Tue May 25 21:06:25 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02 /opt/freesurfer/bin/recon-all -autorecon-hemi rh -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 69017212 118577308 2022896 9043912 122442244 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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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: 2021/05/25-21:06:25-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 rh Tue May 25 21:06:26 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz Iteration Number : 1 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 1 found - 1 modified | TOTAL: 1 pass 2 (xz+): 0 found - 1 modified | TOTAL: 1 pass 1 (xz-): 1 found - 1 modified | TOTAL: 2 pass 2 (xz-): 0 found - 1 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 (+-): 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 (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 = 2 (out of 612588: 0.000326) Ambiguous edge configurations... mri_pretess done mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.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: 809 vertices, 876 faces slice 50: 6264 vertices, 6545 faces slice 60: 15675 vertices, 16043 faces slice 70: 28070 vertices, 28578 faces slice 80: 42669 vertices, 43194 faces slice 90: 57930 vertices, 58461 faces slice 100: 72953 vertices, 73489 faces slice 110: 88138 vertices, 88711 faces slice 120: 102663 vertices, 103230 faces slice 130: 118266 vertices, 118828 faces slice 140: 132587 vertices, 133186 faces slice 150: 147727 vertices, 148349 faces slice 160: 163482 vertices, 164116 faces slice 170: 178405 vertices, 179001 faces slice 180: 191449 vertices, 191991 faces slice 190: 203461 vertices, 203975 faces slice 200: 214074 vertices, 214499 faces slice 210: 223055 vertices, 223433 faces slice 220: 230040 vertices, 230383 faces slice 230: 235402 vertices, 235658 faces slice 240: 237582 vertices, 237716 faces slice 250: 237582 vertices, 237716 faces slice 260: 237582 vertices, 237716 faces slice 270: 237582 vertices, 237716 faces slice 280: 237582 vertices, 237716 faces slice 290: 237582 vertices, 237716 faces slice 300: 237582 vertices, 237716 faces slice 310: 237582 vertices, 237716 faces slice 320: 237582 vertices, 237716 faces using the conformed surface RAS to save vertex points... writing ../surf/rh.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-pretess127.mgz mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix counting number of connected components... 237582 voxel in cpt #1: X=-134 [v=237582,e=713148,f=475432] located at (29.617218, -23.416580, 10.689514) For the whole surface: X=-134 [v=237582,e=713148,f=475432] One single component has been found nothing to do done #-------------------------------------------- #@# Smooth1 rh Tue May 25 21:06:33 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... #-------------------------------------------- #@# Inflation1 rh Tue May 25 21:06:41 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_inflate -no-save-sulc -n 50 ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix niterations = 50 Not saving sulc Reading ../surf/rh.smoothwm.nofix avg radius = 48.2 mm, total surface area = 83986 mm^2 writing inflated surface to ../surf/rh.inflated.nofix inflation took 1.9 minutes step 000: RMS=0.141 (target=0.015) step 005: RMS=0.108 (target=0.015) step 010: RMS=0.084 (target=0.015) step 015: RMS=0.073 (target=0.015) step 020: RMS=0.064 (target=0.015) step 025: RMS=0.058 (target=0.015) step 030: RMS=0.053 (target=0.015) step 035: RMS=0.050 (target=0.015) step 040: RMS=0.047 (target=0.015) step 045: RMS=0.045 (target=0.015) step 050: RMS=0.043 (target=0.015) step 055: RMS=0.041 (target=0.015) step 060: RMS=0.040 (target=0.015) step 065: RMS=0.039 (target=0.015) step 070: RMS=0.038 (target=0.015) step 075: RMS=0.038 (target=0.015) step 080: RMS=0.037 (target=0.015) step 085: RMS=0.037 (target=0.015) step 090: RMS=0.037 (target=0.015) step 095: RMS=0.037 (target=0.015) step 100: RMS=0.037 (target=0.015) step 105: RMS=0.037 (target=0.015) step 110: RMS=0.037 (target=0.015) step 115: RMS=0.036 (target=0.015) step 120: RMS=0.036 (target=0.015) step 125: RMS=0.036 (target=0.015) step 130: RMS=0.036 (target=0.015) step 135: RMS=0.036 (target=0.015) step 140: RMS=0.036 (target=0.015) step 145: RMS=0.036 (target=0.015) step 150: RMS=0.036 (target=0.015) step 155: RMS=0.036 (target=0.015) step 160: RMS=0.036 (target=0.015) step 165: RMS=0.036 (target=0.015) step 170: RMS=0.036 (target=0.015) step 175: RMS=0.036 (target=0.015) step 180: RMS=0.036 (target=0.015) step 185: RMS=0.036 (target=0.015) step 190: RMS=0.036 (target=0.015) step 195: RMS=0.036 (target=0.015) step 200: RMS=0.036 (target=0.015) step 205: RMS=0.036 (target=0.015) step 210: RMS=0.036 (target=0.015) step 215: RMS=0.036 (target=0.015) step 220: RMS=0.036 (target=0.015) step 225: RMS=0.036 (target=0.015) step 230: RMS=0.036 (target=0.015) step 235: RMS=0.036 (target=0.015) step 240: RMS=0.036 (target=0.015) step 245: RMS=0.036 (target=0.015) step 250: RMS=0.036 (target=0.015) step 255: RMS=0.037 (target=0.015) step 260: RMS=0.038 (target=0.015) step 265: RMS=0.038 (target=0.015) step 270: RMS=0.038 (target=0.015) step 275: RMS=0.038 (target=0.015) step 280: RMS=0.038 (target=0.015) step 285: RMS=0.038 (target=0.015) step 290: RMS=0.038 (target=0.015) step 295: RMS=0.038 (target=0.015) step 300: RMS=0.038 (target=0.015) inflation complete. Not saving sulc mris_inflate utimesec 551.450737 mris_inflate stimesec 2.827209 mris_inflate ru_maxrss 379492 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 1263712 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 104360 mris_inflate ru_nivcsw 2902 #-------------------------------------------- #@# QSphere rh Tue May 25 21:08:33 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.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 0.75 +- 0.41 (0.00-->4.96) (max @ vno 98134 --> 99537) face area 0.02 +- 0.02 (-0.11-->0.39) == Number of threads available to mris_sphere for OpenMP = 8 == scaling brain by 0.311... inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=174.076, avgs=0 005/300: dt: 0.9000, rms radial error=173.820, avgs=0 010/300: dt: 0.9000, rms radial error=173.271, avgs=0 015/300: dt: 0.9000, rms radial error=172.548, avgs=0 020/300: dt: 0.9000, rms radial error=171.725, avgs=0 025/300: dt: 0.9000, rms radial error=170.843, avgs=0 030/300: dt: 0.9000, rms radial error=169.929, avgs=0 035/300: dt: 0.9000, rms radial error=168.998, avgs=0 040/300: dt: 0.9000, rms radial error=168.059, avgs=0 045/300: dt: 0.9000, rms radial error=167.118, avgs=0 050/300: dt: 0.9000, rms radial error=166.178, avgs=0 055/300: dt: 0.9000, rms radial error=165.241, avgs=0 060/300: dt: 0.9000, rms radial error=164.308, avgs=0 065/300: dt: 0.9000, rms radial error=163.379, avgs=0 070/300: dt: 0.9000, rms radial error=162.455, avgs=0 075/300: dt: 0.9000, rms radial error=161.536, avgs=0 080/300: dt: 0.9000, rms radial error=160.622, avgs=0 085/300: dt: 0.9000, rms radial error=159.713, avgs=0 090/300: dt: 0.9000, rms radial error=158.809, avgs=0 095/300: dt: 0.9000, rms radial error=157.910, avgs=0 100/300: dt: 0.9000, rms radial error=157.017, avgs=0 105/300: dt: 0.9000, rms radial error=156.128, avgs=0 110/300: dt: 0.9000, rms radial error=155.244, avgs=0 115/300: dt: 0.9000, rms radial error=154.366, avgs=0 120/300: dt: 0.9000, rms radial error=153.492, avgs=0 125/300: dt: 0.9000, rms radial error=152.624, avgs=0 130/300: dt: 0.9000, rms radial error=151.760, avgs=0 135/300: dt: 0.9000, rms radial error=150.901, avgs=0 140/300: dt: 0.9000, rms radial error=150.047, avgs=0 145/300: dt: 0.9000, rms radial error=149.199, avgs=0 150/300: dt: 0.9000, rms radial error=148.355, avgs=0 155/300: dt: 0.9000, rms radial error=147.516, avgs=0 160/300: dt: 0.9000, rms radial error=146.681, avgs=0 165/300: dt: 0.9000, rms radial error=145.851, avgs=0 170/300: dt: 0.9000, rms radial error=145.026, avgs=0 175/300: dt: 0.9000, rms radial error=144.206, avgs=0 180/300: dt: 0.9000, rms radial error=143.390, avgs=0 185/300: dt: 0.9000, rms radial error=142.579, avgs=0 190/300: dt: 0.9000, rms radial error=141.773, avgs=0 195/300: dt: 0.9000, rms radial error=140.971, avgs=0 200/300: dt: 0.9000, rms radial error=140.173, avgs=0 205/300: dt: 0.9000, rms radial error=139.380, avgs=0 210/300: dt: 0.9000, rms radial error=138.592, avgs=0 215/300: dt: 0.9000, rms radial error=137.808, avgs=0 220/300: dt: 0.9000, rms radial error=137.028, avgs=0 225/300: dt: 0.9000, rms radial error=136.253, avgs=0 230/300: dt: 0.9000, rms radial error=135.482, avgs=0 235/300: dt: 0.9000, rms radial error=134.716, avgs=0 240/300: dt: 0.9000, rms radial error=133.954, avgs=0 245/300: dt: 0.9000, rms radial error=133.196, avgs=0 250/300: dt: 0.9000, rms radial error=132.443, avgs=0 255/300: dt: 0.9000, rms radial error=131.694, avgs=0 260/300: dt: 0.9000, rms radial error=130.949, avgs=0 265/300: dt: 0.9000, rms radial error=130.208, avgs=0 270/300: dt: 0.9000, rms radial error=129.472, avgs=0 275/300: dt: 0.9000, rms radial error=128.739, avgs=0 280/300: dt: 0.9000, rms radial error=128.011, avgs=0 285/300: dt: 0.9000, rms radial error=127.287, avgs=0 290/300: dt: 0.9000, rms radial error=126.567, avgs=0 295/300: dt: 0.9000, rms radial error=125.851, avgs=0 300/300: dt: 0.9000, rms radial error=125.139, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 29277.25 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00012 epoch 2 (K=40.0), pass 1, starting sse = 5368.05 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = -0.00/10 = -0.00000 epoch 3 (K=160.0), pass 1, starting sse = 625.60 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.06/11 = 0.00567 epoch 4 (K=640.0), pass 1, starting sse = 41.09 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.09/13 = 0.00697 final distance error %22.89 writing spherical brain to ../surf/rh.qsphere.nofix spherical transformation took 0.04 hours mris_sphere utimesec 621.603964 mris_sphere stimesec 1.965621 mris_sphere ru_maxrss 381932 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 734632 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 127578 mris_sphere ru_nivcsw 2110 FSRUNTIME@ mris_sphere 0.0410 hours 1 threads #-------------------------------------------- #@# Fix Topology Copy rh Tue May 25 21:11:01 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts cp ../surf/rh.orig.nofix ../surf/rh.orig cp ../surf/rh.inflated.nofix ../surf/rh.inflated #@# Fix Topology rh Tue May 25 21:11:01 UTC 2021 mris_fix_topology -rusage /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 sub-02 rh 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=-134 (nv=237582, nf=475432, ne=713148, g=68) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 10 iterations marking ambiguous vertices... 8872 ambiguous faces found in tessellation segmenting defects... 82 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 62 into 58 -merging segment 74 into 70 -merging segment 76 into 72 79 defects to be corrected 0 vertices coincident reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Computing Initial Surface Statistics -face loglikelihood: -9.1323 (-4.5661) -vertex loglikelihood: -5.9367 (-2.9683) -normal dot loglikelihood: -3.4995 (-3.4995) -quad curv loglikelihood: -6.4071 (-3.2035) Total Loglikelihood : -24.9754 CORRECTING DEFECT 0 (vertices=181, convex hull=142, v0=32) After retessellation of defect 0 (v0=32), euler #=-79 (232245,694919,462595) : difference with theory (-76) = 3 CORRECTING DEFECT 1 (vertices=57, convex hull=33, v0=56) After retessellation of defect 1 (v0=56), euler #=-78 (232248,694945,462619) : difference with theory (-75) = 3 CORRECTING DEFECT 2 (vertices=53, convex hull=22, v0=204) After retessellation of defect 2 (v0=204), euler #=-77 (232249,694955,462629) : difference with theory (-74) = 3 CORRECTING DEFECT 3 (vertices=34, convex hull=26, v0=1297) After retessellation of defect 3 (v0=1297), euler #=-76 (232252,694975,462647) : difference with theory (-73) = 3 CORRECTING DEFECT 4 (vertices=111, convex hull=24, v0=1713) After retessellation of defect 4 (v0=1713), euler #=-75 (232255,694989,462659) : difference with theory (-72) = 3 CORRECTING DEFECT 5 (vertices=6, convex hull=17, v0=3604) After retessellation of defect 5 (v0=3604), euler #=-74 (232255,694993,462664) : difference with theory (-71) = 3 CORRECTING DEFECT 6 (vertices=29, convex hull=50, v0=6946) After retessellation of defect 6 (v0=6946), euler #=-73 (232264,695037,462700) : difference with theory (-70) = 3 CORRECTING DEFECT 7 (vertices=26, convex hull=56, v0=18474) After retessellation of defect 7 (v0=18474), euler #=-72 (232270,695077,462735) : difference with theory (-69) = 3 CORRECTING DEFECT 8 (vertices=29, convex hull=55, v0=21535) After retessellation of defect 8 (v0=21535), euler #=-71 (232278,695119,462770) : difference with theory (-68) = 3 CORRECTING DEFECT 9 (vertices=24, convex hull=43, v0=21895) After retessellation of defect 9 (v0=21895), euler #=-70 (232283,695148,462795) : difference with theory (-67) = 3 CORRECTING DEFECT 10 (vertices=7, convex hull=22, v0=22083) After retessellation of defect 10 (v0=22083), euler #=-69 (232285,695158,462804) : difference with theory (-66) = 3 CORRECTING DEFECT 11 (vertices=28, convex hull=62, v0=22751) After retessellation of defect 11 (v0=22751), euler #=-68 (232291,695201,462842) : difference with theory (-65) = 3 CORRECTING DEFECT 12 (vertices=12, convex hull=26, v0=25190) After retessellation of defect 12 (v0=25190), euler #=-67 (232292,695213,462854) : difference with theory (-64) = 3 CORRECTING DEFECT 13 (vertices=31, convex hull=50, v0=26215) After retessellation of defect 13 (v0=26215), euler #=-66 (232299,695255,462890) : difference with theory (-63) = 3 CORRECTING DEFECT 14 (vertices=16, convex hull=60, v0=28241) After retessellation of defect 14 (v0=28241), euler #=-65 (232304,695290,462921) : difference with theory (-62) = 3 CORRECTING DEFECT 15 (vertices=86, convex hull=95, v0=41610) After retessellation of defect 15 (v0=41610), euler #=-64 (232316,695366,462986) : difference with theory (-61) = 3 CORRECTING DEFECT 16 (vertices=62, convex hull=90, v0=50485) After retessellation of defect 16 (v0=50485), euler #=-63 (232326,695437,463048) : difference with theory (-60) = 3 CORRECTING DEFECT 17 (vertices=25, convex hull=48, v0=51059) After retessellation of defect 17 (v0=51059), euler #=-62 (232330,695466,463074) : difference with theory (-59) = 3 CORRECTING DEFECT 18 (vertices=6, convex hull=22, v0=52176) After retessellation of defect 18 (v0=52176), euler #=-61 (232330,695475,463084) : difference with theory (-58) = 3 CORRECTING DEFECT 19 (vertices=21, convex hull=46, v0=53307) After retessellation of defect 19 (v0=53307), euler #=-60 (232335,695508,463113) : difference with theory (-57) = 3 CORRECTING DEFECT 20 (vertices=50, convex hull=75, v0=69702) After retessellation of defect 20 (v0=69702), euler #=-59 (232344,695566,463163) : difference with theory (-56) = 3 CORRECTING DEFECT 21 (vertices=39, convex hull=65, v0=76012) After retessellation of defect 21 (v0=76012), euler #=-58 (232352,695617,463207) : difference with theory (-55) = 3 CORRECTING DEFECT 22 (vertices=23, convex hull=45, v0=77549) After retessellation of defect 22 (v0=77549), euler #=-57 (232358,695650,463235) : difference with theory (-54) = 3 CORRECTING DEFECT 23 (vertices=96, convex hull=77, v0=81595) After retessellation of defect 23 (v0=81595), euler #=-56 (232372,695726,463298) : difference with theory (-53) = 3 CORRECTING DEFECT 24 (vertices=61, convex hull=79, v0=88478) After retessellation of defect 24 (v0=88478), euler #=-55 (232382,695789,463352) : difference with theory (-52) = 3 CORRECTING DEFECT 25 (vertices=39, convex hull=41, v0=93087) After retessellation of defect 25 (v0=93087), euler #=-54 (232384,695807,463369) : difference with theory (-51) = 3 CORRECTING DEFECT 26 (vertices=5, convex hull=21, v0=97729) After retessellation of defect 26 (v0=97729), euler #=-53 (232385,695815,463377) : difference with theory (-50) = 3 CORRECTING DEFECT 27 (vertices=6, convex hull=30, v0=100592) After retessellation of defect 27 (v0=100592), euler #=-52 (232387,695832,463393) : difference with theory (-49) = 3 CORRECTING DEFECT 28 (vertices=118, convex hull=87, v0=100630) After retessellation of defect 28 (v0=100630), euler #=-51 (232399,695907,463457) : difference with theory (-48) = 3 CORRECTING DEFECT 29 (vertices=29, convex hull=34, v0=107146) After retessellation of defect 29 (v0=107146), euler #=-50 (232404,695933,463479) : difference with theory (-47) = 3 CORRECTING DEFECT 30 (vertices=23, convex hull=48, v0=113992) After retessellation of defect 30 (v0=113992), euler #=-49 (232411,695973,463513) : difference with theory (-46) = 3 CORRECTING DEFECT 31 (vertices=7, convex hull=20, v0=114721) After retessellation of defect 31 (v0=114721), euler #=-48 (232411,695977,463518) : difference with theory (-45) = 3 CORRECTING DEFECT 32 (vertices=1349, convex hull=494, v0=114757) After retessellation of defect 32 (v0=114757), euler #=-47 (232502,696512,463963) : difference with theory (-44) = 3 CORRECTING DEFECT 33 (vertices=34, convex hull=62, v0=116701) After retessellation of defect 33 (v0=116701), euler #=-46 (232511,696562,464005) : difference with theory (-43) = 3 CORRECTING DEFECT 34 (vertices=5, convex hull=28, v0=117165) After retessellation of defect 34 (v0=117165), euler #=-45 (232512,696572,464015) : difference with theory (-42) = 3 CORRECTING DEFECT 35 (vertices=35, convex hull=28, v0=121179) After retessellation of defect 35 (v0=121179), euler #=-44 (232515,696593,464034) : difference with theory (-41) = 3 CORRECTING DEFECT 36 (vertices=11, convex hull=27, v0=124296) After retessellation of defect 36 (v0=124296), euler #=-43 (232517,696609,464049) : difference with theory (-40) = 3 CORRECTING DEFECT 37 (vertices=6, convex hull=26, v0=127774) After retessellation of defect 37 (v0=127774), euler #=-42 (232518,696620,464060) : difference with theory (-39) = 3 CORRECTING DEFECT 38 (vertices=36, convex hull=29, v0=131469) After retessellation of defect 38 (v0=131469), euler #=-41 (232521,696638,464076) : difference with theory (-38) = 3 CORRECTING DEFECT 39 (vertices=86, convex hull=30, v0=141700) After retessellation of defect 39 (v0=141700), euler #=-40 (232524,696655,464091) : difference with theory (-37) = 3 CORRECTING DEFECT 40 (vertices=50, convex hull=63, v0=142031) After retessellation of defect 40 (v0=142031), euler #=-39 (232535,696712,464138) : difference with theory (-36) = 3 CORRECTING DEFECT 41 (vertices=8, convex hull=23, v0=142232) After retessellation of defect 41 (v0=142232), euler #=-38 (232536,696719,464145) : difference with theory (-35) = 3 CORRECTING DEFECT 42 (vertices=34, convex hull=35, v0=142241) After retessellation of defect 42 (v0=142241), euler #=-37 (232542,696750,464171) : difference with theory (-34) = 3 CORRECTING DEFECT 43 (vertices=6, convex hull=26, v0=144102) After retessellation of defect 43 (v0=144102), euler #=-36 (232543,696758,464179) : difference with theory (-33) = 3 CORRECTING DEFECT 44 (vertices=6, convex hull=22, v0=144180) After retessellation of defect 44 (v0=144180), euler #=-35 (232544,696766,464187) : difference with theory (-32) = 3 CORRECTING DEFECT 45 (vertices=6, convex hull=22, v0=145541) After retessellation of defect 45 (v0=145541), euler #=-34 (232544,696772,464194) : difference with theory (-31) = 3 CORRECTING DEFECT 46 (vertices=19, convex hull=42, v0=147159) After retessellation of defect 46 (v0=147159), euler #=-33 (232546,696793,464214) : difference with theory (-30) = 3 CORRECTING DEFECT 47 (vertices=80, convex hull=37, v0=147981) After retessellation of defect 47 (v0=147981), euler #=-32 (232547,696806,464227) : difference with theory (-29) = 3 CORRECTING DEFECT 48 (vertices=7, convex hull=25, v0=148711) After retessellation of defect 48 (v0=148711), euler #=-31 (232548,696817,464238) : difference with theory (-28) = 3 CORRECTING DEFECT 49 (vertices=83, convex hull=36, v0=151536) After retessellation of defect 49 (v0=151536), euler #=-30 (232556,696855,464269) : difference with theory (-27) = 3 CORRECTING DEFECT 50 (vertices=91, convex hull=36, v0=152176) After retessellation of defect 50 (v0=152176), euler #=-29 (232559,696883,464295) : difference with theory (-26) = 3 CORRECTING DEFECT 51 (vertices=9, convex hull=30, v0=153592) After retessellation of defect 51 (v0=153592), euler #=-28 (232561,696897,464308) : difference with theory (-25) = 3 CORRECTING DEFECT 52 (vertices=13, convex hull=13, v0=155476) After retessellation of defect 52 (v0=155476), euler #=-27 (232561,696899,464311) : difference with theory (-24) = 3 CORRECTING DEFECT 53 (vertices=20, convex hull=43, v0=156767) After retessellation of defect 53 (v0=156767), euler #=-26 (232564,696922,464332) : difference with theory (-23) = 3 CORRECTING DEFECT 54 (vertices=40, convex hull=66, v0=159146) After retessellation of defect 54 (v0=159146), euler #=-25 (232574,696976,464377) : difference with theory (-22) = 3 CORRECTING DEFECT 55 (vertices=13, convex hull=16, v0=159591) After retessellation of defect 55 (v0=159591), euler #=-24 (232575,696984,464385) : difference with theory (-21) = 3 CORRECTING DEFECT 56 (vertices=44, convex hull=22, v0=160624) After retessellation of defect 56 (v0=160624), euler #=-23 (232577,696994,464394) : difference with theory (-20) = 3 CORRECTING DEFECT 57 (vertices=380, convex hull=174, v0=161234) After retessellation of defect 57 (v0=161234), euler #=-22 (232593,697136,464521) : difference with theory (-19) = 3 CORRECTING DEFECT 58 (vertices=444, convex hull=298, v0=161363) After retessellation of defect 58 (v0=161363), euler #=-20 (232650,697480,464810) : difference with theory (-18) = 2 CORRECTING DEFECT 59 (vertices=64, convex hull=58, v0=162474) After retessellation of defect 59 (v0=162474), euler #=-19 (232661,697539,464859) : difference with theory (-17) = 2 CORRECTING DEFECT 60 (vertices=21, convex hull=16, v0=162929) After retessellation of defect 60 (v0=162929), euler #=-18 (232663,697549,464868) : difference with theory (-16) = 2 CORRECTING DEFECT 61 (vertices=90, convex hull=39, v0=164089) After retessellation of defect 61 (v0=164089), euler #=-17 (232672,697589,464900) : difference with theory (-15) = 2 CORRECTING DEFECT 62 (vertices=20, convex hull=54, v0=168208) After retessellation of defect 62 (v0=168208), euler #=-16 (232677,697625,464932) : difference with theory (-14) = 2 CORRECTING DEFECT 63 (vertices=13, convex hull=31, v0=172690) After retessellation of defect 63 (v0=172690), euler #=-15 (232678,697639,464946) : difference with theory (-13) = 2 CORRECTING DEFECT 64 (vertices=50, convex hull=28, v0=172942) After retessellation of defect 64 (v0=172942), euler #=-14 (232680,697654,464960) : difference with theory (-12) = 2 CORRECTING DEFECT 65 (vertices=91, convex hull=35, v0=173925) After retessellation of defect 65 (v0=173925), euler #=-13 (232685,697679,464981) : difference with theory (-11) = 2 CORRECTING DEFECT 66 (vertices=30, convex hull=53, v0=175432) After retessellation of defect 66 (v0=175432), euler #=-12 (232694,697727,465021) : difference with theory (-10) = 2 CORRECTING DEFECT 67 (vertices=30, convex hull=34, v0=175451) After retessellation of defect 67 (v0=175451), euler #=-11 (232695,697741,465035) : difference with theory (-9) = 2 CORRECTING DEFECT 68 (vertices=12, convex hull=32, v0=176415) After retessellation of defect 68 (v0=176415), euler #=-10 (232697,697759,465052) : difference with theory (-8) = 2 CORRECTING DEFECT 69 (vertices=262, convex hull=144, v0=176540) After retessellation of defect 69 (v0=176540), euler #=-8 (232727,697915,465180) : difference with theory (-7) = 1 CORRECTING DEFECT 70 (vertices=32, convex hull=61, v0=183550) After retessellation of defect 70 (v0=183550), euler #=-7 (232734,697960,465219) : difference with theory (-6) = 1 CORRECTING DEFECT 71 (vertices=164, convex hull=187, v0=186541) After retessellation of defect 71 (v0=186541), euler #=-5 (232759,698129,465365) : difference with theory (-5) = 0 CORRECTING DEFECT 72 (vertices=6, convex hull=13, v0=189055) After retessellation of defect 72 (v0=189055), euler #=-4 (232760,698136,465372) : difference with theory (-4) = 0 CORRECTING DEFECT 73 (vertices=30, convex hull=62, v0=190094) After retessellation of defect 73 (v0=190094), euler #=-3 (232768,698182,465411) : difference with theory (-3) = 0 CORRECTING DEFECT 74 (vertices=26, convex hull=49, v0=198752) After retessellation of defect 74 (v0=198752), euler #=-2 (232772,698213,465439) : difference with theory (-2) = 0 CORRECTING DEFECT 75 (vertices=44, convex hull=49, v0=203440) After retessellation of defect 75 (v0=203440), euler #=-1 (232777,698252,465474) : difference with theory (-1) = 0 CORRECTING DEFECT 76 (vertices=57, convex hull=114, v0=204496) After retessellation of defect 76 (v0=204496), euler #=0 (232798,698364,465566) : difference with theory (0) = 0 CORRECTING DEFECT 77 (vertices=33, convex hull=55, v0=231973) After retessellation of defect 77 (v0=231973), euler #=1 (232805,698406,465602) : difference with theory (1) = 0 CORRECTING DEFECT 78 (vertices=18, convex hull=15, v0=237240) After retessellation of defect 78 (v0=237240), euler #=2 (232806,698412,465608) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.71 +- 0.18 (0.04-->18.93) (max @ vno 148275 --> 151046) face area 0.00 +- 0.00 (0.00-->0.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.71 +- 0.18 (0.04-->18.93) (max @ vno 148275 --> 151046) face area 0.00 +- 0.00 (0.00-->0.00) tessellation finished, orienting corrected surface... 262 mutations (36.6%), 453 crossovers (63.4%), 175 vertices were eliminated building final representation... 4776 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=232806, nf=465608, ne=698412, g=0) writing corrected surface to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.orig... 0.000 % of the vertices (0 vertices) exhibit an orientation change topology fixing took 38.7 minutes 0 defective edges removing intersecting faces 000: 436 intersecting 001: 9 intersecting mris_fix_topology utimesec 2332.661396 mris_fix_topology stimesec 0.900840 mris_fix_topology ru_maxrss 760628 mris_fix_topology ru_ixrss 0 mris_fix_topology ru_idrss 0 mris_fix_topology ru_isrss 0 mris_fix_topology ru_minflt 567665 mris_fix_topology ru_majflt 0 mris_fix_topology ru_nswap 0 mris_fix_topology ru_inblock 0 mris_fix_topology ru_oublock 21968 mris_fix_topology ru_msgsnd 0 mris_fix_topology ru_msgrcv 0 mris_fix_topology ru_nsignals 0 mris_fix_topology ru_nvcsw 4868 mris_fix_topology ru_nivcsw 2595 FSRUNTIME@ mris_fix_topology rh 0.6451 hours 1 threads mris_euler_number ../surf/rh.orig euler # = v-e+f = 2g-2: 232806 - 698412 + 465608 = 2 --> 0 holes F =2V-4: 465608 = 465612-4 (0) 2E=3F: 1396824 = 1396824 (0) total defect index = 0 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_remove_intersection ../surf/rh.orig ../surf/rh.orig intersection removal took 0.00 hours removing intersecting faces 000: 52 intersecting 001: 2 intersecting writing corrected surface to ../surf/rh.orig rm ../surf/rh.inflated #-------------------------------------------- #@# Make White Surf rh Tue May 25 21:49:50 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 rh 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/rh.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 68.5 (was 70) setting MAX_BORDER_WHITE to 115.3 (was 105) setting MIN_BORDER_WHITE to 79.0 (was 85) setting MAX_CSF to 58.0 (was 40) setting MAX_GRAY to 102.7 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 68.5 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 47.4 (was 40) repositioning cortical surface to gray/white boundary smoothing T1 volume with sigma = 2.000 vertex spacing 0.67 +- 0.17 (0.00-->2.64) (max @ vno 166775 --> 232599) face area 0.19 +- 0.08 (0.00-->1.98) mean absolute distance = 1.58 +- 1.63 7248 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=79+-7.0 mean inside = 100.6, mean outside = 83.8 smoothing surface for 5 iterations... inhibiting deformation at non-cortical midline structures... mean border=96.6, 111 (111) missing vertices, mean dist -0.9 [2.2 (%56.1)->0.6 (%43.9))] %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 1 randomSeed 0 smoothing T1 volume with sigma = 1.000 vertex spacing 0.70 +- 0.19 (0.02-->3.38) (max @ vno 163867 --> 163896) face area 0.19 +- 0.09 (0.00-->1.52) mean absolute distance = 0.65 +- 0.86 6992 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4739324.0, rms=9.138 001: dt: 0.5000, sse=2358580.2, rms=5.552 (39.248%) 002: dt: 0.5000, sse=1585522.2, rms=3.616 (34.875%) 003: dt: 0.5000, sse=1426893.2, rms=3.066 (15.206%) 004: dt: 0.5000, sse=1386657.5, rms=2.918 (4.807%) 005: dt: 0.5000, sse=1359140.2, rms=2.843 (2.568%) rms = 2.81, time step reduction 1 of 3 to 0.250... 006: dt: 0.5000, sse=1393060.1, rms=2.814 (1.038%) 007: dt: 0.2500, sse=1166353.8, rms=1.661 (40.959%) 008: dt: 0.2500, sse=1107475.8, rms=1.364 (17.901%) 009: dt: 0.2500, sse=1091684.9, rms=1.270 (6.863%) 010: dt: 0.2500, sse=1079103.2, rms=1.214 (4.401%) rms = 1.19, time step reduction 2 of 3 to 0.125... 011: dt: 0.2500, sse=1091695.4, rms=1.187 (2.255%) rms = 1.16, time step reduction 3 of 3 to 0.062... 012: dt: 0.1250, sse=1089356.1, rms=1.163 (2.012%) 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 mean border=96.0, 205 (32) missing vertices, mean dist -0.2 [1.0 (%41.7)->0.4 (%58.3))] %80 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 0.69 +- 0.19 (0.04-->4.04) (max @ vno 169487 --> 170789) face area 0.20 +- 0.09 (0.00-->2.22) mean absolute distance = 0.37 +- 0.60 9916 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1895497.6, rms=4.182 013: dt: 0.5000, sse=1436308.4, rms=2.665 (36.277%) 014: dt: 0.5000, sse=1414395.8, rms=2.577 (3.301%) rms = 2.72, time step reduction 1 of 3 to 0.250... 015: dt: 0.2500, sse=1211499.4, rms=1.691 (34.369%) 016: dt: 0.2500, sse=1179434.2, rms=1.198 (29.158%) 017: dt: 0.2500, sse=1163921.6, rms=1.067 (10.916%) rms = 1.02, time step reduction 2 of 3 to 0.125... 018: dt: 0.2500, sse=1141606.5, rms=1.021 (4.314%) rms = 0.98, time step reduction 3 of 3 to 0.062... 019: dt: 0.1250, sse=1133648.6, rms=0.980 (4.094%) positioning took 0.9 minutes inhibiting deformation at non-cortical midline structures... removing 2 vertex label from ripped group removing 2 vertex label from ripped group removing 4 vertex label from ripped group removing 3 vertex label from ripped group removing 3 vertex label from ripped group removing 4 vertex label from ripped group mean border=95.9, 167 (17) missing vertices, mean dist -0.1 [0.6 (%36.5)->0.2 (%63.5))] %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 (0.03-->3.85) (max @ vno 163866 --> 163896) face area 0.20 +- 0.09 (0.00-->2.55) mean absolute distance = 0.26 +- 0.46 8428 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1308875.5, rms=2.345 020: dt: 0.5000, sse=1287991.5, rms=1.960 (16.397%) rms = 2.25, time step reduction 1 of 3 to 0.250... 021: dt: 0.2500, sse=1154876.5, rms=1.325 (32.427%) 022: dt: 0.2500, sse=1153454.9, rms=1.036 (21.830%) 023: dt: 0.2500, sse=1119713.6, rms=0.974 (5.945%) rms = 0.95, time step reduction 2 of 3 to 0.125... 024: dt: 0.2500, sse=1109861.6, rms=0.947 (2.807%) rms = 0.91, time step reduction 3 of 3 to 0.062... 025: dt: 0.1250, sse=1104266.9, rms=0.913 (3.546%) positioning took 0.8 minutes inhibiting deformation at non-cortical midline structures... removing 3 vertex label from ripped group removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 4 vertex label from ripped group mean border=95.5, 193 (12) missing vertices, mean dist -0.0 [0.5 (%31.5)->0.2 (%68.5))] %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/rh.white.preaparc... writing smoothed curvature to rh.curv 000: dt: 0.0000, sse=1189848.5, rms=1.636 026: dt: 0.5000, sse=1154959.2, rms=1.421 (13.148%) rms = 1.86, time step reduction 1 of 3 to 0.250... 027: dt: 0.2500, sse=1093560.8, rms=0.936 (34.091%) 028: dt: 0.2500, sse=1102345.4, rms=0.809 (13.613%) rms = 0.77, time step reduction 2 of 3 to 0.125... 029: dt: 0.2500, sse=1091244.1, rms=0.766 (5.276%) rms = 0.74, time step reduction 3 of 3 to 0.062... 030: dt: 0.1250, sse=1089905.8, rms=0.737 (3.775%) positioning took 0.7 minutes generating cortex label... 18 non-cortical segments detected only using segment with 12907 vertices erasing segment 0 (vno[0] = 70208) erasing segment 2 (vno[0] = 99566) erasing segment 3 (vno[0] = 163948) erasing segment 4 (vno[0] = 165288) erasing segment 5 (vno[0] = 166592) erasing segment 6 (vno[0] = 166699) erasing segment 7 (vno[0] = 166821) erasing segment 8 (vno[0] = 166858) erasing segment 9 (vno[0] = 168270) erasing segment 10 (vno[0] = 169496) erasing segment 11 (vno[0] = 173330) erasing segment 12 (vno[0] = 173374) erasing segment 13 (vno[0] = 174624) erasing segment 14 (vno[0] = 176267) erasing segment 15 (vno[0] = 177727) erasing segment 16 (vno[0] = 177811) erasing segment 17 (vno[0] = 232624) writing cortex label to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/rh.cortex.label... writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.curv writing smoothed area to rh.area writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.area vertex spacing 0.70 +- 0.19 (0.02-->3.80) (max @ vno 163867 --> 163896) face area 0.20 +- 0.09 (0.00-->2.77) refinement took 5.6 minutes #-------------------------------------------- #@# Smooth2 rh Tue May 25 21:55:28 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... #-------------------------------------------- #@# Inflation2 rh Tue May 25 21:55:35 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.rh.dat -n 50 ../surf/rh.smoothwm ../surf/rh.inflated niterations = 50 Reading ../surf/rh.smoothwm avg radius = 48.3 mm, total surface area = 87027 mm^2 writing inflated surface to ../surf/rh.inflated writing sulcal depths to ../surf/rh.sulc step 000: RMS=0.150 (target=0.015) step 005: RMS=0.108 (target=0.015) step 010: RMS=0.081 (target=0.015) step 015: RMS=0.068 (target=0.015) step 020: RMS=0.058 (target=0.015) step 025: RMS=0.049 (target=0.015) step 030: RMS=0.043 (target=0.015) step 035: RMS=0.037 (target=0.015) step 040: RMS=0.033 (target=0.015) step 045: RMS=0.030 (target=0.015) step 050: RMS=0.027 (target=0.015) step 055: RMS=0.025 (target=0.015) step 060: RMS=0.023 (target=0.015) step 065: RMS=0.022 (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=0.016 (target=0.015) step 105: RMS=0.016 (target=0.015) step 110: RMS=0.016 (target=0.015) step 115: RMS=0.015 (target=0.015) step 120: RMS=0.015 (target=0.015) inflation complete. inflation took 0.7 minutes mris_inflate utimesec 227.717658 mris_inflate stimesec 2.373276 mris_inflate ru_maxrss 371924 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 543514 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 18200 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 109119 mris_inflate ru_nivcsw 296 #-------------------------------------------- #@# Curv .H and .K rh Tue May 25 21:56:19 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf mris_curvature -w rh.white.preaparc total integrated curvature = 50.640*4pi (636.364) --> -50 handles ICI = 263.4, FI = 2439.1, variation=38689.274 writing Gaussian curvature to ./rh.white.preaparc.K...done. writing mean curvature to ./rh.white.preaparc.H...done. rm -f rh.white.H ln -s rh.white.preaparc.H rh.white.H rm -f rh.white.K ln -s rh.white.preaparc.K rh.white.K mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 rh.inflated normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 338 vertices thresholded to be in k1 ~ [-0.17 0.20], k2 ~ [-0.07 0.05] total integrated curvature = 0.716*4pi (8.997) --> 0 handles ICI = 1.4, FI = 6.2, variation=115.653 220 vertices thresholded to be in [-0.01 0.01] writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 232 vertices thresholded to be in [-0.11 0.10] done. writing mean curvature to ./rh.inflated.H...curvature mean = -0.015, std = 0.018 done. #----------------------------------------- #@# Curvature Stats rh Tue May 25 21:57:51 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm sub-02 rh curv sulc Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/rh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ sub-02/rh.smoothwm ] Reading surface... [ ok ] Setting texture [ curv ] Reading texture... [ ok ] Setting texture [ sulc ] Reading texture...Gb_filter = 0 [ ok ] Calculating Discrete Principal Curvatures... Determining geometric order for vertex faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 403 ] Gb_filter = 0 WARN: S lookup min: -0.595892 WARN: S explicit min: 0.000000 vertex = 33 #-------------------------------------------- #@# Sphere rh Tue May 25 21:57:56 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.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.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 1 randomSeed 1234 -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %37.85 pass 1: epoch 2 of 3 starting distance error %19.93 unfolding complete - removing small folds... starting distance error %19.87 removing remaining folds... final distance error %19.88 MRISunfold() return, current seed 1234 -01: dt=0.0000, 461 negative triangles 090: dt=0.9900, 461 negative triangles 091: dt=0.9900, 261 negative triangles 092: dt=0.9900, 224 negative triangles 093: dt=0.9900, 201 negative triangles 094: dt=0.9900, 191 negative triangles 095: dt=0.9900, 183 negative triangles 096: dt=0.9900, 183 negative triangles 097: dt=0.9900, 167 negative triangles 098: dt=0.9900, 156 negative triangles 099: dt=0.9900, 150 negative triangles 100: dt=0.9900, 154 negative triangles 101: dt=0.9900, 125 negative triangles 102: dt=0.9900, 134 negative triangles 103: dt=0.9900, 120 negative triangles 104: dt=0.9900, 125 negative triangles 105: dt=0.9900, 116 negative triangles 106: dt=0.9900, 108 negative triangles 107: dt=0.9900, 104 negative triangles 108: dt=0.9900, 111 negative triangles 109: dt=0.9900, 97 negative triangles 110: dt=0.9900, 95 negative triangles 111: dt=0.9900, 100 negative triangles 112: dt=0.9900, 94 negative triangles 113: dt=0.9900, 95 negative triangles 114: dt=0.9900, 82 negative triangles 115: dt=0.9900, 81 negative triangles 116: dt=0.9900, 63 negative triangles 117: dt=0.9900, 63 negative triangles 118: dt=0.9900, 63 negative triangles 119: dt=0.9900, 65 negative triangles 120: dt=0.9900, 63 negative triangles 121: dt=0.9900, 52 negative triangles 122: dt=0.9900, 52 negative triangles 123: dt=0.9900, 56 negative triangles 124: dt=0.9900, 51 negative triangles 125: dt=0.9900, 47 negative triangles 126: dt=0.9900, 50 negative triangles 127: dt=0.9900, 44 negative triangles 128: dt=0.9900, 40 negative triangles 129: dt=0.9900, 45 negative triangles 130: dt=0.9900, 47 negative triangles 131: dt=0.9900, 40 negative triangles 132: dt=0.9900, 44 negative triangles 133: dt=0.9900, 43 negative triangles 134: dt=0.9900, 40 negative triangles 135: dt=0.9900, 34 negative triangles 136: dt=0.9900, 33 negative triangles 137: dt=0.9900, 33 negative triangles 138: dt=0.9900, 33 negative triangles 139: dt=0.9900, 31 negative triangles 140: dt=0.9900, 31 negative triangles 141: dt=0.9900, 33 negative triangles 142: dt=0.9900, 35 negative triangles 143: dt=0.9900, 34 negative triangles 144: dt=0.9900, 34 negative triangles 145: dt=0.9900, 29 negative triangles 146: dt=0.9900, 31 negative triangles 147: dt=0.9900, 31 negative triangles 148: dt=0.9900, 34 negative triangles 149: dt=0.9900, 32 negative triangles 150: dt=0.9900, 31 negative triangles 151: dt=0.9900, 29 negative triangles 152: dt=0.9900, 30 negative triangles 153: dt=0.9900, 25 negative triangles 154: dt=0.9900, 25 negative triangles 155: dt=0.9900, 26 negative triangles 156: dt=0.9900, 23 negative triangles 157: dt=0.9900, 25 negative triangles 158: dt=0.9900, 27 negative triangles 159: dt=0.9900, 29 negative triangles 160: dt=0.9900, 25 negative triangles 161: dt=0.9900, 21 negative triangles 162: dt=0.9900, 21 negative triangles 163: dt=0.9900, 26 negative triangles 164: dt=0.9900, 21 negative triangles 165: dt=0.9900, 26 negative triangles 166: dt=0.9900, 26 negative triangles 167: dt=0.9900, 24 negative triangles 168: dt=0.9900, 23 negative triangles 169: dt=0.9900, 20 negative triangles 170: dt=0.9900, 19 negative triangles 171: dt=0.9900, 18 negative triangles 172: dt=0.9900, 16 negative triangles 173: dt=0.9900, 17 negative triangles 174: dt=0.9900, 19 negative triangles 175: dt=0.9900, 16 negative triangles 176: dt=0.9900, 14 negative triangles 177: dt=0.9900, 14 negative triangles 178: dt=0.9900, 17 negative triangles 179: dt=0.9900, 18 negative triangles 180: dt=0.9900, 17 negative triangles 181: dt=0.9900, 16 negative triangles 182: dt=0.9900, 13 negative triangles 183: dt=0.9900, 15 negative triangles 184: dt=0.9900, 14 negative triangles 185: dt=0.9900, 9 negative triangles 186: dt=0.9900, 11 negative triangles 187: dt=0.9900, 10 negative triangles 188: dt=0.9900, 11 negative triangles 189: dt=0.9900, 10 negative triangles 190: dt=0.9900, 4 negative triangles 191: dt=0.9900, 10 negative triangles 192: dt=0.9900, 4 negative triangles 193: dt=0.9900, 8 negative triangles 194: dt=0.9900, 9 negative triangles 195: dt=0.9900, 9 negative triangles 196: dt=0.9900, 3 negative triangles 197: dt=0.9900, 4 negative triangles 198: dt=0.9900, 4 negative triangles 199: dt=0.9900, 4 negative triangles 200: dt=0.9900, 2 negative triangles 201: dt=0.9900, 4 negative triangles 202: dt=0.9900, 2 negative triangles 203: dt=0.9900, 5 negative triangles 204: dt=0.9900, 2 negative triangles 205: dt=0.9900, 2 negative triangles 206: dt=0.9900, 1 negative triangles 207: dt=0.9900, 2 negative triangles 208: dt=0.9900, 1 negative triangles 209: dt=0.9900, 2 negative triangles 210: dt=0.9900, 2 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 0.13 hours mris_sphere utimesec 3130.251119 mris_sphere stimesec 3.211326 mris_sphere ru_maxrss 494016 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 1682838 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 16376 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 98208 mris_sphere ru_nivcsw 3752 FSRUNTIME@ mris_sphere 0.1318 hours 1 threads #-------------------------------------------- #@# Surf Reg rh Tue May 25 22:05:51 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.rh.dat ../surf/rh.sphere /opt/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.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.rh.dat ../surf/rh.sphere /opt/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.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/rh.sphere... reading template parameterization from /opt/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=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 1 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 rh.sulc curvature mean = -0.000, std = 5.954 curvature mean = 0.020, std = 0.808 curvature mean = 0.018, std = 0.879 Starting MRISrigidBodyAlignGlobal() d=64.00 min @ (16.00, 0.00, 0.00) sse = 483772.1, tmin=1.3362 d=32.00 min @ (-8.00, -8.00, 0.00) sse = 423449.5, tmin=2.6332 d=16.00 min @ (4.00, 4.00, 0.00) sse = 381912.1, tmin=3.9381 d=8.00 min @ (0.00, -2.00, -2.00) sse = 378062.8, tmin=5.2529 d=4.00 min @ (0.00, 1.00, 1.00) sse = 373958.9, tmin=6.5774 d=2.00 min @ (-0.50, -0.50, 0.00) sse = 372391.5, tmin=7.9341 d=0.50 min @ (0.00, 0.00, 0.12) sse = 372365.7, tmin=10.7318 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 10.73 min curvature mean = -0.013, std = 0.829 curvature mean = 0.005, std = 0.955 curvature mean = -0.021, std = 0.835 curvature mean = 0.002, std = 0.982 curvature mean = -0.025, std = 0.834 curvature mean = 0.001, std = 0.993 2 Reading smoothwm curvature mean = -0.033, std = 0.332 curvature mean = 0.028, std = 0.238 curvature mean = 0.036, std = 0.309 curvature mean = 0.027, std = 0.293 curvature mean = 0.017, std = 0.480 curvature mean = 0.027, std = 0.318 curvature mean = 0.009, std = 0.613 curvature mean = 0.028, std = 0.329 curvature mean = 0.003, std = 0.717 MRISregister() return, current seed 0 -01: dt=0.0000, 99 negative triangles 121: dt=0.9900, 99 negative triangles expanding nbhd size to 1 122: dt=0.9900, 134 negative triangles 123: dt=0.9900, 93 negative triangles 124: dt=0.9900, 91 negative triangles 125: dt=0.9900, 87 negative triangles 126: dt=0.9900, 86 negative triangles 127: dt=0.9900, 82 negative triangles 128: dt=0.9900, 80 negative triangles 129: dt=0.9900, 72 negative triangles 130: dt=0.9900, 73 negative triangles 131: dt=0.9900, 68 negative triangles 132: dt=0.9900, 59 negative triangles 133: dt=0.9900, 62 negative triangles 134: dt=0.9900, 60 negative triangles 135: dt=0.9900, 56 negative triangles 136: dt=0.9900, 51 negative triangles 137: dt=0.9900, 50 negative triangles 138: dt=0.9900, 45 negative triangles 139: dt=0.9900, 36 negative triangles 140: dt=0.9900, 37 negative triangles 141: dt=0.9900, 40 negative triangles 142: dt=0.9900, 36 negative triangles 143: dt=0.9900, 32 negative triangles 144: dt=0.9900, 35 negative triangles 145: dt=0.9900, 30 negative triangles 146: dt=0.9900, 27 negative triangles 147: dt=0.9900, 30 negative triangles 148: dt=0.9900, 22 negative triangles 149: dt=0.9900, 24 negative triangles 150: dt=0.9900, 23 negative triangles 151: dt=0.9900, 20 negative triangles 152: dt=0.9900, 19 negative triangles 153: dt=0.9900, 17 negative triangles 154: dt=0.9900, 14 negative triangles 155: dt=0.9900, 13 negative triangles 156: dt=0.9900, 13 negative triangles 157: dt=0.9900, 14 negative triangles 158: dt=0.9900, 15 negative triangles 159: dt=0.9900, 10 negative triangles 160: dt=0.9900, 10 negative triangles 161: dt=0.9900, 7 negative triangles 162: dt=0.9900, 9 negative triangles 163: dt=0.9900, 11 negative triangles 164: dt=0.9900, 11 negative triangles 165: dt=0.9900, 8 negative triangles 166: dt=0.9900, 7 negative triangles 167: dt=0.9900, 5 negative triangles 168: dt=0.9900, 6 negative triangles 169: dt=0.9900, 4 negative triangles 170: dt=0.9900, 5 negative triangles 171: dt=0.9900, 4 negative triangles 172: dt=0.9900, 4 negative triangles 173: dt=0.9900, 1 negative triangles 174: dt=0.9900, 3 negative triangles 175: dt=0.9900, 4 negative triangles writing registered surface to ../surf/rh.sphere.reg... registration took 0.63 hours mris_register utimesec 10615.385703 mris_register stimesec 3.309168 mris_register ru_maxrss 421296 mris_register ru_ixrss 0 mris_register ru_idrss 0 mris_register ru_isrss 0 mris_register ru_minflt 241521 mris_register ru_majflt 0 mris_register ru_nswap 0 mris_register ru_inblock 5582 mris_register ru_oublock 16384 mris_register ru_msgsnd 0 mris_register ru_msgrcv 0 mris_register ru_nsignals 0 mris_register ru_nvcsw 168062 mris_register ru_nivcsw 49221 FSRUNTIME@ mris_register 0.6271 hours 1 threads #-------------------------------------------- #@# Jacobian white rh Tue May 25 22:43:29 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white reading surface from ../surf/rh.white.preaparc... writing curvature file ../surf/rh.jacobian_white #-------------------------------------------- #@# AvgCurv rh Tue May 25 22:43:31 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mrisp_paint -a 5 /opt/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/rh.sphere.reg... reading template parameterization from /opt/freesurfer/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/rh.avg_curv... #----------------------------------------- #@# Cortical Parc rh Tue May 25 22:43:33 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-02 rh ../surf/rh.sphere.reg /opt/freesurfer/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $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/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.7 using min determinant for regularization = 0.004 0 singular and 309 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 2269 labels changed using aseg relabeling using gibbs priors... 000: 4115 changed, 232806 examined... 001: 1021 changed, 17342 examined... 002: 253 changed, 5616 examined... 003: 77 changed, 1509 examined... 004: 34 changed, 486 examined... 005: 9 changed, 208 examined... 006: 5 changed, 54 examined... 007: 2 changed, 30 examined... 008: 3 changed, 14 examined... 009: 3 changed, 19 examined... 010: 1 changed, 19 examined... 011: 0 changed, 7 examined... 198 labels changed using aseg 000: 127 total segments, 89 labels (447 vertices) changed 001: 42 total segments, 4 labels (11 vertices) changed 002: 38 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 14 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 3285 vertices marked for relabeling... 3285 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 19 seconds. #-------------------------------------------- #@# Make Pial Surf rh Tue May 25 22:43:52 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 rh 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/rh.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 68.5 (was 70) setting MAX_BORDER_WHITE to 115.3 (was 105) setting MIN_BORDER_WHITE to 79.0 (was 85) setting MAX_CSF to 58.0 (was 40) setting MAX_GRAY to 102.7 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 68.5 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 47.4 (was 40) spring scale = 1.25 using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=109+-3.5, GM=79+-7.0 mean inside = 100.6, mean outside = 83.8 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 (0.02-->3.80) (max @ vno 163867 --> 163896) face area 0.20 +- 0.09 (0.00-->2.79) mean absolute distance = 1.42 +- 1.44 6518 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 3 vertex label from ripped group deleting segment 0 with 3 points - only 0.00% unknown deleting segment 2 with 132 points - only 0.00% unknown deleting segment 4 with 25 points - only 0.00% unknown deleting segment 5 with 339 points - only 0.00% unknown deleting segment 8 with 20 points - only 0.00% unknown deleting segment 9 with 15 points - only 0.00% unknown deleting segment 10 with 9 points - only 0.00% unknown mean border=96.4, 185 (182) missing vertices, mean dist -0.6 [2.4 (%41.4)->0.6 (%58.6))] %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 1 randomSeed 0 smoothing T1 volume with sigma = 1.000 vertex spacing 0.70 +- 0.19 (0.02-->4.46) (max @ vno 163866 --> 163896) face area 0.20 +- 0.10 (0.00-->2.80) mean absolute distance = 0.62 +- 0.84 6482 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=2329607.5, rms=5.318 001: dt: 0.5000, sse=1449556.5, rms=2.926 (44.986%) 002: dt: 0.5000, sse=1364478.6, rms=2.540 (13.189%) rms = 2.55, time step reduction 1 of 3 to 0.250... 003: dt: 0.2500, sse=1201622.8, rms=1.755 (30.883%) 004: dt: 0.2500, sse=1172797.8, rms=1.300 (25.970%) 005: dt: 0.2500, sse=1151428.0, rms=1.182 (9.031%) 006: dt: 0.2500, sse=1135434.8, rms=1.126 (4.714%) rms = 1.10, time step reduction 2 of 3 to 0.125... 007: dt: 0.2500, sse=1139791.0, rms=1.096 (2.719%) rms = 1.07, time step reduction 3 of 3 to 0.062... 008: dt: 0.1250, sse=1121069.9, rms=1.074 (2.006%) positioning took 1.1 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 34 points - only 0.00% unknown deleting segment 1 with 127 points - only 0.00% unknown deleting segment 2 with 36 points - only 0.00% unknown deleting segment 3 with 300 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 4 with 2 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 6 with 3 points - only 0.00% unknown deleting segment 7 with 32 points - only 0.00% unknown deleting segment 8 with 12 points - only 0.00% unknown deleting segment 9 with 5 points - only 0.00% unknown deleting segment 10 with 6 points - only 0.00% unknown mean border=95.9, 193 (63) missing vertices, mean dist -0.2 [1.0 (%41.3)->0.3 (%58.7))] %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 0.69 +- 0.19 (0.01-->4.36) (max @ vno 163866 --> 163896) face area 0.21 +- 0.10 (0.00-->2.52) mean absolute distance = 0.36 +- 0.60 9679 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1804012.9, rms=4.019 009: dt: 0.5000, sse=1379883.2, rms=2.528 (37.094%) rms = 2.49, time step reduction 1 of 3 to 0.250... 010: dt: 0.5000, sse=1358671.0, rms=2.494 (1.353%) 011: dt: 0.2500, sse=1174776.9, rms=1.301 (47.840%) 012: dt: 0.2500, sse=1142783.4, rms=1.032 (20.691%) 013: dt: 0.2500, sse=1133770.5, rms=0.977 (5.248%) rms = 0.94, time step reduction 2 of 3 to 0.125... 014: dt: 0.2500, sse=1131260.5, rms=0.944 (3.371%) rms = 0.91, time step reduction 3 of 3 to 0.062... 015: dt: 0.1250, sse=1126465.5, rms=0.914 (3.277%) positioning took 0.8 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 32 points - only 0.00% unknown deleting segment 1 with 123 points - only 0.00% unknown deleting segment 2 with 29 points - only 0.00% unknown deleting segment 3 with 295 points - only 0.00% unknown deleting segment 5 with 41 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 6 with 4 points - only 0.00% unknown deleting segment 7 with 8 points - only 0.00% unknown mean border=95.9, 176 (37) missing vertices, mean dist -0.1 [0.6 (%36.5)->0.2 (%63.5))] %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 (0.03-->4.34) (max @ vno 163869 --> 163899) face area 0.20 +- 0.09 (0.00-->2.63) mean absolute distance = 0.26 +- 0.45 8149 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1293181.9, rms=2.287 016: dt: 0.5000, sse=1241445.1, rms=1.929 (15.662%) rms = 2.23, time step reduction 1 of 3 to 0.250... 017: dt: 0.2500, sse=1124123.2, rms=1.282 (33.524%) 018: dt: 0.2500, sse=1100376.4, rms=0.986 (23.135%) 019: dt: 0.2500, sse=1105818.8, rms=0.933 (5.347%) rms = 0.91, time step reduction 2 of 3 to 0.125... 020: dt: 0.2500, sse=1094551.9, rms=0.907 (2.829%) rms = 0.87, time step reduction 3 of 3 to 0.062... 021: dt: 0.1250, sse=1102939.5, rms=0.874 (3.615%) positioning took 0.8 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 6 points - only 0.00% unknown deleting segment 1 with 122 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 3 with 29 points - only 0.00% unknown deleting segment 4 with 18 points - only 0.00% unknown deleting segment 5 with 261 points - only 0.00% unknown deleting segment 7 with 41 points - only 0.00% unknown deleting segment 8 with 28 points - only 0.00% unknown deleting segment 9 with 7 points - only 0.00% unknown deleting segment 10 with 5 points - only 0.00% unknown mean border=95.4, 206 (28) missing vertices, mean dist -0.0 [0.5 (%31.3)->0.2 (%68.7))] %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/rh.white... writing smoothed curvature to rh.curv 000: dt: 0.0000, sse=1182159.8, rms=1.588 022: dt: 0.5000, sse=1178167.6, rms=1.396 (12.094%) rms = 1.84, time step reduction 1 of 3 to 0.250... 023: dt: 0.2500, sse=1097343.4, rms=0.902 (35.436%) 024: dt: 0.2500, sse=1092716.5, rms=0.774 (14.098%) rms = 0.74, time step reduction 2 of 3 to 0.125... 025: dt: 0.2500, sse=1077208.0, rms=0.737 (4.847%) rms = 0.71, time step reduction 3 of 3 to 0.062... 026: dt: 0.1250, sse=1071354.8, rms=0.711 (3.462%) positioning took 0.7 minutes generating cortex label... 16 non-cortical segments detected only using segment with 12860 vertices erasing segment 0 (vno[0] = 70208) erasing segment 2 (vno[0] = 99566) erasing segment 3 (vno[0] = 147899) erasing segment 4 (vno[0] = 165288) erasing segment 5 (vno[0] = 166592) erasing segment 6 (vno[0] = 166699) erasing segment 7 (vno[0] = 166820) erasing segment 8 (vno[0] = 166821) erasing segment 9 (vno[0] = 168228) erasing segment 10 (vno[0] = 169496) erasing segment 11 (vno[0] = 173330) erasing segment 12 (vno[0] = 173374) erasing segment 13 (vno[0] = 174624) erasing segment 14 (vno[0] = 176362) erasing segment 15 (vno[0] = 232624) writing cortex label to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/rh.cortex.label... writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.curv writing smoothed area to rh.area writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.area vertex spacing 0.69 +- 0.19 (0.02-->4.33) (max @ vno 163869 --> 163899) face area 0.20 +- 0.09 (0.00-->2.87) 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 60 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 1 with 2 points - only 0.00% unknown deleting segment 2 with 116 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 3 with 3 points - only 0.00% unknown deleting segment 4 with 10 points - only 0.00% unknown deleting segment 5 with 16 points - only 0.00% unknown deleting segment 6 with 29 points - only 0.00% unknown deleting segment 7 with 8 points - only 0.00% unknown deleting segment 8 with 124 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 9 with 4 points - only 0.00% unknown deleting segment 11 with 27 points - only 0.00% unknown deleting segment 12 with 16 points - only 0.00% unknown deleting segment 13 with 75 points - only 0.00% unknown deleting segment 14 with 7 points - only 0.00% unknown deleting segment 16 with 25 points - only 0.00% unknown deleting segment 17 with 6 points - only 0.00% unknown deleting segment 18 with 19 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 19 with 4 points - only 0.00% unknown smoothing surface for 5 iterations... reading initial pial vertex positions from white.preaparc... mean border=76.2, 201 (201) missing vertices, mean dist 0.9 [0.3 (%0.0)->1.3 (%100.0))] %24 local maxima, %45 large gradients and %25 min vals, 63 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=19350654.0, rms=20.374 001: dt: 0.0500, sse=15307363.0, rms=17.985 (11.726%) 002: dt: 0.0500, sse=13173699.0, rms=16.585 (7.781%) 003: dt: 0.0500, sse=11792973.0, rms=15.613 (5.864%) 004: dt: 0.0500, sse=10790096.0, rms=14.867 (4.781%) 005: dt: 0.0500, sse=10004822.0, rms=14.255 (4.116%) 006: dt: 0.0500, sse=9357592.0, rms=13.730 (3.682%) 007: dt: 0.0500, sse=8804872.0, rms=13.265 (3.386%) 008: dt: 0.0500, sse=8320305.0, rms=12.843 (3.177%) 009: dt: 0.0500, sse=7887045.5, rms=12.454 (3.029%) 010: dt: 0.0500, sse=7494845.5, rms=12.091 (2.915%) positioning took 1.2 minutes mean border=70.3, 119 (75) missing vertices, mean dist 1.0 [0.2 (%0.0)->1.3 (%100.0))] %25 local maxima, %45 large gradients and %25 min vals, 161 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=16173021.0, rms=18.517 011: dt: 0.0500, sse=15570818.0, rms=18.144 (2.015%) 012: dt: 0.0500, sse=15034386.0, rms=17.805 (1.868%) 013: dt: 0.0500, sse=14553127.0, rms=17.495 (1.740%) 014: dt: 0.0500, sse=14117697.0, rms=17.210 (1.630%) 015: dt: 0.0500, sse=13720801.0, rms=16.945 (1.535%) 016: dt: 0.0500, sse=13355828.0, rms=16.699 (1.456%) 017: dt: 0.0500, sse=13017360.0, rms=16.466 (1.391%) 018: dt: 0.0500, sse=12698694.0, rms=16.245 (1.347%) 019: dt: 0.0500, sse=12392672.0, rms=16.029 (1.328%) 020: dt: 0.0500, sse=12095784.0, rms=15.817 (1.323%) positioning took 1.1 minutes mean border=68.3, 115 (54) missing vertices, mean dist 0.9 [0.1 (%0.2)->1.3 (%99.8))] %25 local maxima, %45 large gradients and %24 min vals, 178 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=13671094.0, rms=16.914 021: dt: 0.0500, sse=13310119.0, rms=16.669 (1.448%) 022: dt: 0.0500, sse=12970103.0, rms=16.435 (1.404%) 023: dt: 0.0500, sse=12649992.0, rms=16.212 (1.360%) 024: dt: 0.0500, sse=12346459.0, rms=15.997 (1.326%) 025: dt: 0.0500, sse=12057522.0, rms=15.789 (1.297%) 026: dt: 0.0500, sse=11778453.0, rms=15.586 (1.286%) 027: dt: 0.0500, sse=11507289.0, rms=15.386 (1.283%) 028: dt: 0.0500, sse=11242769.0, rms=15.189 (1.284%) 029: dt: 0.0500, sse=10982059.0, rms=14.992 (1.299%) 030: dt: 0.0500, sse=10724340.0, rms=14.794 (1.318%) positioning took 1.1 minutes mean border=67.2, 130 (46) missing vertices, mean dist 0.8 [0.1 (%1.9)->1.1 (%98.1))] %25 local maxima, %45 large gradients and %24 min vals, 155 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=11645822.0, rms=15.484 031: dt: 0.5000, sse=9689706.0, rms=13.967 (9.798%) 032: dt: 0.5000, sse=7953086.0, rms=12.469 (10.725%) 033: dt: 0.5000, sse=6315674.0, rms=10.883 (12.719%) 034: dt: 0.5000, sse=4971565.5, rms=9.374 (13.868%) 035: dt: 0.5000, sse=3925596.2, rms=8.013 (14.516%) 036: dt: 0.5000, sse=3299009.5, rms=7.071 (11.762%) 037: dt: 0.5000, sse=2956895.2, rms=6.502 (8.041%) 038: dt: 0.5000, sse=2809360.5, rms=6.239 (4.043%) 039: dt: 0.5000, sse=2721560.2, rms=6.078 (2.581%) 040: dt: 0.5000, sse=2684277.8, rms=6.008 (1.152%) 041: dt: 0.5000, sse=2647420.5, rms=5.939 (1.155%) rms = 5.91, time step reduction 1 of 3 to 0.250... 042: dt: 0.5000, sse=2634041.5, rms=5.912 (0.446%) 043: dt: 0.2500, sse=2300553.8, rms=5.174 (12.492%) 044: dt: 0.2500, sse=2235659.0, rms=5.027 (2.838%) rms = 5.05, time step reduction 2 of 3 to 0.125... 045: dt: 0.1250, sse=2186689.8, rms=4.908 (2.358%) 046: dt: 0.1250, sse=2125186.5, rms=4.754 (3.156%) rms = 4.73, time step reduction 3 of 3 to 0.062... 047: dt: 0.1250, sse=2117406.8, rms=4.733 (0.439%) positioning took 2.5 minutes mean border=63.9, 2436 (23) missing vertices, mean dist 0.2 [0.2 (%17.9)->0.4 (%82.1))] %46 local maxima, %25 large gradients and %22 min vals, 156 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=3692965.0, rms=7.209 048: dt: 0.5000, sse=3469212.2, rms=6.821 (5.382%) 049: dt: 0.5000, sse=3061104.0, rms=6.120 (10.275%) rms = 6.11, time step reduction 1 of 3 to 0.250... 050: dt: 0.5000, sse=3064698.8, rms=6.110 (0.156%) 051: dt: 0.2500, sse=2366158.8, rms=4.556 (25.431%) 052: dt: 0.2500, sse=2196957.5, rms=4.095 (10.125%) 053: dt: 0.2500, sse=2079398.8, rms=3.746 (8.524%) 054: dt: 0.2500, sse=1979645.9, rms=3.429 (8.476%) 055: dt: 0.2500, sse=1922410.9, rms=3.229 (5.829%) 056: dt: 0.2500, sse=1881526.2, rms=3.084 (4.493%) rms = 3.04, time step reduction 2 of 3 to 0.125... 057: dt: 0.2500, sse=1870200.0, rms=3.040 (1.407%) 058: dt: 0.1250, sse=1680850.2, rms=2.166 (28.749%) 059: dt: 0.1250, sse=1657673.6, rms=2.044 (5.654%) rms = 2.01, time step reduction 3 of 3 to 0.062... 060: dt: 0.1250, sse=1651881.6, rms=2.011 (1.576%) positioning took 2.1 minutes mean border=62.2, 2946 (13) missing vertices, mean dist 0.1 [0.2 (%21.1)->0.2 (%78.9))] %55 local maxima, %17 large gradients and %21 min vals, 131 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=1990405.6, rms=3.373 rms = 4.62, time step reduction 1 of 3 to 0.250... 061: dt: 0.2500, sse=1826296.5, rms=2.742 (18.699%) 062: dt: 0.2500, sse=1775381.4, rms=2.508 (8.539%) rms = 2.57, time step reduction 2 of 3 to 0.125... 063: dt: 0.1250, sse=1755049.0, rms=2.410 (3.904%) 064: dt: 0.1250, sse=1727496.6, rms=2.275 (5.585%) 065: dt: 0.1250, sse=1715144.6, rms=2.214 (2.680%) rms = 2.19, time step reduction 3 of 3 to 0.062... 066: dt: 0.1250, sse=1708842.5, rms=2.185 (1.324%) positioning took 1.2 minutes mean border=61.5, 5677 (12) missing vertices, mean dist 0.0 [0.2 (%28.0)->0.1 (%72.0))] %57 local maxima, %15 large gradients and %21 min vals, 118 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/rh.pial... writing smoothed curvature to rh.curv.pial 000: dt: 0.0000, sse=1758145.6, rms=2.412 rms = 3.41, time step reduction 1 of 3 to 0.250... 067: dt: 0.2500, sse=1719767.5, rms=2.213 (8.249%) rms = 2.21, time step reduction 2 of 3 to 0.125... rms = 2.18, time step reduction 3 of 3 to 0.062... 068: dt: 0.1250, sse=1714204.5, rms=2.183 (1.343%) positioning took 0.5 minutes writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.curv.pial writing smoothed area to rh.area.pial writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.area.pial vertex spacing 0.79 +- 0.35 (0.05-->7.41) (max @ vno 184832 --> 232724) face area 0.25 +- 0.20 (0.00-->5.27) measuring cortical thickness... writing cortical thickness estimate to 'thickness' file. 0 of 232806 vertices processed 25000 of 232806 vertices processed 50000 of 232806 vertices processed 75000 of 232806 vertices processed 100000 of 232806 vertices processed 125000 of 232806 vertices processed 150000 of 232806 vertices processed 175000 of 232806 vertices processed 200000 of 232806 vertices processed 225000 of 232806 vertices processed 0 of 232806 vertices processed 25000 of 232806 vertices processed 50000 of 232806 vertices processed 75000 of 232806 vertices processed 100000 of 232806 vertices processed 125000 of 232806 vertices processed 150000 of 232806 vertices processed 175000 of 232806 vertices processed 200000 of 232806 vertices processed 225000 of 232806 vertices processed thickness calculation complete, 81:735 truncations. 40436 vertices at 0 distance 134501 vertices at 1 distance 142689 vertices at 2 distance 78316 vertices at 3 distance 30710 vertices at 4 distance 10016 vertices at 5 distance 3025 vertices at 6 distance 938 vertices at 7 distance 381 vertices at 8 distance 111 vertices at 9 distance 61 vertices at 10 distance 47 vertices at 11 distance 37 vertices at 12 distance 20 vertices at 13 distance 18 vertices at 14 distance 9 vertices at 15 distance 11 vertices at 16 distance 17 vertices at 17 distance 12 vertices at 18 distance 5 vertices at 19 distance 6 vertices at 20 distance writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.thickness positioning took 17.3 minutes #-------------------------------------------- #@# Surf Volume rh Tue May 25 23:01:08 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 rh.area.mid rh.area add rh.area.pial Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o rh.area.mid rh.area.mid div 2 Saving result to 'rh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume sub-02 rh /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.volume masking with /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/rh.cortex.label Total face volume 259951 Total vertex volume 258161 (mask=0) #@# sub-02 rh 258161 vertexvol Done #----------------------------------------- #@# Cortical Parc 2 rh Tue May 25 23:01:13 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-02 rh ../surf/rh.sphere.reg /opt/freesurfer/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $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/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.020 0 singular and 719 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 21 labels changed using aseg relabeling using gibbs priors... 000: 13577 changed, 232806 examined... 001: 3227 changed, 52939 examined... 002: 982 changed, 16954 examined... 003: 438 changed, 5619 examined... 004: 226 changed, 2497 examined... 005: 110 changed, 1249 examined... 006: 49 changed, 649 examined... 007: 32 changed, 299 examined... 008: 14 changed, 166 examined... 009: 8 changed, 73 examined... 010: 3 changed, 51 examined... 011: 1 changed, 14 examined... 012: 0 changed, 8 examined... 3 labels changed using aseg 000: 376 total segments, 294 labels (5516 vertices) changed 001: 101 total segments, 20 labels (202 vertices) changed 002: 82 total segments, 1 labels (14 vertices) changed 003: 81 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 57 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 2260 vertices marked for relabeling... 2260 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 0 minutes and 20 seconds. #----------------------------------------- #@# Cortical Parc 3 rh Tue May 25 23:01:33 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-02 rh ../surf/rh.sphere.reg /opt/freesurfer/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $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/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.9 using min determinant for regularization = 0.009 0 singular and 325 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 2412 labels changed using aseg relabeling using gibbs priors... 000: 2910 changed, 232806 examined... 001: 717 changed, 13204 examined... 002: 199 changed, 4029 examined... 003: 76 changed, 1195 examined... 004: 52 changed, 432 examined... 005: 30 changed, 291 examined... 006: 20 changed, 155 examined... 007: 12 changed, 102 examined... 008: 11 changed, 64 examined... 009: 7 changed, 54 examined... 010: 5 changed, 33 examined... 011: 5 changed, 24 examined... 012: 4 changed, 24 examined... 013: 2 changed, 20 examined... 014: 4 changed, 14 examined... 015: 1 changed, 22 examined... 016: 0 changed, 6 examined... 279 labels changed using aseg 000: 66 total segments, 33 labels (388 vertices) changed 001: 34 total segments, 1 labels (1 vertices) changed 002: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 8 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 2156 vertices marked for relabeling... 2156 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas.annot... classification took 0 minutes and 16 seconds. #----------------------------------------- #@# WM/GM Contrast rh Tue May 25 23:01:49 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts pctsurfcon --s sub-02 --rh-only Log file is /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts/pctsurfcon.log Tue May 25 23:01:49 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 rh --noreshape --interp trilinear --projdist -1 --o /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/tmp.pctsurfcon.61545/rh.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 = rh 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/rh.cortex.label Reading surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.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 = 126565 Masking with /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/rh.cortex.label Writing to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/tmp.pctsurfcon.61545/rh.wm.mgh Dim: 232806 1 1 mri_vol2surf --mov /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/tmp.pctsurfcon.61545/rh.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 = rh 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/rh.cortex.label Reading surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Done reading source surface Reading thickness /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.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 = 145903 Masking with /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/rh.cortex.label Writing to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/tmp.pctsurfcon.61545/rh.gm.mgh Dim: 232806 1 1 mri_concat /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/tmp.pctsurfcon.61545/rh.wm.mgh /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/tmp.pctsurfcon.61545/rh.gm.mgh --paired-diff-norm --mul 100 --o /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.w-g.pct.mgh ninputs = 2 Checking inputs nframestot = 2 Allocing output Done allocing Combining pairs nframes = 1 Multiplying by 100.000000 Writing to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.w-g.pct.mgh mri_segstats --in /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.w-g.pct.mgh --annot sub-02 rh aparc --sum /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/stats/rh.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/rh.w-g.pct.mgh --annot sub-02 rh aparc --sum /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/stats/rh.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/rh.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 2000 Loading /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.w-g.pct.mgh Vertex Area is 0.403226 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 21:06:23 UTC 2021 Ended at Tue May 25 23:02:08 UTC 2021 #@#%# recon-all-run-time-hours 1.929 recon-all -s sub-02 finished without error at Tue May 25 23:02:09 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 rh -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 70865848 116726072 2014744 9046512 120577568 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: 2021/05/26-00:16:54-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: 2021/05/26-00:16:54-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: 2021/05/26-00:16:54-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: 2021/05/26-00:16:54-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 rh 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/rh.cortex.label -f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab sub-02 rh white computing statistics for each annotation in ../label/rh.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/rh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 260492 Total vertex volume 258635 (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 2289 972 2372 2.430 0.470 0.069 0.016 12 1.3 bankssts 2203 887 2648 2.414 1.088 0.102 0.024 29 2.3 caudalanteriorcingulate 5308 2205 6826 2.715 0.469 0.087 0.022 43 5.1 caudalmiddlefrontal 4482 1697 3984 2.121 0.497 0.098 0.033 51 6.6 cuneus 1346 577 2985 3.400 0.717 0.104 0.034 16 2.2 entorhinal 7020 2986 10051 2.844 0.663 0.092 0.028 80 8.5 fusiform 12208 4700 12239 2.315 0.458 0.083 0.024 130 11.9 inferiorparietal 7755 3204 11282 2.880 0.726 0.087 0.024 76 8.2 inferiortemporal 2377 976 2458 2.219 0.945 0.094 0.032 28 3.0 isthmuscingulate 14186 5508 14324 2.271 0.577 0.093 0.026 152 15.7 lateraloccipital 5986 2392 8388 2.968 0.624 0.099 0.040 85 11.8 lateralorbitofrontal 8405 3256 8950 2.351 0.576 0.098 0.031 101 11.5 lingual 4477 1806 5939 2.739 0.569 0.089 0.028 61 5.4 medialorbitofrontal 8063 3368 11379 2.730 0.738 0.085 0.021 77 7.1 middletemporal 1675 665 2298 3.004 0.824 0.074 0.021 10 1.5 parahippocampal 3664 1414 4198 2.632 0.514 0.068 0.016 19 2.5 paracentral 3446 1440 4529 2.783 0.519 0.076 0.019 28 2.8 parsopercularis 2134 856 3158 2.826 0.583 0.096 0.024 24 2.3 parsorbitalis 4246 1748 5311 2.700 0.467 0.085 0.020 44 3.6 parstriangularis 3732 1530 3051 2.127 0.448 0.091 0.030 36 5.2 pericalcarine 10152 3746 8983 2.147 0.498 0.073 0.020 87 8.6 postcentral 3105 1267 3483 2.314 0.802 0.095 0.026 36 3.2 posteriorcingulate 13596 5118 14653 2.676 0.432 0.070 0.025 115 14.1 precentral 9722 4054 10692 2.374 0.523 0.092 0.024 101 9.6 precuneus 1672 618 2306 2.761 0.990 0.099 0.037 29 2.9 rostralanteriorcingulate 14977 6198 17737 2.521 0.466 0.089 0.023 166 14.9 rostralmiddlefrontal 17202 7198 24308 2.843 0.597 0.086 0.023 156 17.5 superiorfrontal 14671 5760 13004 2.069 0.429 0.080 0.019 160 12.2 superiorparietal 9300 3783 11724 2.644 0.670 0.077 0.018 68 7.0 superiortemporal 10707 4245 11631 2.478 0.483 0.089 0.027 119 13.1 supramarginal 792 348 1238 2.611 0.468 0.139 0.040 18 1.4 frontalpole 1263 527 2892 3.674 0.765 0.117 0.054 21 3.2 temporalpole 918 346 1019 2.392 0.259 0.084 0.024 11 1.0 transversetemporal 6310 2750 8570 2.997 0.937 0.106 0.047 106 12.9 insula mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.pial.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab sub-02 rh pial computing statistics for each annotation in ../label/rh.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/rh.pial... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 260492 Total vertex volume 258635 (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 2289 899 2372 2.430 0.470 0.073 0.021 19 2.2 bankssts 2203 1132 2648 2.414 1.088 0.097 0.023 32 2.2 caudalanteriorcingulate 5308 2676 6826 2.715 0.469 0.082 0.017 50 4.1 caudalmiddlefrontal 4482 2043 3984 2.121 0.497 0.088 0.023 46 4.5 cuneus 1346 1105 2985 3.400 0.717 0.111 0.020 13 1.1 entorhinal 7020 3733 10051 2.844 0.663 0.092 0.065 126 7.0 fusiform 12208 5633 12239 2.315 0.458 0.083 0.025 126 12.1 inferiorparietal 7755 4268 11282 2.880 0.726 0.092 0.022 1306 7.3 inferiortemporal 2377 1135 2458 2.219 0.945 0.102 0.206 154 32.1 isthmuscingulate 14186 6728 14324 2.271 0.577 0.083 0.021 176 12.0 lateraloccipital 5986 2993 8388 2.968 0.624 0.092 0.029 72 7.5 lateralorbitofrontal 8405 4134 8950 2.351 0.576 0.093 0.055 135 29.2 lingual 4477 2350 5939 2.739 0.569 0.084 0.019 39 3.5 medialorbitofrontal 8063 4633 11379 2.730 0.738 0.090 0.019 61 6.8 middletemporal 1675 823 2298 3.004 0.824 0.074 0.016 11 1.2 parahippocampal 3664 1661 4198 2.632 0.514 0.067 0.014 34 2.1 paracentral 3446 1753 4529 2.783 0.519 0.081 0.029 30 5.8 parsopercularis 2134 1253 3158 2.826 0.583 0.097 0.018 18 1.7 parsorbitalis 4246 2122 5311 2.700 0.467 0.086 0.020 90 3.8 parstriangularis 3732 1361 3051 2.127 0.448 0.074 0.024 72 3.8 pericalcarine 10152 4536 8983 2.147 0.498 0.071 0.014 51 6.0 postcentral 3105 1540 3483 2.314 0.802 0.091 0.027 30 2.8 posteriorcingulate 13596 5607 14653 2.676 0.432 0.061 0.016 155 9.7 precentral 9722 4616 10692 2.374 0.523 0.095 0.034 178 16.4 precuneus 1672 914 2306 2.761 0.990 0.096 0.026 17 1.5 rostralanteriorcingulate 14977 7516 17737 2.521 0.466 0.086 0.018 185 11.3 rostralmiddlefrontal 17202 9042 24308 2.843 0.597 0.081 0.018 172 12.3 superiorfrontal 14671 6581 13004 2.069 0.429 0.081 0.021 139 13.4 superiorparietal 9300 4760 11724 2.644 0.670 0.089 0.026 108 12.9 superiortemporal 10707 4834 11631 2.478 0.483 0.083 0.024 97 11.8 supramarginal 792 556 1238 2.611 0.468 0.127 0.025 7 0.8 frontalpole 1263 935 2892 3.674 0.765 0.121 0.030 20 2.0 temporalpole 918 480 1019 2.392 0.259 0.070 0.011 3 0.4 transversetemporal 6310 2935 8570 2.997 0.937 0.105 0.044 200 13.2 insula #----------------------------------------- #@# Parcellation Stats 2 rh Wed May 26 00:19:01 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.a2009s.stats -b -a ../label/rh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab sub-02 rh white computing statistics for each annotation in ../label/rh.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/rh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 260492 Total vertex volume 258635 (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 1841 787 1990 2.376 0.384 0.105 0.025 25 2.1 G&S_frontomargin 3002 1186 3855 2.625 0.515 0.097 0.024 31 3.2 G&S_occipital_inf 2296 780 2473 2.567 0.469 0.073 0.022 20 2.0 G&S_paracentral 2378 938 3037 2.686 0.527 0.100 0.027 34 2.8 G&S_subcentral 2376 982 3058 2.538 0.442 0.115 0.032 40 3.4 G&S_transv_frontopol 4959 2001 6130 2.788 0.648 0.081 0.023 48 5.3 G&S_cingul-Ant 2826 1198 3676 2.657 0.614 0.091 0.020 27 2.3 G&S_cingul-Mid-Ant 2363 1002 3120 2.764 0.525 0.088 0.025 20 2.2 G&S_cingul-Mid-Post 932 378 1531 2.888 0.626 0.122 0.045 16 1.9 G_cingul-Post-dorsal 465 195 693 2.777 0.860 0.106 0.027 7 0.4 G_cingul-Post-ventral 4387 1590 4008 2.138 0.500 0.103 0.040 60 8.0 G_cuneus 2154 885 3453 2.895 0.507 0.090 0.021 25 2.2 G_front_inf-Opercular 899 341 1575 3.070 0.393 0.120 0.033 17 1.3 G_front_inf-Orbital 1622 656 2440 2.805 0.440 0.100 0.026 26 1.8 G_front_inf-Triangul 6051 2434 9456 2.792 0.472 0.104 0.030 92 7.9 G_front_middle 11415 4716 18683 3.001 0.603 0.096 0.028 131 13.9 G_front_sup 1064 453 1698 3.349 0.629 0.112 0.045 18 2.1 G_Ins_lg&S_cent_ins 1352 586 2705 3.443 0.688 0.137 0.067 29 3.9 G_insular_short 4019 1497 4816 2.432 0.484 0.097 0.026 59 4.0 G_occipital_middle 3697 1257 3071 1.976 0.552 0.084 0.025 38 3.8 G_occipital_sup 2970 1218 5537 3.126 0.619 0.109 0.037 49 4.7 G_oc-temp_lat-fusifor 5610 2054 6593 2.432 0.608 0.107 0.037 86 9.0 G_oc-temp_med-Lingual 2316 915 4475 3.405 0.755 0.092 0.031 22 3.3 G_oc-temp_med-Parahip 4408 1718 7847 3.122 0.641 0.106 0.044 79 10.2 G_orbital 5232 1838 5961 2.493 0.465 0.094 0.036 82 7.4 G_pariet_inf-Angular 4803 1857 6036 2.603 0.513 0.101 0.038 76 8.8 G_pariet_inf-Supramar 4487 1723 4617 2.140 0.483 0.087 0.024 86 5.0 G_parietal_sup 3684 1126 3105 2.122 0.360 0.071 0.021 35 3.3 G_postcentral 5744 1835 6868 2.835 0.369 0.071 0.033 68 7.7 G_precentral 3886 1598 5727 2.640 0.533 0.110 0.032 59 5.5 G_precuneus 1361 532 2459 2.951 0.517 0.114 0.044 31 2.7 G_rectus 816 360 903 2.601 1.065 0.081 0.051 9 1.3 G_subcallosal 733 272 912 2.463 0.308 0.092 0.029 10 0.9 G_temp_sup-G_T_transv 3341 1260 5330 2.930 0.582 0.090 0.025 39 3.5 G_temp_sup-Lateral 1793 781 2686 3.096 1.351 0.098 0.038 40 3.2 G_temp_sup-Plan_polar 1917 785 2216 2.465 0.383 0.080 0.019 16 1.4 G_temp_sup-Plan_tempo 3918 1617 7346 3.206 0.667 0.102 0.032 55 5.5 G_temporal_inf 4540 1844 7599 2.932 0.705 0.100 0.027 65 5.2 G_temporal_middle 1014 420 1076 2.704 0.384 0.066 0.014 5 0.6 Lat_Fis-ant-Horizont 588 255 517 2.327 0.335 0.054 0.007 2 0.1 Lat_Fis-ant-Vertical 2299 941 2029 2.536 0.430 0.074 0.017 12 1.6 Lat_Fis-post 6134 2340 5659 2.123 0.600 0.099 0.032 75 9.0 Pole_occipital 3125 1312 6377 3.299 0.853 0.110 0.047 53 6.5 Pole_temporal 3999 1761 3264 2.161 0.464 0.084 0.021 30 4.0 S_calcarine 5418 2308 4366 2.170 0.594 0.067 0.019 31 4.4 S_central 1774 760 1538 2.182 0.391 0.058 0.010 5 0.7 S_cingul-Marginalis 1152 457 1184 2.961 0.565 0.074 0.024 7 1.0 S_circular_insula_ant 2004 878 1792 2.479 0.521 0.067 0.018 9 1.8 S_circular_insula_inf 1900 829 1977 2.887 0.538 0.080 0.029 13 2.6 S_circular_insula_sup 1288 561 1285 2.477 0.464 0.056 0.010 3 0.5 S_collat_transv_ant 1103 483 907 2.355 0.393 0.091 0.022 7 1.0 S_collat_transv_post 3227 1369 3008 2.395 0.388 0.074 0.017 16 2.3 S_front_inf 4577 1930 4381 2.359 0.384 0.069 0.014 26 2.5 S_front_middle 4970 2049 5709 2.624 0.522 0.075 0.021 40 4.9 S_front_sup 1619 662 1416 2.368 0.370 0.088 0.020 13 1.4 S_interm_prim-Jensen 5604 2331 4440 2.036 0.321 0.072 0.014 33 3.0 S_intrapariet&P_trans 1753 742 1233 2.013 0.309 0.072 0.013 7 1.0 S_oc_middle&Lunatus 2780 1177 2259 2.120 0.352 0.082 0.016 18 1.9 S_oc_sup&transversal 1126 478 885 2.192 0.337 0.081 0.017 6 0.7 S_occipital_ant 1521 634 1371 2.424 0.471 0.069 0.012 7 0.8 S_oc-temp_lat 3524 1520 3466 2.610 0.477 0.071 0.014 14 2.1 S_oc-temp_med&Lingual 760 319 639 2.360 0.285 0.068 0.010 3 0.4 S_orbital_lateral 1000 423 999 2.592 0.640 0.069 0.023 6 1.0 S_orbital_med-olfact 2200 912 2548 2.769 0.509 0.087 0.024 17 2.5 S_orbital-H_Shaped 4326 1831 3524 2.067 0.397 0.081 0.018 31 3.0 S_parieto_occipital 2843 1111 1175 1.359 0.515 0.086 0.024 31 2.4 S_pericallosal 3922 1638 3130 2.074 0.296 0.061 0.011 16 1.6 S_postcentral 2988 1254 2847 2.592 0.420 0.067 0.016 14 2.1 S_precentral-inf-part 2309 1002 2229 2.545 0.336 0.067 0.013 8 1.2 S_precentral-sup-part 547 218 491 2.605 0.579 0.087 0.016 3 0.5 S_suborbital 2018 828 1874 2.343 0.558 0.083 0.020 14 1.7 S_subparietal 2407 1025 1954 2.271 0.392 0.072 0.013 10 1.5 S_temporal_inf 9347 3954 8971 2.288 0.488 0.064 0.012 40 4.5 S_temporal_sup 583 245 434 2.290 0.286 0.073 0.014 2 0.3 S_temporal_transverse #----------------------------------------- #@# Parcellation Stats 3 rh Wed May 26 00:20:06 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.DKTatlas.stats -b -a ../label/rh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab sub-02 rh white computing statistics for each annotation in ../label/rh.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/rh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/rh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 260492 Total vertex volume 258635 (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 2544 1036 3215 2.425 1.063 0.104 0.024 35 2.6 caudalanteriorcingulate 5456 2263 7025 2.717 0.469 0.087 0.024 47 5.7 caudalmiddlefrontal 5304 2026 4524 2.057 0.498 0.093 0.030 57 7.3 cuneus 1351 574 3005 3.426 0.719 0.101 0.032 15 2.1 entorhinal 6350 2702 8953 2.817 0.633 0.088 0.025 62 6.7 fusiform 12465 4811 12575 2.323 0.463 0.085 0.025 135 12.4 inferiorparietal 8440 3489 12599 2.916 0.736 0.090 0.026 92 9.7 inferiortemporal 2335 963 2396 2.220 0.940 0.093 0.031 27 2.9 isthmuscingulate 14601 5627 14570 2.262 0.570 0.093 0.026 159 16.5 lateraloccipital 7115 2923 10167 2.900 0.724 0.104 0.041 111 14.0 lateralorbitofrontal 8125 3177 8632 2.345 0.577 0.097 0.030 94 10.7 lingual 3810 1539 5220 2.729 0.677 0.097 0.040 66 6.1 medialorbitofrontal 9698 4061 13008 2.664 0.714 0.081 0.019 84 7.8 middletemporal 1732 688 2352 2.992 0.818 0.075 0.021 10 1.6 parahippocampal 3851 1490 4454 2.640 0.511 0.068 0.016 20 2.7 paracentral 3848 1609 4872 2.726 0.524 0.077 0.019 33 3.1 parsopercularis 1958 779 2840 2.866 0.531 0.090 0.023 19 1.9 parsorbitalis 4057 1671 5036 2.708 0.470 0.086 0.020 41 3.6 parstriangularis 3836 1543 3193 2.160 0.462 0.094 0.031 39 5.5 pericalcarine 10925 4085 9699 2.155 0.498 0.073 0.019 88 8.9 postcentral 3238 1323 3774 2.381 0.806 0.094 0.026 37 3.4 posteriorcingulate 13034 4863 14111 2.675 0.438 0.071 0.026 117 14.0 precentral 10001 4155 11109 2.375 0.524 0.092 0.024 105 10.1 precuneus 2018 762 2633 2.717 0.940 0.093 0.034 31 3.1 rostralanteriorcingulate 10492 4338 12265 2.509 0.467 0.089 0.023 120 10.8 rostralmiddlefrontal 22459 9396 30232 2.767 0.577 0.086 0.022 201 21.7 superiorfrontal 12211 4790 10911 2.070 0.422 0.080 0.019 139 9.9 superiorparietal 12368 5079 16574 2.726 0.786 0.085 0.026 132 13.6 superiortemporal 10010 3975 10750 2.464 0.480 0.088 0.028 111 12.4 supramarginal 910 345 1016 2.393 0.259 0.084 0.024 11 0.9 transversetemporal 4864 2075 6925 3.166 0.670 0.099 0.038 57 8.4 insula /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label #-------------------------------------------- #@# BA_exvivo Labels rh Wed May 26 00:21:11 UTC 2021 mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA1_exvivo.label --trgsubject sub-02 --trglabel ./rh.BA1_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA1_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA1_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 3962 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3962 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 1369 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.label 5331 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA2_exvivo.label --trgsubject sub-02 --trglabel ./rh.BA2_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA2_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA2_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 6687 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 6687 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 1792 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.label 8479 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA3a_exvivo.label --trgsubject sub-02 --trglabel ./rh.BA3a_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA3a_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 3980 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3980 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 1103 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.label 5083 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA3b_exvivo.label --trgsubject sub-02 --trglabel ./rh.BA3b_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA3b_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 4522 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4522 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 1705 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.label 6227 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA4a_exvivo.label --trgsubject sub-02 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA4a_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 5747 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5747 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 3204 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.label 8951 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA4p_exvivo.label --trgsubject sub-02 --trglabel ./rh.BA4p_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA4p_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 4473 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4473 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 1906 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.label 6379 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA6_exvivo.label --trgsubject sub-02 --trglabel ./rh.BA6_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA6_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA6_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 12256 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 12256 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 5165 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.label 17421 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA44_exvivo.label --trgsubject sub-02 --trglabel ./rh.BA44_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA44_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA44_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 6912 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 6912 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 2797 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.label 9709 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA45_exvivo.label --trgsubject sub-02 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA45_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA45_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 5355 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5355 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 3473 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.label 8828 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.V1_exvivo.label --trgsubject sub-02 --trglabel ./rh.V1_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.V1_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.V1_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 4727 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4727 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 5028 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.label 9755 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.V2_exvivo.label --trgsubject sub-02 --trglabel ./rh.V2_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.V2_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.V2_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 8016 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 8016 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 9965 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.label 17981 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.MT_exvivo.label --trgsubject sub-02 --trglabel ./rh.MT_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.MT_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.MT_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1932 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1932 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 1563 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.label 3495 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.entorhinal_exvivo.label --trgsubject sub-02 --trglabel ./rh.entorhinal_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.entorhinal_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1038 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1038 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 509 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.label 1547 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.perirhinal_exvivo.label --trgsubject sub-02 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.perirhinal_exvivo.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 752 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 752 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 294 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.label 1046 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA1_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.BA1_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA1_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 876 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 876 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 340 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.thresh.label 1216 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA2_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.BA2_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA2_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 2688 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2688 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 409 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.thresh.label 3097 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA3a_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.BA3a_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA3a_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1698 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1698 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 329 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.thresh.label 2027 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA3b_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.BA3b_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA3b_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 2183 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2183 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 908 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.thresh.label 3091 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA4a_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA4a_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1388 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1388 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 798 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.thresh.label 2186 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA4p_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.BA4p_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA4p_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1489 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1489 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 678 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.thresh.label 2167 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA6_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.BA6_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA6_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 6959 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 6959 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 2677 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.thresh.label 9636 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA44_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.BA44_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA44_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1012 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1012 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 491 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.thresh.label 1503 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA45_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.BA45_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 1178 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1178 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 711 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.thresh.label 1889 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.V1_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.V1_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.V1_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 3232 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3232 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 3362 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.thresh.label 6594 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.V2_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.V2_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.V2_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 3437 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3437 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 4390 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.thresh.label 7827 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.MT_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.MT_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.MT_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 268 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 268 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 158 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.thresh.label 426 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.entorhinal_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.entorhinal_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.entorhinal_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 694 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 694 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 332 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.thresh.label 1026 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.perirhinal_exvivo.thresh.label --trgsubject sub-02 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = sub-02 trglabel = ./rh.perirhinal_exvivo.thresh.label regmethod = surface srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer FREESURFER_HOME /opt/freesurfer Loading source label. Found 291 points in source label. Starting surface-based mapping Reading source registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 291 nlabel points Performing mapping from target back to the source label 232806 Number of reverse mapping hits = 64 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.thresh.label 355 mri_label2label: Done mris_label2annot --s sub-02 --hemi rh --ctab /opt/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.entorhinal_exvivo.label --l rh.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 rh --ctab /opt/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.label --l rh.BA2_exvivo.label --l rh.BA3a_exvivo.label --l rh.BA3b_exvivo.label --l rh.BA4a_exvivo.label --l rh.BA4p_exvivo.label --l rh.BA6_exvivo.label --l rh.BA44_exvivo.label --l rh.BA45_exvivo.label --l rh.V1_exvivo.label --l rh.V2_exvivo.label --l rh.MT_exvivo.label --l rh.entorhinal_exvivo.label --l rh.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 rh 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/rh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 161695 unhit vertices Writing annot to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/rh.BA_exvivo.annot mris_label2annot --s sub-02 --hemi rh --ctab /opt/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --l rh.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 rh --ctab /opt/freesurfer/average/colortable_BA.txt --l rh.BA1_exvivo.thresh.label --l rh.BA2_exvivo.thresh.label --l rh.BA3a_exvivo.thresh.label --l rh.BA3b_exvivo.thresh.label --l rh.BA4a_exvivo.thresh.label --l rh.BA4p_exvivo.thresh.label --l rh.BA6_exvivo.thresh.label --l rh.BA44_exvivo.thresh.label --l rh.BA45_exvivo.thresh.label --l rh.V1_exvivo.thresh.label --l rh.V2_exvivo.thresh.label --l rh.MT_exvivo.thresh.label --l rh.entorhinal_exvivo.thresh.label --l rh.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 rh 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/rh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 192897 unhit vertices Writing annot to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/label/rh.BA_exvivo.thresh.annot mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.stats -b -a ./rh.BA_exvivo.annot -c ./BA_exvivo.ctab sub-02 rh white computing statistics for each annotation in ./rh.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/rh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 260492 Total vertex volume 258635 (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 1606 458 1416 2.188 0.363 0.084 0.028 21 2.0 BA1_exvivo 4600 1788 3937 2.146 0.344 0.065 0.019 28 4.0 BA2_exvivo 1780 767 1124 1.956 0.426 0.083 0.028 19 1.9 BA3a_exvivo 3634 1370 2876 1.919 0.460 0.067 0.017 23 2.9 BA3b_exvivo 3341 1079 3771 2.854 0.359 0.064 0.023 23 3.8 BA4a_exvivo 2470 953 2551 2.782 0.445 0.069 0.036 27 3.0 BA4p_exvivo 13526 5420 18224 2.831 0.514 0.075 0.020 91 11.3 BA6_exvivo 5959 2511 7209 2.701 0.463 0.075 0.017 43 4.5 BA44_exvivo 7124 2873 8802 2.644 0.502 0.088 0.022 76 6.7 BA45_exvivo 6844 2607 6516 2.259 0.573 0.089 0.031 69 9.5 V1_exvivo 15185 5854 13818 2.125 0.535 0.101 0.032 187 22.1 V2_exvivo 3410 1384 3213 2.280 0.411 0.085 0.020 28 2.6 MT_exvivo 1100 454 2385 3.499 0.690 0.100 0.033 14 1.8 perirhinal_exvivo 532 242 903 3.152 0.715 0.099 0.035 6 0.9 entorhinal_exvivo mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab sub-02 rh white computing statistics for each annotation in ./rh.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/rh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-02/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 260492 Total vertex volume 258635 (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 1087 308 878 2.051 0.302 0.081 0.028 14 1.3 BA1_exvivo 2440 897 2188 2.237 0.281 0.050 0.010 10 0.8 BA2_exvivo 1673 728 987 1.919 0.424 0.085 0.031 20 2.2 BA3a_exvivo 2917 1127 2116 1.837 0.444 0.063 0.015 15 2.0 BA3b_exvivo 2039 634 2406 2.900 0.437 0.068 0.026 17 2.7 BA4a_exvivo 2021 784 2105 2.829 0.387 0.063 0.030 18 1.8 BA4p_exvivo 8755 3516 11548 2.782 0.495 0.075 0.020 61 7.0 BA6_exvivo 1432 619 2279 3.002 0.452 0.080 0.024 14 1.4 BA44_exvivo 1836 729 2239 2.559 0.415 0.082 0.018 20 1.4 BA45_exvivo 6516 2528 6110 2.231 0.572 0.089 0.032 65 9.3 V1_exvivo 7774 2944 6736 2.045 0.570 0.108 0.038 103 14.2 V2_exvivo 402 154 507 2.597 0.189 0.093 0.030 5 0.4 MT_exvivo 684 278 1581 3.662 0.574 0.090 0.029 7 0.9 perirhinal_exvivo 333 156 657 3.165 0.702 0.085 0.020 3 0.3 entorhinal_exvivo Started at Wed May 26 00:16:53 UTC 2021 Ended at Wed May 26 00:26:32 UTC 2021 #@#%# recon-all-run-time-hours 0.161 recon-all -s sub-02 finished without error at Wed May 26 00:26:32 UTC 2021