.5 S_pericallosal 5200 2175 4246 2.148 0.340 0.067 0.012 24 2.7 S_postcentral 2470 1056 2306 2.409 0.389 0.063 0.012 11 1.2 S_precentral-inf-part 2267 977 2429 2.583 0.364 0.068 0.013 10 1.2 S_precentral-sup-part 1252 512 1032 2.499 0.531 0.075 0.014 6 0.8 S_suborbital 1499 629 1247 2.262 0.436 0.068 0.014 5 0.9 S_subparietal 2343 974 1965 2.404 0.496 0.070 0.014 9 1.4 S_temporal_inf 9277 3985 9005 2.390 0.474 0.067 0.013 45 5.0 S_temporal_sup 634 277 501 2.236 0.406 0.072 0.013 3 0.4 S_temporal_transverse #----------------------------------------- #@# Parcellation Stats 3 lh Wed May 26 00:20:02 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.DKTatlas.stats -b -a ../label/lh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab sub-02 lh white computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot. reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/wm.mgz... reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 265959 Total vertex volume 263521 (mask=0) reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Saving annotation colortable ../label/aparc.annot.DKTatlas.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1840909 mm^3 (det: 1.058230 ) lhCtxGM: 259016.730 511385.000 diff=-252368.3 pctdiff=-97.433 rhCtxGM: 256125.607 502936.000 diff=-246810.4 pctdiff=-96.363 lhCtxWM: 227970.968 515199.500 diff=-287228.5 pctdiff=-125.993 rhCtxWM: 226703.819 509995.500 diff=-283291.7 pctdiff=-124.961 SubCortGMVol 119686.000 SupraTentVol 1120650.124 (2208268.000) diff=-1087617.876 pctdiff=-97.052 SupraTentVolNotVent 1071644.124 (2159262.000) diff=-1087617.876 pctdiff=-101.491 BrainSegVol 2524979.000 (2518415.000) diff=6564.000 pctdiff=0.260 BrainSegVolNotVent 2467319.000 (1397378.124) diff=1069940.876 pctdiff=43.365 BrainSegVolNotVent 2467319.000 CerebellumVol 307815.000 VentChorVol 49006.000 3rd4th5thCSF 8654.000 CSFVol 2090.000, OptChiasmVol 242.000 MaskVol 3327007.000 2880 1175 3527 2.595 0.774 0.094 0.023 34 2.7 caudalanteriorcingulate 5297 2197 5936 2.523 0.380 0.077 0.016 35 3.6 caudalmiddlefrontal 7009 2684 6285 2.164 0.524 0.087 0.024 61 7.6 cuneus 1363 532 2757 3.427 0.737 0.104 0.048 18 3.0 entorhinal 6502 2792 9511 2.919 0.622 0.090 0.023 63 6.4 fusiform 9664 4006 11485 2.531 0.519 0.080 0.017 82 6.8 inferiorparietal 8180 3432 13226 2.932 0.624 0.098 0.030 110 11.4 inferiortemporal 2508 983 2414 2.144 0.965 0.089 0.032 27 2.8 isthmuscingulate 14727 5875 14500 2.211 0.643 0.095 0.028 168 18.1 lateraloccipital 7324 3020 10143 2.852 0.634 0.103 0.035 101 11.6 lateralorbitofrontal 7566 2997 8457 2.369 0.645 0.096 0.030 87 10.0 lingual 4091 1633 5378 2.659 0.663 0.095 0.030 71 5.6 medialorbitofrontal 10841 4454 14154 2.656 0.723 0.085 0.023 105 11.1 middletemporal 1807 724 2840 3.271 0.807 0.072 0.024 12 2.0 parahippocampal 5113 1945 5785 2.624 0.500 0.075 0.021 41 4.5 paracentral 3253 1375 4075 2.590 0.602 0.084 0.021 32 2.8 parsopercularis 1900 784 3015 2.997 0.583 0.094 0.023 21 1.9 parsorbitalis 3038 1317 3552 2.470 0.505 0.079 0.017 22 2.1 parstriangularis 3763 1428 2841 2.108 0.474 0.083 0.033 43 5.7 pericalcarine 14271 5434 13233 2.204 0.505 0.073 0.020 110 12.3 postcentral 3278 1367 3676 2.316 0.745 0.094 0.022 36 3.0 posteriorcingulate 14381 5454 16167 2.743 0.476 0.070 0.023 129 15.7 precentral 8518 3568 10117 2.452 0.566 0.084 0.021 76 7.5 precuneus 2522 1022 3352 2.957 0.675 0.090 0.030 34 3.3 rostralanteriorcingulate 9461 3896 11303 2.531 0.419 0.093 0.023 107 8.5 rostralmiddlefrontal 21589 8946 28668 2.699 0.612 0.092 0.026 226 24.9 superiorfrontal 9427 3773 9191 2.241 0.405 0.081 0.021 84 8.0 superiorparietal 13220 5499 18230 2.837 0.688 0.079 0.023 105 13.0 superiortemporal 9386 3921 11129 2.562 0.470 0.084 0.019 84 7.6 supramarginal 1478 549 1669 2.627 0.378 0.086 0.026 15 1.4 transversetemporal 4555 1986 6905 3.327 0.732 0.101 0.043 49 9.5 insula /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label #-------------------------------------------- #@# BA_exvivo Labels lh Wed May 26 00:21:04 UTC 2021 mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA1_exvivo.label --trgsubject sub-02 --trglabel ./lh.BA1_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA1_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA1_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 4129 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4129 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 2683 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.label 6812 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA2_exvivo.label --trgsubject sub-02 --trglabel ./lh.BA2_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA2_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA2_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 7909 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 7909 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 3997 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.label 11906 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA3a_exvivo.label --trgsubject sub-02 --trglabel ./lh.BA3a_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA3a_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 4077 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4077 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 1641 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.label 5718 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA3b_exvivo.label --trgsubject sub-02 --trglabel ./lh.BA3b_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA3b_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 5983 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5983 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 3074 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.label 9057 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA4a_exvivo.label --trgsubject sub-02 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA4a_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 5784 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5784 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 3953 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.label 9737 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA4p_exvivo.label --trgsubject sub-02 --trglabel ./lh.BA4p_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA4p_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 4070 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4070 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 2642 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.label 6712 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA6_exvivo.label --trgsubject sub-02 --trglabel ./lh.BA6_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA6_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA6_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 13589 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 13589 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 7702 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.label 21291 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA44_exvivo.label --trgsubject sub-02 --trglabel ./lh.BA44_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA44_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA44_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 4181 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4181 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 818 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.label 4999 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA45_exvivo.label --trgsubject sub-02 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA45_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA45_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 3422 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3422 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 1397 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.label 4819 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.V1_exvivo.label --trgsubject sub-02 --trglabel ./lh.V1_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.V1_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.V1_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 4641 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4641 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 5741 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.label 10382 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.V2_exvivo.label --trgsubject sub-02 --trglabel ./lh.V2_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.V2_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.V2_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 8114 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 8114 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 11287 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.label 19401 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.MT_exvivo.label --trgsubject sub-02 --trglabel ./lh.MT_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.MT_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.MT_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 2018 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2018 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 1051 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.label 3069 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.entorhinal_exvivo.label --trgsubject sub-02 --trglabel ./lh.entorhinal_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.entorhinal_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1290 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1290 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 710 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.label 2000 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.perirhinal_exvivo.label --trgsubject sub-02 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.perirhinal_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1199 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1199 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 642 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.label 1841 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA1_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.BA1_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA1_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1014 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1014 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 661 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.thresh.label 1675 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA2_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.BA2_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA2_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 2092 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2092 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 1526 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.thresh.label 3618 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA3a_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.BA3a_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA3a_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1504 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1504 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 396 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.thresh.label 1900 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA3b_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.BA3b_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA3b_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1996 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1996 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 921 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.thresh.label 2917 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA4a_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA4a_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 2319 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2319 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 1668 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.thresh.label 3987 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA4p_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.BA4p_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA4p_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1549 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1549 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 1057 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.thresh.label 2606 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA6_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.BA6_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA6_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 7035 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 7035 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 3751 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.thresh.label 10786 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA44_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.BA44_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA44_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1912 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1912 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 370 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.thresh.label 2282 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA45_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.BA45_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1151 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1151 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 413 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.thresh.label 1564 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.V1_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.V1_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.V1_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 3405 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3405 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 3977 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.thresh.label 7382 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.V2_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.V2_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.V2_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 3334 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3334 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 4890 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.thresh.label 8224 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.MT_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.MT_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.MT_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 513 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 513 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 207 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.thresh.label 720 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.entorhinal_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.entorhinal_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.entorhinal_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 470 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 470 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 234 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.thresh.label 704 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.perirhinal_exvivo.thresh.label --trgsubject sub-02 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/lh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./lh.perirhinal_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 450 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 450 nlabel points Performing mapping from target back to the source label 232333 Number of reverse mapping hits = 281 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.thresh.label 731 mri_label2label: Done mris_label2annot --s sub-02 --hemi lh --ctab /opt/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.entorhinal_exvivo.label --l lh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose Reading ctab /opt/freesurfer/average/colortable_BA.txt Number of ctab entries 15 $Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $ cwd /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label cmdline mris_label2annot --s sub-02 --hemi lh --ctab /opt/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.entorhinal_exvivo.label --l lh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose sysname Linux hostname blg8112.int.ets1.calculquebec.ca machine x86_64 user bpinsard subject sub-02 hemi lh SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer ColorTable /opt/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 155848 unhit vertices Writing annot to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/lh.BA_exvivo.annot mris_label2annot --s sub-02 --hemi lh --ctab /opt/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose Reading ctab /opt/freesurfer/average/colortable_BA.txt Number of ctab entries 15 $Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $ cwd /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label cmdline mris_label2annot --s sub-02 --hemi lh --ctab /opt/freesurfer/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose sysname Linux hostname blg8112.int.ets1.calculquebec.ca machine x86_64 user bpinsard subject sub-02 hemi lh SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer ColorTable /opt/freesurfer/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 185807 unhit vertices Writing annot to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/lh.BA_exvivo.thresh.annot mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.stats -b -a ./lh.BA_exvivo.annot -c ./BA_exvivo.ctab sub-02 lh white computing statistics for each annotation in ./lh.BA_exvivo.annot. reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/wm.mgz... reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 265959 Total vertex volume 263521 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /opt/freesurfer/average/colortable_BA.txt) Saving annotation colortable ./BA_exvivo.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1840909 mm^3 (det: 1.058230 ) lhCtxGM: 259016.730 511385.000 diff=-252368.3 pctdiff=-97.433 rhCtxGM: 256125.607 502936.000 diff=-246810.4 pctdiff=-96.363 lhCtxWM: 227970.968 515199.500 diff=-287228.5 pctdiff=-125.993 rhCtxWM: 226703.819 509995.500 diff=-283291.7 pctdiff=-124.961 SubCortGMVol 119686.000 SupraTentVol 1120650.124 (2208268.000) diff=-1087617.876 pctdiff=-97.052 SupraTentVolNotVent 1071644.124 (2159262.000) diff=-1087617.876 pctdiff=-101.491 BrainSegVol 2524979.000 (2518415.000) diff=6564.000 pctdiff=0.260 BrainSegVolNotVent 2467319.000 (1397378.124) diff=1069940.876 pctdiff=43.365 BrainSegVolNotVent 2467319.000 CerebellumVol 307815.000 VentChorVol 49006.000 3rd4th5thCSF 8654.000 CSFVol 2090.000, OptChiasmVol 242.000 MaskVol 3327007.000 2380 798 2154 2.146 0.437 0.076 0.026 25 2.8 BA1_exvivo 7562 3007 7041 2.251 0.417 0.070 0.015 43 4.8 BA2_exvivo 1937 814 1369 2.087 0.451 0.073 0.019 8 1.5 BA3a_exvivo 4638 1741 4112 2.077 0.521 0.071 0.019 42 3.8 BA3b_exvivo 3791 1259 4081 2.827 0.327 0.061 0.019 28 2.9 BA4a_exvivo 3087 1142 2971 2.703 0.414 0.067 0.034 52 6.0 BA4p_exvivo 17713 7173 24039 2.819 0.588 0.082 0.023 149 19.1 BA6_exvivo 3106 1319 3785 2.586 0.549 0.081 0.017 27 2.3 BA44_exvivo 3979 1706 4971 2.451 0.472 0.088 0.021 44 3.4 BA45_exvivo 6890 2520 5720 2.119 0.599 0.085 0.032 75 10.2 V1_exvivo 16232 6408 15167 2.154 0.651 0.101 0.030 193 22.0 V2_exvivo 2844 1143 3042 2.476 0.449 0.081 0.023 23 2.8 MT_exvivo 1106 458 2106 3.522 0.696 0.082 0.034 9 1.7 perirhinal_exvivo 1220 472 2308 3.386 0.714 0.109 0.056 18 3.1 entorhinal_exvivo mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab sub-02 lh white computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot. reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/wm.mgz... reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 265959 Total vertex volume 263521 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /opt/freesurfer/average/colortable_BA.txt) Saving annotation colortable ./BA_exvivo.thresh.ctab table columns are: number of vertices total surface area (mm^2) total gray matter volume (mm^3) average cortical thickness +- standard deviation (mm) integrated rectified mean curvature integrated rectified Gaussian curvature folding index intrinsic curvature index structure name atlas_icv (eTIV) = 1840909 mm^3 (det: 1.058230 ) lhCtxGM: 259016.730 511385.000 diff=-252368.3 pctdiff=-97.433 rhCtxGM: 256125.607 502936.000 diff=-246810.4 pctdiff=-96.363 lhCtxWM: 227970.968 515199.500 diff=-287228.5 pctdiff=-125.993 rhCtxWM: 226703.819 509995.500 diff=-283291.7 pctdiff=-124.961 SubCortGMVol 119686.000 SupraTentVol 1120650.124 (2208268.000) diff=-1087617.876 pctdiff=-97.052 SupraTentVolNotVent 1071644.124 (2159262.000) diff=-1087617.876 pctdiff=-101.491 BrainSegVol 2524979.000 (2518415.000) diff=6564.000 pctdiff=0.260 BrainSegVolNotVent 2467319.000 (1397378.124) diff=1069940.876 pctdiff=43.365 BrainSegVolNotVent 2467319.000 CerebellumVol 307815.000 VentChorVol 49006.000 3rd4th5thCSF 8654.000 CSFVol 2090.000, OptChiasmVol 242.000 MaskVol 3327007.000 1573 465 1337 2.059 0.419 0.089 0.035 24 2.7 BA1_exvivo 3508 1352 3117 2.202 0.338 0.067 0.015 18 2.2 BA2_exvivo 1625 704 1147 2.057 0.454 0.076 0.019 7 1.3 BA3a_exvivo 2713 1015 1959 1.870 0.383 0.053 0.013 13 1.5 BA3b_exvivo 3821 1280 4018 2.819 0.344 0.060 0.024 54 4.7 BA4a_exvivo 2472 912 2294 2.665 0.384 0.066 0.028 23 3.6 BA4p_exvivo 10174 4081 13961 2.840 0.595 0.081 0.025 89 12.2 BA6_exvivo 1980 841 2322 2.469 0.390 0.081 0.019 19 1.5 BA44_exvivo 1451 623 2133 2.570 0.501 0.093 0.023 15 1.5 BA45_exvivo 7214 2674 6071 2.111 0.607 0.087 0.033 80 11.0 V1_exvivo 8083 3180 6919 2.012 0.644 0.110 0.036 112 12.9 V2_exvivo 683 276 833 2.524 0.377 0.085 0.018 7 0.5 MT_exvivo 524 221 839 3.268 0.667 0.063 0.013 2 0.3 perirhinal_exvivo 705 259 1611 3.800 0.692 0.103 0.045 8 1.6 entorhinal_exvivo Started at Wed May 26 00:16:53 UTC 2021 Ended at Wed May 26 00:26:30 UTC 2021 #@#%# recon-all-run-time-hours 0.160 recon-all -s sub-02 finished without error at Wed May 26 00:26:30 UTC 2021