Tue May 25 20:52:26 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06 /opt/freesurfer/bin/recon-all -autorecon-hemi rh -noparcstats -noparcstats2 -noparcstats3 -nohyporelabel -nobalabels -openmp 8 -subjid sub-06 -sd /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer subjid sub-06 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 blg6114.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 767932 maxlocks unlimited maxsignal 767932 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 196638260 129587024 17444008 2231068 49607228 59072876 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: 2021/05/25-20:52:26-GMT BuildTimeStamp: Oct 20 2017 13:59:15 CVS: $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ User: bpinsard Machine: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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: 2021/05/25-20:52:26-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: blg6114.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 20:52:27 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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-): 1 found - 1 modified | TOTAL: 1 pass 2 (xy-): 0 found - 1 modified | TOTAL: 1 pass 1 (yz+): 1 found - 1 modified | TOTAL: 2 pass 2 (yz+): 0 found - 1 modified | TOTAL: 2 pass 1 (yz-): 0 found - 0 modified | TOTAL: 2 pass 1 (xz+): 0 found - 0 modified | TOTAL: 2 pass 1 (xz-): 2 found - 2 modified | TOTAL: 4 pass 2 (xz-): 0 found - 2 modified | TOTAL: 4 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 1 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 2 found - 2 modified | TOTAL: 2 pass 2 (-+): 0 found - 2 modified | TOTAL: 2 Iteration Number : 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 = 6 (out of 496469: 0.001209) 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 50: 1936 vertices, 2073 faces slice 60: 8207 vertices, 8493 faces slice 70: 17031 vertices, 17448 faces slice 80: 28610 vertices, 29064 faces slice 90: 42207 vertices, 42776 faces slice 100: 57928 vertices, 58460 faces slice 110: 72543 vertices, 73083 faces slice 120: 88292 vertices, 88861 faces slice 130: 103861 vertices, 104420 faces slice 140: 119772 vertices, 120329 faces slice 150: 134882 vertices, 135476 faces slice 160: 150136 vertices, 150700 faces slice 170: 163754 vertices, 164249 faces slice 180: 176038 vertices, 176547 faces slice 190: 187714 vertices, 188119 faces slice 200: 197379 vertices, 197761 faces slice 210: 207046 vertices, 207439 faces slice 220: 215493 vertices, 215849 faces slice 230: 222119 vertices, 222387 faces slice 240: 224432 vertices, 224504 faces slice 250: 224432 vertices, 224504 faces slice 260: 224432 vertices, 224504 faces slice 270: 224432 vertices, 224504 faces slice 280: 224432 vertices, 224504 faces slice 290: 224432 vertices, 224504 faces slice 300: 224432 vertices, 224504 faces slice 310: 224432 vertices, 224504 faces slice 320: 224432 vertices, 224504 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... 224432 voxel in cpt #1: X=-72 [v=224432,e=673512,f=449008] located at (27.071903, -19.042807, 34.377773) For the whole surface: X=-72 [v=224432,e=673512,f=449008] One single component has been found nothing to do done #-------------------------------------------- #@# Smooth1 rh Tue May 25 20:52:34 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 20:52:41 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 = 45.1 mm, total surface area = 77977 mm^2 writing inflated surface to ../surf/rh.inflated.nofix inflation took 2.1 minutes step 000: RMS=0.145 (target=0.015) step 005: RMS=0.112 (target=0.015) step 010: RMS=0.085 (target=0.015) step 015: RMS=0.073 (target=0.015) step 020: RMS=0.064 (target=0.015) step 025: RMS=0.056 (target=0.015) step 030: RMS=0.051 (target=0.015) step 035: RMS=0.047 (target=0.015) step 040: RMS=0.044 (target=0.015) step 045: RMS=0.041 (target=0.015) step 050: RMS=0.040 (target=0.015) step 055: RMS=0.038 (target=0.015) step 060: RMS=0.038 (target=0.015) step 065: RMS=0.037 (target=0.015) step 070: RMS=0.036 (target=0.015) step 075: RMS=0.035 (target=0.015) step 080: RMS=0.035 (target=0.015) step 085: RMS=0.034 (target=0.015) step 090: RMS=0.034 (target=0.015) step 095: RMS=0.034 (target=0.015) step 100: RMS=0.034 (target=0.015) step 105: RMS=0.034 (target=0.015) step 110: RMS=0.034 (target=0.015) step 115: RMS=0.034 (target=0.015) step 120: RMS=0.034 (target=0.015) step 125: RMS=0.034 (target=0.015) step 130: RMS=0.034 (target=0.015) step 135: RMS=0.033 (target=0.015) step 140: RMS=0.033 (target=0.015) step 145: RMS=0.033 (target=0.015) step 150: RMS=0.033 (target=0.015) step 155: RMS=0.033 (target=0.015) step 160: RMS=0.033 (target=0.015) step 165: RMS=0.033 (target=0.015) step 170: RMS=0.033 (target=0.015) step 175: RMS=0.033 (target=0.015) step 180: RMS=0.033 (target=0.015) step 185: RMS=0.033 (target=0.015) step 190: RMS=0.033 (target=0.015) step 195: RMS=0.032 (target=0.015) step 200: RMS=0.032 (target=0.015) step 205: RMS=0.032 (target=0.015) step 210: RMS=0.033 (target=0.015) step 215: RMS=0.033 (target=0.015) step 220: RMS=0.033 (target=0.015) step 225: RMS=0.033 (target=0.015) step 230: RMS=0.033 (target=0.015) step 235: RMS=0.033 (target=0.015) step 240: RMS=0.033 (target=0.015) step 245: RMS=0.033 (target=0.015) step 250: RMS=0.033 (target=0.015) step 255: RMS=0.033 (target=0.015) step 260: RMS=0.034 (target=0.015) step 265: RMS=0.034 (target=0.015) step 270: RMS=0.034 (target=0.015) step 275: RMS=0.034 (target=0.015) step 280: RMS=0.034 (target=0.015) step 285: RMS=0.034 (target=0.015) step 290: RMS=0.034 (target=0.015) step 295: RMS=0.034 (target=0.015) step 300: RMS=0.034 (target=0.015) inflation complete. Not saving sulc mris_inflate utimesec 625.216040 mris_inflate stimesec 3.952651 mris_inflate ru_maxrss 359136 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 2268297 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 15792 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 85224 mris_inflate ru_nivcsw 6004 #-------------------------------------------- #@# QSphere rh Tue May 25 20:54:46 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 0.77 +- 0.41 (0.00-->6.43) (max @ vno 155719 --> 157013) face area 0.02 +- 0.02 (-0.13-->0.53) == Number of threads available to mris_sphere for OpenMP = 8 == scaling brain by 0.315... inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=174.658, avgs=0 005/300: dt: 0.9000, rms radial error=174.399, avgs=0 010/300: dt: 0.9000, rms radial error=173.843, avgs=0 015/300: dt: 0.9000, rms radial error=173.113, avgs=0 020/300: dt: 0.9000, rms radial error=172.283, avgs=0 025/300: dt: 0.9000, rms radial error=171.396, avgs=0 030/300: dt: 0.9000, rms radial error=170.477, avgs=0 035/300: dt: 0.9000, rms radial error=169.541, avgs=0 040/300: dt: 0.9000, rms radial error=168.598, avgs=0 045/300: dt: 0.9000, rms radial error=167.653, avgs=0 050/300: dt: 0.9000, rms radial error=166.710, avgs=0 055/300: dt: 0.9000, rms radial error=165.768, avgs=0 060/300: dt: 0.9000, rms radial error=164.831, avgs=0 065/300: dt: 0.9000, rms radial error=163.898, avgs=0 070/300: dt: 0.9000, rms radial error=162.970, avgs=0 075/300: dt: 0.9000, rms radial error=162.046, avgs=0 080/300: dt: 0.9000, rms radial error=161.130, avgs=0 085/300: dt: 0.9000, rms radial error=160.219, avgs=0 090/300: dt: 0.9000, rms radial error=159.314, avgs=0 095/300: dt: 0.9000, rms radial error=158.414, avgs=0 100/300: dt: 0.9000, rms radial error=157.519, avgs=0 105/300: dt: 0.9000, rms radial error=156.628, avgs=0 110/300: dt: 0.9000, rms radial error=155.743, avgs=0 115/300: dt: 0.9000, rms radial error=154.863, avgs=0 120/300: dt: 0.9000, rms radial error=153.988, avgs=0 125/300: dt: 0.9000, rms radial error=153.118, avgs=0 130/300: dt: 0.9000, rms radial error=152.252, avgs=0 135/300: dt: 0.9000, rms radial error=151.392, avgs=0 140/300: dt: 0.9000, rms radial error=150.536, avgs=0 145/300: dt: 0.9000, rms radial error=149.686, avgs=0 150/300: dt: 0.9000, rms radial error=148.840, avgs=0 155/300: dt: 0.9000, rms radial error=147.998, avgs=0 160/300: dt: 0.9000, rms radial error=147.162, avgs=0 165/300: dt: 0.9000, rms radial error=146.330, avgs=0 170/300: dt: 0.9000, rms radial error=145.503, avgs=0 175/300: dt: 0.9000, rms radial error=144.681, avgs=0 180/300: dt: 0.9000, rms radial error=143.863, avgs=0 185/300: dt: 0.9000, rms radial error=143.050, avgs=0 190/300: dt: 0.9000, rms radial error=142.241, avgs=0 195/300: dt: 0.9000, rms radial error=141.437, avgs=0 200/300: dt: 0.9000, rms radial error=140.638, avgs=0 205/300: dt: 0.9000, rms radial error=139.843, avgs=0 210/300: dt: 0.9000, rms radial error=139.053, avgs=0 215/300: dt: 0.9000, rms radial error=138.267, avgs=0 220/300: dt: 0.9000, rms radial error=137.485, avgs=0 225/300: dt: 0.9000, rms radial error=136.708, avgs=0 230/300: dt: 0.9000, rms radial error=135.935, avgs=0 235/300: dt: 0.9000, rms radial error=135.167, avgs=0 240/300: dt: 0.9000, rms radial error=134.403, avgs=0 245/300: dt: 0.9000, rms radial error=133.643, avgs=0 250/300: dt: 0.9000, rms radial error=132.888, avgs=0 255/300: dt: 0.9000, rms radial error=132.137, avgs=0 260/300: dt: 0.9000, rms radial error=131.390, avgs=0 265/300: dt: 0.9000, rms radial error=130.647, avgs=0 270/300: dt: 0.9000, rms radial error=129.909, avgs=0 275/300: dt: 0.9000, rms radial error=129.175, avgs=0 280/300: dt: 0.9000, rms radial error=128.445, avgs=0 285/300: dt: 0.9000, rms radial error=127.719, avgs=0 290/300: dt: 0.9000, rms radial error=126.997, avgs=0 295/300: dt: 0.9000, rms radial error=126.279, avgs=0 300/300: dt: 0.9000, rms radial error=125.565, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 27625.62 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00010 epoch 2 (K=40.0), pass 1, starting sse = 5052.29 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00007 epoch 3 (K=160.0), pass 1, starting sse = 574.12 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.05/11 = 0.00489 epoch 4 (K=640.0), pass 1, starting sse = 35.66 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.03/10 = 0.00280 final distance error %22.65 writing spherical brain to ../surf/rh.qsphere.nofix spherical transformation took 0.04 hours mris_sphere utimesec 621.073026 mris_sphere stimesec 2.369330 mris_sphere ru_maxrss 359428 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 1504337 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 15792 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 52789 mris_sphere ru_nivcsw 4617 FSRUNTIME@ mris_sphere 0.0407 hours 1 threads #-------------------------------------------- #@# Fix Topology Copy rh Tue May 25 20:57:13 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/scripts cp ../surf/rh.orig.nofix ../surf/rh.orig cp ../surf/rh.inflated.nofix ../surf/rh.inflated #@# Fix Topology rh Tue May 25 20:57:13 UTC 2021 mris_fix_topology -rusage /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 sub-06 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=-72 (nv=224432, nf=449008, ne=673512, g=37) using quasi-homeomorphic spherical map to tessellate cortical surface... Correction of the Topology Finding true center and radius of Spherical Surface...done Surface centered at (0,0,0) with radius 100.0 in 8 iterations marking ambiguous vertices... 7364 ambiguous faces found in tessellation segmenting defects... 62 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 24 into 22 -merging segment 47 into 36 -merging segment 45 into 36 59 defects to be corrected 0 vertices coincident reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Computing Initial Surface Statistics -face loglikelihood: -9.4694 (-4.7347) -vertex loglikelihood: -6.0345 (-3.0172) -normal dot loglikelihood: -3.5032 (-3.5032) -quad curv loglikelihood: -6.3091 (-3.1546) Total Loglikelihood : -25.3161 CORRECTING DEFECT 0 (vertices=110, convex hull=104, v0=1424) After retessellation of defect 0 (v0=1424), euler #=-58 (220035,658621,438528) : difference with theory (-56) = 2 CORRECTING DEFECT 1 (vertices=105, convex hull=126, v0=2698) After retessellation of defect 1 (v0=2698), euler #=-57 (220054,658737,438626) : difference with theory (-55) = 2 CORRECTING DEFECT 2 (vertices=524, convex hull=68, v0=5148) After retessellation of defect 2 (v0=5148), euler #=-56 (220066,658798,438676) : difference with theory (-54) = 2 CORRECTING DEFECT 3 (vertices=27, convex hull=41, v0=8654) After retessellation of defect 3 (v0=8654), euler #=-55 (220066,658813,438692) : difference with theory (-53) = 2 CORRECTING DEFECT 4 (vertices=40, convex hull=70, v0=17031) After retessellation of defect 4 (v0=17031), euler #=-54 (220075,658870,438741) : difference with theory (-52) = 2 CORRECTING DEFECT 5 (vertices=207, convex hull=167, v0=17548) After retessellation of defect 5 (v0=17548), euler #=-53 (220090,658995,438852) : difference with theory (-51) = 2 CORRECTING DEFECT 6 (vertices=23, convex hull=51, v0=21237) After retessellation of defect 6 (v0=21237), euler #=-52 (220096,659029,438881) : difference with theory (-50) = 2 CORRECTING DEFECT 7 (vertices=85, convex hull=73, v0=25139) After retessellation of defect 7 (v0=25139), euler #=-51 (220106,659089,438932) : difference with theory (-49) = 2 CORRECTING DEFECT 8 (vertices=21, convex hull=30, v0=27262) After retessellation of defect 8 (v0=27262), euler #=-50 (220107,659103,438946) : difference with theory (-48) = 2 CORRECTING DEFECT 9 (vertices=45, convex hull=89, v0=30121) After retessellation of defect 9 (v0=30121), euler #=-49 (220115,659164,439000) : difference with theory (-47) = 2 CORRECTING DEFECT 10 (vertices=40, convex hull=86, v0=33772) After retessellation of defect 10 (v0=33772), euler #=-48 (220124,659227,439055) : difference with theory (-46) = 2 CORRECTING DEFECT 11 (vertices=23, convex hull=19, v0=34683) After retessellation of defect 11 (v0=34683), euler #=-47 (220124,659232,439061) : difference with theory (-45) = 2 CORRECTING DEFECT 12 (vertices=160, convex hull=185, v0=34841) After retessellation of defect 12 (v0=34841), euler #=-46 (220145,659382,439191) : difference with theory (-44) = 2 CORRECTING DEFECT 13 (vertices=5, convex hull=20, v0=43616) After retessellation of defect 13 (v0=43616), euler #=-45 (220146,659391,439200) : difference with theory (-43) = 2 CORRECTING DEFECT 14 (vertices=7, convex hull=22, v0=44255) After retessellation of defect 14 (v0=44255), euler #=-44 (220147,659400,439209) : difference with theory (-42) = 2 CORRECTING DEFECT 15 (vertices=36, convex hull=68, v0=51800) After retessellation of defect 15 (v0=51800), euler #=-43 (220152,659443,439248) : difference with theory (-41) = 2 CORRECTING DEFECT 16 (vertices=7, convex hull=24, v0=59506) After retessellation of defect 16 (v0=59506), euler #=-42 (220153,659453,439258) : difference with theory (-40) = 2 CORRECTING DEFECT 17 (vertices=44, convex hull=71, v0=62986) After retessellation of defect 17 (v0=62986), euler #=-41 (220165,659524,439318) : difference with theory (-39) = 2 CORRECTING DEFECT 18 (vertices=100, convex hull=47, v0=67880) After retessellation of defect 18 (v0=67880), euler #=-40 (220172,659561,439349) : difference with theory (-38) = 2 CORRECTING DEFECT 19 (vertices=48, convex hull=40, v0=67974) After retessellation of defect 19 (v0=67974), euler #=-39 (220174,659582,439369) : difference with theory (-37) = 2 CORRECTING DEFECT 20 (vertices=30, convex hull=30, v0=71866) After retessellation of defect 20 (v0=71866), euler #=-38 (220176,659596,439382) : difference with theory (-36) = 2 CORRECTING DEFECT 21 (vertices=32, convex hull=55, v0=76834) After retessellation of defect 21 (v0=76834), euler #=-37 (220186,659647,439424) : difference with theory (-35) = 2 CORRECTING DEFECT 22 (vertices=100, convex hull=95, v0=81592) After retessellation of defect 22 (v0=81592), euler #=-35 (220210,659774,439529) : difference with theory (-34) = 1 CORRECTING DEFECT 23 (vertices=33, convex hull=61, v0=83790) After retessellation of defect 23 (v0=83790), euler #=-34 (220219,659826,439573) : difference with theory (-33) = 1 CORRECTING DEFECT 24 (vertices=190, convex hull=63, v0=86152) After retessellation of defect 24 (v0=86152), euler #=-33 (220236,659902,439633) : difference with theory (-32) = 1 CORRECTING DEFECT 25 (vertices=22, convex hull=38, v0=94521) After retessellation of defect 25 (v0=94521), euler #=-32 (220238,659920,439650) : difference with theory (-31) = 1 CORRECTING DEFECT 26 (vertices=27, convex hull=45, v0=105671) After retessellation of defect 26 (v0=105671), euler #=-31 (220246,659960,439683) : difference with theory (-30) = 1 CORRECTING DEFECT 27 (vertices=1129, convex hull=568, v0=111544) After retessellation of defect 27 (v0=111544), euler #=-31 (220301,660401,440069) : difference with theory (-29) = 2 CORRECTING DEFECT 28 (vertices=33, convex hull=31, v0=113964) After retessellation of defect 28 (v0=113964), euler #=-30 (220304,660421,440087) : difference with theory (-28) = 2 CORRECTING DEFECT 29 (vertices=8, convex hull=12, v0=116267) After retessellation of defect 29 (v0=116267), euler #=-29 (220305,660427,440093) : difference with theory (-27) = 2 CORRECTING DEFECT 30 (vertices=21, convex hull=20, v0=116476) After retessellation of defect 30 (v0=116476), euler #=-28 (220307,660438,440103) : difference with theory (-26) = 2 CORRECTING DEFECT 31 (vertices=9, convex hull=22, v0=134483) After retessellation of defect 31 (v0=134483), euler #=-27 (220310,660454,440117) : difference with theory (-25) = 2 CORRECTING DEFECT 32 (vertices=194, convex hull=65, v0=136910) After retessellation of defect 32 (v0=136910), euler #=-26 (220320,660513,440167) : difference with theory (-24) = 2 CORRECTING DEFECT 33 (vertices=24, convex hull=32, v0=142065) After retessellation of defect 33 (v0=142065), euler #=-25 (220323,660533,440185) : difference with theory (-23) = 2 CORRECTING DEFECT 34 (vertices=12, convex hull=38, v0=142143) After retessellation of defect 34 (v0=142143), euler #=-24 (220325,660549,440200) : difference with theory (-22) = 2 CORRECTING DEFECT 35 (vertices=240, convex hull=194, v0=142168) After retessellation of defect 35 (v0=142168), euler #=-21 (220357,660738,440360) : difference with theory (-21) = 0 CORRECTING DEFECT 36 (vertices=7, convex hull=29, v0=143407) After retessellation of defect 36 (v0=143407), euler #=-20 (220358,660751,440373) : difference with theory (-20) = 0 CORRECTING DEFECT 37 (vertices=13, convex hull=24, v0=143607) After retessellation of defect 37 (v0=143607), euler #=-19 (220359,660762,440384) : difference with theory (-19) = 0 CORRECTING DEFECT 38 (vertices=8, convex hull=17, v0=144715) After retessellation of defect 38 (v0=144715), euler #=-18 (220361,660771,440392) : difference with theory (-18) = 0 CORRECTING DEFECT 39 (vertices=13, convex hull=25, v0=145080) After retessellation of defect 39 (v0=145080), euler #=-17 (220364,660786,440405) : difference with theory (-17) = 0 CORRECTING DEFECT 40 (vertices=62, convex hull=49, v0=145716) After retessellation of defect 40 (v0=145716), euler #=-16 (220365,660803,440422) : difference with theory (-16) = 0 CORRECTING DEFECT 41 (vertices=12, convex hull=15, v0=146517) After retessellation of defect 41 (v0=146517), euler #=-15 (220366,660811,440430) : difference with theory (-15) = 0 CORRECTING DEFECT 42 (vertices=38, convex hull=29, v0=149545) After retessellation of defect 42 (v0=149545), euler #=-14 (220371,660835,440450) : difference with theory (-14) = 0 CORRECTING DEFECT 43 (vertices=9, convex hull=20, v0=149856) After retessellation of defect 43 (v0=149856), euler #=-13 (220372,660846,440461) : difference with theory (-13) = 0 CORRECTING DEFECT 44 (vertices=25, convex hull=61, v0=151664) After retessellation of defect 44 (v0=151664), euler #=-12 (220377,660885,440496) : difference with theory (-12) = 0 CORRECTING DEFECT 45 (vertices=15, convex hull=26, v0=156815) After retessellation of defect 45 (v0=156815), euler #=-11 (220378,660897,440508) : difference with theory (-11) = 0 CORRECTING DEFECT 46 (vertices=6, convex hull=27, v0=158050) After retessellation of defect 46 (v0=158050), euler #=-10 (220380,660911,440521) : difference with theory (-10) = 0 CORRECTING DEFECT 47 (vertices=32, convex hull=84, v0=158081) After retessellation of defect 47 (v0=158081), euler #=-9 (220389,660969,440571) : difference with theory (-9) = 0 CORRECTING DEFECT 48 (vertices=96, convex hull=80, v0=158188) After retessellation of defect 48 (v0=158188), euler #=-8 (220407,661053,440638) : difference with theory (-8) = 0 CORRECTING DEFECT 49 (vertices=30, convex hull=26, v0=164932) After retessellation of defect 49 (v0=164932), euler #=-7 (220410,661073,440656) : difference with theory (-7) = 0 CORRECTING DEFECT 50 (vertices=24, convex hull=28, v0=166870) After retessellation of defect 50 (v0=166870), euler #=-6 (220413,661091,440672) : difference with theory (-6) = 0 CORRECTING DEFECT 51 (vertices=10, convex hull=17, v0=169866) After retessellation of defect 51 (v0=169866), euler #=-5 (220414,661099,440680) : difference with theory (-5) = 0 CORRECTING DEFECT 52 (vertices=36, convex hull=32, v0=171693) After retessellation of defect 52 (v0=171693), euler #=-4 (220418,661123,440701) : difference with theory (-4) = 0 CORRECTING DEFECT 53 (vertices=59, convex hull=29, v0=175037) After retessellation of defect 53 (v0=175037), euler #=-3 (220421,661142,440718) : difference with theory (-3) = 0 CORRECTING DEFECT 54 (vertices=42, convex hull=62, v0=175770) After retessellation of defect 54 (v0=175770), euler #=-2 (220430,661193,440761) : difference with theory (-2) = 0 CORRECTING DEFECT 55 (vertices=30, convex hull=80, v0=196410) After retessellation of defect 55 (v0=196410), euler #=-1 (220439,661254,440814) : difference with theory (-1) = 0 CORRECTING DEFECT 56 (vertices=23, convex hull=21, v0=199588) After retessellation of defect 56 (v0=199588), euler #=0 (220441,661265,440824) : difference with theory (0) = 0 CORRECTING DEFECT 57 (vertices=22, convex hull=54, v0=206663) After retessellation of defect 57 (v0=206663), euler #=1 (220446,661300,440855) : difference with theory (1) = 0 CORRECTING DEFECT 58 (vertices=30, convex hull=71, v0=223052) After retessellation of defect 58 (v0=223052), euler #=2 (220453,661353,440902) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.71 +- 0.18 (0.09-->9.07) (max @ vno 134617 --> 136024) 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 (0.09-->9.07) (max @ vno 134617 --> 136024) face area 0.00 +- 0.00 (0.00-->0.00) tessellation finished, orienting corrected surface... 221 mutations (37.6%), 367 crossovers (62.4%), 123 vertices were eliminated building final representation... 3979 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=220453, nf=440902, ne=661353, g=0) writing corrected surface to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.orig... defective orientation at vertex 119977(121404) with faces 240070 and 439925 defective orientation at vertex 119977(121405) with faces 240070 and 439922 defective orientation at vertex 121404(119977) with faces 240070 and 439925 defective orientation at vertex 121404(121405) with faces 240070 and 439935 defective orientation at vertex 121405(121404) with faces 240070 and 439935 defective orientation at vertex 121405(119977) with faces 240070 and 439922 0.003 % of the vertices (6 vertices) exhibit an orientation change topology fixing took 31.2 minutes 0 defective edges removing intersecting faces 000: 364 intersecting 001: 21 intersecting 002: 4 intersecting mris_fix_topology utimesec 1881.566012 mris_fix_topology stimesec 0.830058 mris_fix_topology ru_maxrss 729308 mris_fix_topology ru_ixrss 0 mris_fix_topology ru_idrss 0 mris_fix_topology ru_isrss 0 mris_fix_topology ru_minflt 645191 mris_fix_topology ru_majflt 0 mris_fix_topology ru_nswap 0 mris_fix_topology ru_inblock 0 mris_fix_topology ru_oublock 20784 mris_fix_topology ru_msgsnd 0 mris_fix_topology ru_msgrcv 0 mris_fix_topology ru_nsignals 0 mris_fix_topology ru_nvcsw 4878 mris_fix_topology ru_nivcsw 536 FSRUNTIME@ mris_fix_topology rh 0.5196 hours 1 threads mris_euler_number ../surf/rh.orig euler # = v-e+f = 2g-2: 220453 - 661353 + 440902 = 2 --> 0 holes F =2V-4: 440902 = 440906-4 (0) 2E=3F: 1322706 = 1322706 (0) total defect index = 0 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/scripts mris_remove_intersection ../surf/rh.orig ../surf/rh.orig intersection removal took 0.00 hours removing intersecting faces 000: 55 intersecting writing corrected surface to ../surf/rh.orig rm ../surf/rh.inflated #-------------------------------------------- #@# Make White Surf rh Tue May 25 21:28:30 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/scripts mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs sub-06 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-06/mri/filled.mgz... reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/mri/brain.finalsurfs.mgz... reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/mri/../mri/aseg.presurf.mgz... reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/mri/wm.mgz... 43072 bright wm thresholded. 19 bright non-wm voxels segmented. reading original surface position from /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.orig... computing class statistics... border white: 444165 voxels (1.36%) border gray 461455 voxels (1.41%) WM (102.0): 102.0 +- 6.9 [70.0 --> 110.0] GM (80.0) : 79.3 +- 10.0 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 66.0 (was 70) setting MAX_BORDER_WHITE to 115.9 (was 105) setting MIN_BORDER_WHITE to 76.0 (was 85) setting MAX_CSF to 56.1 (was 40) setting MAX_GRAY to 102.1 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 66.0 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 46.1 (was 40) repositioning cortical surface to gray/white boundary smoothing T1 volume with sigma = 2.000 vertex spacing 0.66 +- 0.17 (0.03-->6.17) (max @ vno 134617 --> 137486) face area 0.18 +- 0.08 (0.00-->4.84) mean absolute distance = 1.39 +- 1.55 7347 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=76+-6.1 mean inside = 99.8, mean outside = 81.0 smoothing surface for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 3 vertex label from ripped group mean border=95.0, 173 (173) missing vertices, mean dist -0.8 [1.9 (%55.5)->0.5 (%44.5))] %47 local maxima, %38 large gradients and %11 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=blg61, 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 (0.03-->5.93) (max @ vno 134617 --> 136024) face area 0.18 +- 0.09 (0.00-->4.17) mean absolute distance = 0.57 +- 0.79 7147 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=5325194.0, rms=10.160 001: dt: 0.5000, sse=2551922.5, rms=6.219 (38.791%) 002: dt: 0.5000, sse=1638235.4, rms=4.072 (34.517%) 003: dt: 0.5000, sse=1457755.2, rms=3.500 (14.066%) 004: dt: 0.5000, sse=1425730.6, rms=3.368 (3.764%) rms = 3.32, time step reduction 1 of 3 to 0.250... 005: dt: 0.5000, sse=1417585.6, rms=3.322 (1.349%) 006: dt: 0.2500, sse=1115398.8, rms=1.994 (39.992%) 007: dt: 0.2500, sse=1062443.6, rms=1.617 (18.911%) 008: dt: 0.2500, sse=1036427.7, rms=1.492 (7.715%) 009: dt: 0.2500, sse=1034377.6, rms=1.403 (5.956%) 010: dt: 0.2500, sse=1023881.9, rms=1.353 (3.585%) rms = 1.30, time step reduction 2 of 3 to 0.125... 011: dt: 0.2500, sse=1014689.2, rms=1.304 (3.625%) rms = 1.26, time step reduction 3 of 3 to 0.062... 012: dt: 0.1250, sse=996014.4, rms=1.261 (3.264%) positioning took 1.4 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 2 vertex label from ripped group removing 2 vertex label from ripped group removing 3 vertex label from ripped group removing 3 vertex label from ripped group removing 2 vertex label from ripped group mean border=94.2, 168 (37) missing vertices, mean dist -0.2 [0.9 (%38.3)->0.3 (%61.7))] %81 local maxima, %11 large gradients and % 3 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=blg61, 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 (0.03-->5.77) (max @ vno 134617 --> 136024) face area 0.20 +- 0.10 (0.00-->4.66) mean absolute distance = 0.31 +- 0.55 8161 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1827247.5, rms=4.356 013: dt: 0.5000, sse=1440868.8, rms=3.024 (30.571%) rms = 3.10, time step reduction 1 of 3 to 0.250... 014: dt: 0.2500, sse=1203732.8, rms=2.038 (32.606%) 015: dt: 0.2500, sse=1136740.2, rms=1.412 (30.724%) 016: dt: 0.2500, sse=1103133.0, rms=1.222 (13.441%) 017: dt: 0.2500, sse=1097628.8, rms=1.139 (6.787%) rms = 1.10, time step reduction 2 of 3 to 0.125... 018: dt: 0.2500, sse=1086706.2, rms=1.105 (3.042%) 019: dt: 0.1250, sse=1085076.1, rms=1.045 (5.346%) rms = 1.02, time step reduction 3 of 3 to 0.062... 020: dt: 0.1250, sse=1071117.2, rms=1.024 (2.011%) positioning took 1.1 minutes inhibiting deformation at non-cortical midline structures... removing 2 vertex label from ripped group removing 4 vertex label from ripped group mean border=94.2, 166 (16) missing vertices, mean dist -0.1 [0.5 (%36.4)->0.2 (%63.6))] %90 local maxima, % 4 large gradients and % 1 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=blg61, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.563, l_nspring=0.625, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.250 vertex spacing 0.69 +- 0.19 (0.04-->5.67) (max @ vno 134617 --> 136024) face area 0.20 +- 0.09 (0.00-->4.82) mean absolute distance = 0.23 +- 0.42 6274 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1236634.0, rms=2.375 rms = 2.37, time step reduction 1 of 3 to 0.250... 021: dt: 0.5000, sse=1260788.1, rms=2.371 (0.142%) 022: dt: 0.2500, sse=1094609.6, rms=1.355 (42.873%) 023: dt: 0.2500, sse=1066292.8, rms=1.134 (16.276%) 024: dt: 0.2500, sse=1053053.4, rms=1.072 (5.467%) rms = 1.03, time step reduction 2 of 3 to 0.125... 025: dt: 0.2500, sse=1047788.8, rms=1.033 (3.652%) 026: dt: 0.1250, sse=1049319.1, rms=0.959 (7.120%) rms = 0.94, time step reduction 3 of 3 to 0.062... 027: dt: 0.1250, sse=1040145.8, rms=0.940 (2.077%) positioning took 0.9 minutes inhibiting deformation at non-cortical midline structures... removing 2 vertex label from ripped group removing 4 vertex label from ripped group removing 4 vertex label from ripped group mean border=93.8, 205 (13) missing vertices, mean dist -0.0 [0.4 (%30.5)->0.1 (%69.5))] %92 local maxima, % 3 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=blg61, 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-06/surf/rh.white.preaparc... writing smoothed curvature to rh.curv 000: dt: 0.0000, sse=1114415.6, rms=1.624 rms = 1.67, time step reduction 1 of 3 to 0.250... 028: dt: 0.2500, sse=1048235.8, rms=1.148 (29.351%) 029: dt: 0.2500, sse=1033409.9, rms=0.826 (28.006%) rms = 0.81, time step reduction 2 of 3 to 0.125... 030: dt: 0.2500, sse=1035387.1, rms=0.807 (2.261%) rms = 0.77, time step reduction 3 of 3 to 0.062... 031: dt: 0.1250, sse=1043085.3, rms=0.767 (5.020%) positioning took 0.6 minutes generating cortex label... 18 non-cortical segments detected only using segment with 11614 vertices erasing segment 0 (vno[0] = 57499) erasing segment 1 (vno[0] = 65999) erasing segment 2 (vno[0] = 73488) erasing segment 4 (vno[0] = 84257) erasing segment 5 (vno[0] = 90728) erasing segment 6 (vno[0] = 92753) erasing segment 7 (vno[0] = 122255) erasing segment 8 (vno[0] = 144599) erasing segment 9 (vno[0] = 145857) erasing segment 10 (vno[0] = 147328) erasing segment 11 (vno[0] = 147519) erasing segment 12 (vno[0] = 149105) erasing segment 13 (vno[0] = 150362) erasing segment 14 (vno[0] = 152976) erasing segment 15 (vno[0] = 152989) erasing segment 16 (vno[0] = 154304) erasing segment 17 (vno[0] = 220358) writing cortex label to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/label/rh.cortex.label... writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.curv writing smoothed area to rh.area writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.area vertex spacing 0.69 +- 0.19 (0.01-->5.64) (max @ vno 134617 --> 137486) face area 0.20 +- 0.09 (0.00-->5.23) refinement took 5.8 minutes #-------------------------------------------- #@# Smooth2 rh Tue May 25 21:34:21 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 21:34:29 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/scripts mris_inflate -rusage /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/touch/rusage.mris_inflate.rh.dat -n 50 ../surf/rh.smoothwm ../surf/rh.inflated niterations = 50 Reading ../surf/rh.smoothwm avg radius = 45.1 mm, total surface area = 81323 mm^2 writing inflated surface to ../surf/rh.inflated writing sulcal depths to ../surf/rh.sulc step 000: RMS=0.158 (target=0.015) step 005: RMS=0.113 (target=0.015) step 010: RMS=0.085 (target=0.015) step 015: RMS=0.071 (target=0.015) step 020: RMS=0.059 (target=0.015) step 025: RMS=0.050 (target=0.015) step 030: RMS=0.043 (target=0.015) step 035: RMS=0.038 (target=0.015) step 040: RMS=0.032 (target=0.015) step 045: RMS=0.028 (target=0.015) step 050: RMS=0.025 (target=0.015) step 055: RMS=0.022 (target=0.015) step 060: RMS=0.021 (target=0.015) step 065: RMS=0.019 (target=0.015) step 070: RMS=0.018 (target=0.015) step 075: RMS=0.017 (target=0.015) step 080: RMS=0.017 (target=0.015) step 085: RMS=0.016 (target=0.015) step 090: RMS=0.016 (target=0.015) step 095: RMS=0.015 (target=0.015) step 100: RMS=0.015 (target=0.015) inflation complete. inflation took 1.0 minutes mris_inflate utimesec 324.366689 mris_inflate stimesec 3.404028 mris_inflate ru_maxrss 353056 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 1732140 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 8 mris_inflate ru_oublock 17240 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 34604 mris_inflate ru_nivcsw 2379 #-------------------------------------------- #@# Curv .H and .K rh Tue May 25 21:35:28 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf mris_curvature -w rh.white.preaparc total integrated curvature = 18.034*4pi (226.627) --> -17 handles ICI = 247.6, FI = 2779.2, variation=42885.288 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 409 vertices thresholded to be in k1 ~ [-0.15 0.37], k2 ~ [-0.09 0.04] total integrated curvature = 0.669*4pi (8.410) --> 0 handles ICI = 1.4, FI = 8.2, variation=139.780 214 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 = 0.001 298 vertices thresholded to be in [-0.10 0.19] done. writing mean curvature to ./rh.inflated.H...curvature mean = -0.016, std = 0.022 done. #----------------------------------------- #@# Curvature Stats rh Tue May 25 21:37:05 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm sub-06 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-06/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 [ 389 ] Gb_filter = 0 WARN: S lookup min: -0.395343 WARN: S explicit min: 0.000000 vertex = 126 #-------------------------------------------- #@# Sphere rh Tue May 25 21:37:12 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/scripts mris_sphere -rusage /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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=blg61, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 1234 singular matrix in quadratic form -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %19.10 pass 1: epoch 2 of 3 starting distance error %19.02 unfolding complete - removing small folds... starting distance error %18.97 removing remaining folds... final distance error %18.99 MRISunfold() return, current seed 1234 -01: dt=0.0000, 395 negative triangles 137: dt=0.9900, 395 negative triangles 138: dt=0.9900, 214 negative triangles 139: dt=0.9900, 161 negative triangles 140: dt=0.9900, 143 negative triangles 141: dt=0.9900, 129 negative triangles 142: dt=0.9900, 115 negative triangles 143: dt=0.9900, 112 negative triangles 144: dt=0.9900, 95 negative triangles 145: dt=0.9900, 86 negative triangles 146: dt=0.9900, 87 negative triangles 147: dt=0.9900, 80 negative triangles 148: dt=0.9900, 78 negative triangles 149: dt=0.9900, 74 negative triangles 150: dt=0.9900, 67 negative triangles 151: dt=0.9900, 59 negative triangles 152: dt=0.9900, 62 negative triangles 153: dt=0.9900, 53 negative triangles 154: dt=0.9900, 46 negative triangles 155: dt=0.9900, 53 negative triangles 156: dt=0.9900, 47 negative triangles 157: dt=0.9900, 47 negative triangles 158: dt=0.9900, 44 negative triangles 159: dt=0.9900, 43 negative triangles 160: dt=0.9900, 45 negative triangles 161: dt=0.9900, 40 negative triangles 162: dt=0.9900, 38 negative triangles 163: dt=0.9900, 38 negative triangles 164: dt=0.9900, 34 negative triangles 165: dt=0.9900, 38 negative triangles 166: dt=0.9900, 36 negative triangles 167: dt=0.9900, 31 negative triangles 168: dt=0.9900, 40 negative triangles 169: dt=0.9900, 35 negative triangles 170: dt=0.9900, 29 negative triangles 171: dt=0.9900, 32 negative triangles 172: dt=0.9900, 32 negative triangles 173: dt=0.9900, 25 negative triangles 174: dt=0.9900, 30 negative triangles 175: dt=0.9900, 23 negative triangles 176: dt=0.9900, 23 negative triangles 177: dt=0.9900, 25 negative triangles 178: dt=0.9900, 18 negative triangles 179: dt=0.9900, 18 negative triangles 180: dt=0.9900, 24 negative triangles 181: dt=0.9900, 18 negative triangles 182: dt=0.9900, 18 negative triangles 183: dt=0.9900, 27 negative triangles 184: dt=0.9900, 19 negative triangles 185: dt=0.9900, 20 negative triangles 186: dt=0.9900, 19 negative triangles 187: dt=0.9900, 20 negative triangles 188: dt=0.9405, 19 negative triangles 189: dt=0.9405, 23 negative triangles 190: dt=0.9405, 21 negative triangles 191: dt=0.9405, 22 negative triangles 192: dt=0.9405, 18 negative triangles 193: dt=0.9405, 18 negative triangles 194: dt=0.9405, 22 negative triangles 195: dt=0.9405, 23 negative triangles 196: dt=0.9405, 18 negative triangles 197: dt=0.9405, 18 negative triangles 198: dt=0.8935, 24 negative triangles 199: dt=0.8935, 17 negative triangles 200: dt=0.8935, 17 negative triangles 201: dt=0.8935, 24 negative triangles 202: dt=0.8935, 16 negative triangles 203: dt=0.8935, 16 negative triangles 204: dt=0.8935, 25 negative triangles 205: dt=0.8935, 16 negative triangles 206: dt=0.8935, 17 negative triangles 207: dt=0.8935, 16 negative triangles 208: dt=0.8935, 17 negative triangles 209: dt=0.8935, 16 negative triangles 210: dt=0.8935, 20 negative triangles 211: dt=0.8935, 18 negative triangles 212: dt=0.8488, 21 negative triangles 213: dt=0.8488, 20 negative triangles 214: dt=0.8488, 18 negative triangles 215: dt=0.8488, 15 negative triangles 216: dt=0.8488, 14 negative triangles 217: dt=0.8488, 16 negative triangles 218: dt=0.8488, 19 negative triangles 219: dt=0.8488, 15 negative triangles 220: dt=0.8488, 15 negative triangles 221: dt=0.8488, 18 negative triangles 222: dt=0.8488, 19 negative triangles 223: dt=0.8488, 15 negative triangles 224: dt=0.8488, 15 negative triangles 225: dt=0.8488, 19 negative triangles 226: dt=0.8064, 20 negative triangles 227: dt=0.8064, 14 negative triangles 228: dt=0.8064, 14 negative triangles 229: dt=0.8064, 20 negative triangles 230: dt=0.8064, 14 negative triangles 231: dt=0.8064, 14 negative triangles 232: dt=0.8064, 19 negative triangles 233: dt=0.8064, 14 negative triangles 234: dt=0.8064, 14 negative triangles 235: dt=0.8064, 21 negative triangles 236: dt=0.7660, 14 negative triangles 237: dt=0.7660, 14 negative triangles 238: dt=0.7660, 21 negative triangles 239: dt=0.7660, 15 negative triangles 240: dt=0.7660, 16 negative triangles 241: dt=0.7660, 15 negative triangles 242: dt=0.7660, 16 negative triangles 243: dt=0.7660, 15 negative triangles 244: dt=0.7660, 16 negative triangles 245: dt=0.7660, 15 negative triangles 246: dt=0.7277, 17 negative triangles 247: dt=0.7277, 17 negative triangles 248: dt=0.7277, 14 negative triangles 249: dt=0.7277, 19 negative triangles 250: dt=0.7277, 14 negative triangles 251: dt=0.7277, 12 negative triangles 252: dt=0.7277, 13 negative triangles 253: dt=0.7277, 12 negative triangles 254: dt=0.7277, 14 negative triangles 255: dt=0.7277, 17 negative triangles 256: dt=0.7277, 13 negative triangles 257: dt=0.7277, 11 negative triangles 258: dt=0.7277, 11 negative triangles 259: dt=0.7277, 12 negative triangles 260: dt=0.7277, 13 negative triangles 261: dt=0.7277, 14 negative triangles 262: dt=0.7277, 11 negative triangles 263: dt=0.7277, 9 negative triangles 264: dt=0.7277, 7 negative triangles 265: dt=0.7277, 10 negative triangles 266: dt=0.7277, 11 negative triangles 267: dt=0.7277, 9 negative triangles 268: dt=0.7277, 9 negative triangles 269: dt=0.7277, 7 negative triangles 270: dt=0.7277, 7 negative triangles 271: dt=0.7277, 7 negative triangles 272: dt=0.7277, 9 negative triangles 273: dt=0.7277, 10 negative triangles 274: dt=0.6914, 7 negative triangles 275: dt=0.6914, 5 negative triangles 276: dt=0.6914, 10 negative triangles 277: dt=0.6914, 5 negative triangles 278: dt=0.6914, 4 negative triangles 279: dt=0.6914, 4 negative triangles 280: dt=0.6914, 2 negative triangles 281: dt=0.6914, 5 negative triangles 282: dt=0.6914, 2 negative triangles 283: dt=0.6914, 4 negative triangles 284: dt=0.6914, 1 negative triangles 285: dt=0.6914, 3 negative triangles 286: dt=0.6914, 4 negative triangles 287: dt=0.6914, 1 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 0.22 hours mris_sphere utimesec 5392.897197 mris_sphere stimesec 11.746659 mris_sphere ru_maxrss 468472 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 5760491 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 1040 mris_sphere ru_oublock 15512 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 142086 mris_sphere ru_nivcsw 10076 FSRUNTIME@ mris_sphere 0.2196 hours 1 threads #-------------------------------------------- #@# Surf Reg rh Tue May 25 21:50:23 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/scripts mris_register -curv -rusage /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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-06/scripts cmdline mris_register -curv -rusage /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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=blg61, 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=blg61, 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 = 5.445 curvature mean = 0.036, std = 0.809 curvature mean = 0.023, std = 0.863 Starting MRISrigidBodyAlignGlobal() d=64.00 min @ (0.00, 0.00, 16.00) sse = 531980.7, tmin=1.1461 d=32.00 min @ (0.00, -8.00, 0.00) sse = 413094.6, tmin=2.3083 d=16.00 min @ (4.00, 4.00, -4.00) sse = 382723.9, tmin=3.5912 d=8.00 min @ (-2.00, -2.00, 2.00) sse = 365929.7, tmin=4.9030 d=4.00 min @ (1.00, 0.00, 0.00) sse = 364345.4, tmin=6.2187 d=2.00 min @ (0.00, 0.50, 0.00) sse = 363500.6, tmin=7.5381 tol=1.0e+00, sigma=0.5, host=blg61, 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 10.15 min curvature mean = -0.007, std = 0.817 curvature mean = 0.007, std = 0.947 curvature mean = -0.018, std = 0.820 curvature mean = 0.003, std = 0.978 curvature mean = -0.024, std = 0.819 curvature mean = 0.001, std = 0.990 2 Reading smoothwm curvature mean = -0.037, std = 0.341 curvature mean = 0.029, std = 0.236 curvature mean = 0.051, std = 0.321 curvature mean = 0.025, std = 0.293 curvature mean = 0.025, std = 0.502 curvature mean = 0.025, std = 0.318 curvature mean = 0.014, std = 0.647 curvature mean = 0.025, std = 0.329 curvature mean = 0.006, std = 0.759 MRISregister() return, current seed 0 -01: dt=0.0000, 75 negative triangles 118: dt=0.9900, 75 negative triangles expanding nbhd size to 1 119: dt=0.9900, 94 negative triangles 120: dt=0.9900, 65 negative triangles 121: dt=0.9900, 59 negative triangles 122: dt=0.9900, 58 negative triangles 123: dt=0.9900, 60 negative triangles 124: dt=0.9900, 55 negative triangles 125: dt=0.9900, 43 negative triangles 126: dt=0.9900, 44 negative triangles 127: dt=0.9900, 39 negative triangles 128: dt=0.9900, 40 negative triangles 129: dt=0.9900, 34 negative triangles 130: dt=0.9900, 37 negative triangles 131: dt=0.9900, 37 negative triangles 132: dt=0.9900, 32 negative triangles 133: dt=0.9900, 25 negative triangles 134: dt=0.9900, 26 negative triangles 135: dt=0.9900, 26 negative triangles 136: dt=0.9900, 27 negative triangles 137: dt=0.9900, 21 negative triangles 138: dt=0.9900, 22 negative triangles 139: dt=0.9900, 21 negative triangles 140: dt=0.9900, 19 negative triangles 141: dt=0.9900, 22 negative triangles 142: dt=0.9900, 17 negative triangles 143: dt=0.9900, 16 negative triangles 144: dt=0.9900, 15 negative triangles 145: dt=0.9900, 18 negative triangles 146: dt=0.9900, 14 negative triangles 147: dt=0.9900, 10 negative triangles 148: dt=0.9900, 10 negative triangles 149: dt=0.9900, 13 negative triangles 150: dt=0.9900, 9 negative triangles 151: dt=0.9900, 7 negative triangles 152: dt=0.9900, 7 negative triangles 153: dt=0.9900, 6 negative triangles 154: dt=0.9900, 5 negative triangles 155: dt=0.9900, 3 negative triangles 156: dt=0.9900, 3 negative triangles 157: dt=0.9900, 3 negative triangles 158: dt=0.9900, 3 negative triangles 159: dt=0.9900, 3 negative triangles 160: dt=0.9900, 4 negative triangles 161: dt=0.9900, 3 negative triangles 162: dt=0.9900, 4 negative triangles 163: dt=0.9900, 2 negative triangles 164: dt=0.9900, 1 negative triangles 165: dt=0.9900, 1 negative triangles 166: dt=0.9900, 1 negative triangles 167: dt=0.9900, 1 negative triangles 168: dt=0.9900, 1 negative triangles 169: dt=0.9900, 1 negative triangles 170: dt=0.9900, 1 negative triangles 171: dt=0.9900, 1 negative triangles 172: dt=0.9900, 1 negative triangles 173: dt=0.9900, 1 negative triangles 174: dt=0.9405, 1 negative triangles 175: dt=0.9405, 1 negative triangles 176: dt=0.9405, 1 negative triangles 177: dt=0.9405, 1 negative triangles 178: dt=0.9405, 1 negative triangles 179: dt=0.9405, 1 negative triangles 180: dt=0.9405, 1 negative triangles 181: dt=0.9405, 1 negative triangles 182: dt=0.9405, 1 negative triangles 183: dt=0.9405, 1 negative triangles 184: dt=0.8935, 1 negative triangles 185: dt=0.8935, 1 negative triangles 186: dt=0.8935, 1 negative triangles 187: dt=0.8935, 1 negative triangles 188: dt=0.8935, 1 negative triangles 189: dt=0.8935, 1 negative triangles 190: dt=0.8935, 1 negative triangles 191: dt=0.8935, 1 negative triangles 192: dt=0.8935, 1 negative triangles 193: dt=0.8935, 1 negative triangles 194: dt=0.8488, 1 negative triangles 195: dt=0.8488, 1 negative triangles 196: dt=0.8488, 1 negative triangles 197: dt=0.8488, 1 negative triangles 198: dt=0.8488, 1 negative triangles 199: dt=0.8488, 1 negative triangles 200: dt=0.8488, 1 negative triangles 201: dt=0.8488, 1 negative triangles 202: dt=0.8488, 1 negative triangles 203: dt=0.8488, 1 negative triangles 204: dt=0.8064, 1 negative triangles 205: dt=0.8064, 1 negative triangles 206: dt=0.8064, 1 negative triangles 207: dt=0.8064, 1 negative triangles 208: dt=0.8064, 1 negative triangles 209: dt=0.8064, 1 negative triangles 210: dt=0.8064, 1 negative triangles 211: dt=0.8064, 1 negative triangles 212: dt=0.8064, 1 negative triangles 213: dt=0.8064, 1 negative triangles 214: dt=0.7660, 1 negative triangles 215: dt=0.7660, 1 negative triangles 216: dt=0.7660, 1 negative triangles 217: dt=0.7660, 1 negative triangles 218: dt=0.7660, 1 negative triangles 219: dt=0.7660, 1 negative triangles 220: dt=0.7660, 1 negative triangles 221: dt=0.7660, 1 negative triangles 222: dt=0.7660, 1 negative triangles 223: dt=0.7660, 1 negative triangles 224: dt=0.7277, 1 negative triangles 225: dt=0.7277, 1 negative triangles 226: dt=0.7277, 1 negative triangles 227: dt=0.7277, 1 negative triangles 228: dt=0.7277, 1 negative triangles 229: dt=0.7277, 1 negative triangles 230: dt=0.7277, 1 negative triangles 231: dt=0.7277, 1 negative triangles 232: dt=0.7277, 1 negative triangles 233: dt=0.7277, 1 negative triangles 234: dt=0.6914, 1 negative triangles 235: dt=0.6914, 1 negative triangles 236: dt=0.6914, 1 negative triangles 237: dt=0.6914, 1 negative triangles 238: dt=0.6914, 1 negative triangles 239: dt=0.6914, 1 negative triangles 240: dt=0.6914, 1 negative triangles 241: dt=0.6914, 1 negative triangles 242: dt=0.6914, 1 negative triangles 243: dt=0.6914, 1 negative triangles 244: dt=0.6568, 1 negative triangles 245: dt=0.6568, 1 negative triangles 246: dt=0.6568, 1 negative triangles 247: dt=0.6568, 1 negative triangles 248: dt=0.6568, 1 negative triangles 249: dt=0.6568, 1 negative triangles 250: dt=0.6568, 1 negative triangles 251: dt=0.6568, 1 negative triangles 252: dt=0.6568, 1 negative triangles 253: dt=0.6568, 1 negative triangles 254: dt=0.6239, 1 negative triangles 255: dt=0.6239, 1 negative triangles 256: dt=0.6239, 1 negative triangles 257: dt=0.6239, 1 negative triangles 258: dt=0.6239, 1 negative triangles 259: dt=0.6239, 1 negative triangles 260: dt=0.6239, 1 negative triangles 261: dt=0.6239, 1 negative triangles 262: dt=0.6239, 1 negative triangles 263: dt=0.6239, 1 negative triangles 264: dt=0.5927, 1 negative triangles 265: dt=0.5927, 1 negative triangles 266: dt=0.5927, 1 negative triangles 267: dt=0.5927, 1 negative triangles 268: dt=0.5927, 1 negative triangles 269: dt=0.5927, 1 negative triangles 270: dt=0.5927, 1 negative triangles 271: dt=0.5927, 1 negative triangles 272: dt=0.5927, 1 negative triangles 273: dt=0.5927, 1 negative triangles 274: dt=0.5631, 1 negative triangles 275: dt=0.5631, 1 negative triangles 276: dt=0.5631, 1 negative triangles 277: dt=0.5631, 1 negative triangles 278: dt=0.5631, 1 negative triangles 279: dt=0.5631, 1 negative triangles 280: dt=0.5631, 1 negative triangles 281: dt=0.5631, 1 negative triangles 282: dt=0.5631, 1 negative triangles 283: dt=0.5631, 1 negative triangles 284: dt=0.5350, 1 negative triangles 285: dt=0.5350, 1 negative triangles 286: dt=0.5350, 1 negative triangles 287: dt=0.5350, 1 negative triangles 288: dt=0.5350, 1 negative triangles 289: dt=0.5350, 1 negative triangles 290: dt=0.5350, 1 negative triangles 291: dt=0.5350, 1 negative triangles 292: dt=0.5350, 1 negative triangles 293: dt=0.5350, 1 negative triangles 294: dt=0.5082, 1 negative triangles 295: dt=0.5082, 1 negative triangles 296: dt=0.5082, 1 negative triangles 297: dt=0.5082, 1 negative triangles 298: dt=0.5082, 1 negative triangles 299: dt=0.5082, 1 negative triangles 300: dt=0.5082, 1 negative triangles 301: dt=0.5082, 1 negative triangles 302: dt=0.5082, 1 negative triangles 303: dt=0.5082, 1 negative triangles 304: dt=0.4828, 1 negative triangles 305: dt=0.4828, 1 negative triangles 306: dt=0.4828, 1 negative triangles 307: dt=0.4828, 1 negative triangles 308: dt=0.4828, 1 negative triangles 309: dt=0.4828, 1 negative triangles 310: dt=0.4828, 1 negative triangles 311: dt=0.4828, 1 negative triangles 312: dt=0.4828, 1 negative triangles 313: dt=0.4828, 1 negative triangles 314: dt=0.4587, 1 negative triangles 315: dt=0.4587, 1 negative triangles 316: dt=0.4587, 1 negative triangles 317: dt=0.4587, 1 negative triangles 318: dt=0.4587, 1 negative triangles 319: dt=0.4587, 1 negative triangles 320: dt=0.4587, 1 negative triangles 321: dt=0.4587, 1 negative triangles 322: dt=0.4587, 1 negative triangles 323: dt=0.4587, 1 negative triangles 324: dt=0.4357, 1 negative triangles 325: dt=0.4357, 1 negative triangles 326: dt=0.4357, 1 negative triangles 327: dt=0.4357, 1 negative triangles 328: dt=0.4357, 1 negative triangles 329: dt=0.4357, 1 negative triangles 330: dt=0.4357, 1 negative triangles 331: dt=0.4357, 1 negative triangles 332: dt=0.4357, 1 negative triangles 333: dt=0.4357, 1 negative triangles 334: dt=0.4139, 1 negative triangles 335: dt=0.4139, 1 negative triangles 336: dt=0.4139, 1 negative triangles 337: dt=0.4139, 1 negative triangles 338: dt=0.4139, 1 negative triangles 339: dt=0.4139, 1 negative triangles 340: dt=0.4139, 1 negative triangles 341: dt=0.4139, 1 negative triangles 342: dt=0.4139, 1 negative triangles 343: dt=0.4139, 1 negative triangles 344: dt=0.3932, 1 negative triangles 345: dt=0.3932, 1 negative triangles 346: dt=0.3932, 1 negative triangles 347: dt=0.3932, 1 negative triangles 348: dt=0.3932, 1 negative triangles 349: dt=0.3932, 1 negative triangles 350: dt=0.3932, 1 negative triangles 351: dt=0.3932, 1 negative triangles 352: dt=0.3932, 1 negative triangles 353: dt=0.3932, 1 negative triangles 354: dt=0.3736, 1 negative triangles 355: dt=0.3736, 1 negative triangles 356: dt=0.3736, 1 negative triangles 357: dt=0.3736, 1 negative triangles 358: dt=0.3736, 1 negative triangles 359: dt=0.3736, 1 negative triangles 360: dt=0.3736, 1 negative triangles 361: dt=0.3736, 1 negative triangles 362: dt=0.3736, 1 negative triangles 363: dt=0.3736, 1 negative triangles 364: dt=0.3549, 1 negative triangles 365: dt=0.3549, 1 negative triangles 366: dt=0.3549, 1 negative triangles 367: dt=0.3549, 1 negative triangles 368: dt=0.3549, 1 negative triangles 369: dt=0.3549, 1 negative triangles 370: dt=0.3549, 1 negative triangles 371: dt=0.3549, 1 negative triangles 372: dt=0.3549, 1 negative triangles 373: dt=0.3549, 1 negative triangles 374: dt=0.3372, 1 negative triangles 375: dt=0.3372, 1 negative triangles 376: dt=0.3372, 1 negative triangles 377: dt=0.3372, 1 negative triangles 378: dt=0.3372, 1 negative triangles 379: dt=0.3372, 1 negative triangles 380: dt=0.3372, 1 negative triangles 381: dt=0.3372, 1 negative triangles 382: dt=0.3372, 1 negative triangles 383: dt=0.3372, 1 negative triangles 384: dt=0.3203, 1 negative triangles 385: dt=0.3203, 1 negative triangles 386: dt=0.3203, 1 negative triangles 387: dt=0.3203, 1 negative triangles 388: dt=0.3203, 1 negative triangles 389: dt=0.3203, 1 negative triangles 390: dt=0.3203, 1 negative triangles 391: dt=0.3203, 1 negative triangles 392: dt=0.3203, 1 negative triangles 393: dt=0.3203, 1 negative triangles 394: dt=0.3043, 1 negative triangles 395: dt=0.3043, 1 negative triangles 396: dt=0.3043, 1 negative triangles 397: dt=0.3043, 1 negative triangles 398: dt=0.3043, 1 negative triangles 399: dt=0.3043, 1 negative triangles 400: dt=0.3043, 1 negative triangles 401: dt=0.3043, 1 negative triangles 402: dt=0.3043, 1 negative triangles 403: dt=0.3043, 1 negative triangles 404: dt=0.2891, 1 negative triangles 405: dt=0.2891, 1 negative triangles 406: dt=0.2891, 1 negative triangles 407: dt=0.2891, 1 negative triangles 408: dt=0.2891, 1 negative triangles 409: dt=0.2891, 1 negative triangles 410: dt=0.2891, 1 negative triangles 411: dt=0.2891, 1 negative triangles 412: dt=0.2891, 1 negative triangles 413: dt=0.2891, 1 negative triangles 414: dt=0.2746, 1 negative triangles 415: dt=0.2746, 1 negative triangles 416: dt=0.2746, 1 negative triangles 417: dt=0.2746, 1 negative triangles 418: dt=0.2746, 1 negative triangles 419: dt=0.2746, 1 negative triangles 420: dt=0.2746, 1 negative triangles 421: dt=0.2746, 1 negative triangles 422: dt=0.2746, 1 negative triangles 423: dt=0.2746, 1 negative triangles 424: dt=0.2609, 1 negative triangles 425: dt=0.2609, 1 negative triangles 426: dt=0.2609, 1 negative triangles 427: dt=0.2609, 1 negative triangles 428: dt=0.2609, 1 negative triangles 429: dt=0.2609, 1 negative triangles 430: dt=0.2609, 1 negative triangles 431: dt=0.2609, 1 negative triangles 432: dt=0.2609, 1 negative triangles 433: dt=0.2609, 1 negative triangles 434: dt=0.2478, 1 negative 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triangles 1002: dt=0.0140, 1 negative triangles 1003: dt=0.0140, 1 negative triangles 1004: dt=0.0133, 1 negative triangles 1005: dt=0.0133, 1 negative triangles 1006: dt=0.0133, 1 negative triangles 1007: dt=0.0133, 1 negative triangles 1008: dt=0.0133, 1 negative triangles 1009: dt=0.0133, 1 negative triangles 1010: dt=0.0133, 1 negative triangles 1011: dt=0.0133, 1 negative triangles 1012: dt=0.0133, 1 negative triangles 1013: dt=0.0133, 1 negative triangles 1014: dt=0.0127, 1 negative triangles 1015: dt=0.0127, 1 negative triangles 1016: dt=0.0127, 1 negative triangles 1017: dt=0.0127, 1 negative triangles 1018: dt=0.0127, 1 negative triangles 1019: dt=0.0127, 1 negative triangles 1020: dt=0.0127, 1 negative triangles 1021: dt=0.0127, 1 negative triangles 1022: dt=0.0127, 1 negative triangles 1023: dt=0.0127, 1 negative triangles 1024: dt=0.0120, 1 negative triangles 1025: dt=0.0120, 1 negative triangles 1026: dt=0.0120, 1 negative triangles 1027: dt=0.0120, 1 negative triangles 1028: dt=0.0120, 1 negative triangles 1029: dt=0.0120, 1 negative triangles 1030: dt=0.0120, 1 negative triangles 1031: dt=0.0120, 1 negative triangles 1032: dt=0.0120, 1 negative triangles 1033: dt=0.0120, 1 negative triangles 1034: dt=0.0114, 1 negative triangles 1035: dt=0.0114, 1 negative triangles 1036: dt=0.0114, 1 negative triangles 1037: dt=0.0114, 1 negative triangles 1038: dt=0.0114, 1 negative triangles 1039: dt=0.0114, 1 negative triangles 1040: dt=0.0114, 1 negative triangles 1041: dt=0.0114, 1 negative triangles 1042: dt=0.0114, 1 negative triangles 1043: dt=0.0114, 1 negative triangles 1044: dt=0.0108, 1 negative triangles 1045: dt=0.0108, 1 negative triangles 1046: dt=0.0108, 1 negative triangles 1047: dt=0.0108, 1 negative triangles 1048: dt=0.0108, 1 negative triangles 1049: dt=0.0108, 1 negative triangles 1050: dt=0.0108, 1 negative triangles 1051: dt=0.0108, 1 negative triangles 1052: dt=0.0108, 1 negative triangles 1053: dt=0.0108, 1 negative triangles 1054: dt=0.0103, 1 negative triangles 1055: dt=0.0103, 1 negative triangles 1056: dt=0.0103, 1 negative triangles 1057: dt=0.0103, 1 negative triangles 1058: dt=0.0103, 1 negative triangles 1059: dt=0.0103, 1 negative triangles 1060: dt=0.0103, 1 negative triangles 1061: dt=0.0103, 1 negative triangles 1062: dt=0.0103, 1 negative triangles 1063: dt=0.0103, 1 negative triangles 1064: dt=0.0098, 1 negative triangles 1065: dt=0.0098, 1 negative triangles 1066: dt=0.0098, 1 negative triangles 1067: dt=0.0098, 1 negative triangles 1068: dt=0.0098, 1 negative triangles 1069: dt=0.0098, 1 negative triangles 1070: dt=0.0098, 1 negative triangles 1071: dt=0.0098, 1 negative triangles 1072: dt=0.0098, 1 negative triangles 1073: dt=0.0098, 1 negative triangles 1074: dt=0.0098, 1 negative triangles 1075: dt=0.0098, 1 negative triangles 1076: dt=0.0098, 1 negative triangles 1077: dt=0.0098, 1 negative triangles 1078: dt=0.0098, 1 negative triangles 1079: dt=0.0098, 1 negative triangles 1080: dt=0.0098, 1 negative triangles 1081: dt=0.0098, 1 negative triangles 1082: dt=0.0098, 1 negative triangles 1083: dt=0.0098, 1 negative triangles 1084: dt=0.0098, 1 negative triangles 1085: dt=0.0098, 1 negative triangles 1086: dt=0.0098, 1 negative triangles 1087: dt=0.0098, 1 negative triangles 1088: dt=0.0098, 1 negative triangles 1089: dt=0.0098, 1 negative triangles 1090: dt=0.0098, 1 negative triangles 1091: dt=0.0098, 1 negative triangles 1092: dt=0.0098, 1 negative triangles 1093: dt=0.0098, 1 negative triangles 1094: dt=0.0098, 1 negative triangles 1095: dt=0.0098, 1 negative triangles 1096: dt=0.0098, 1 negative triangles 1097: dt=0.0098, 1 negative triangles 1098: dt=0.0098, 1 negative triangles 1099: dt=0.0098, 1 negative triangles 1100: dt=0.0098, 1 negative triangles 1101: dt=0.0098, 1 negative triangles 1102: dt=0.0098, 1 negative triangles 1103: dt=0.0098, 1 negative triangles 1104: dt=0.0098, 1 negative triangles 1105: dt=0.0098, 1 negative triangles 1106: dt=0.0098, 1 negative triangles 1107: dt=0.0098, 1 negative triangles 1108: dt=0.0098, 1 negative triangles 1109: dt=0.0098, 1 negative triangles 1110: dt=0.0098, 1 negative triangles 1111: dt=0.0098, 1 negative triangles 1112: dt=0.0098, 1 negative triangles 1113: dt=0.0098, 1 negative triangles 1114: dt=0.0098, 1 negative triangles 1115: dt=0.0098, 1 negative triangles 1116: dt=0.0098, 1 negative triangles 1117: dt=0.0098, 1 negative triangles writing registered surface to ../surf/rh.sphere.reg... 1118: dt=0.0098, 1 negative triangles 1119: 1 negative triangles registration took 0.65 hours mris_register utimesec 11180.161754 mris_register stimesec 10.927045 mris_register ru_maxrss 402280 mris_register ru_ixrss 0 mris_register ru_idrss 0 mris_register ru_isrss 0 mris_register ru_minflt 5860050 mris_register ru_majflt 0 mris_register ru_nswap 0 mris_register ru_inblock 14814 mris_register ru_oublock 15512 mris_register ru_msgsnd 0 mris_register ru_msgrcv 0 mris_register ru_nsignals 0 mris_register ru_nvcsw 125692 mris_register ru_nivcsw 26404 FSRUNTIME@ mris_register 0.6482 hours 1 threads #-------------------------------------------- #@# Jacobian white rh Tue May 25 22:29:16 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 22:29:19 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 22:29:21 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-06 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... 1783 labels changed using aseg relabeling using gibbs priors... 000: 3974 changed, 220453 examined... 001: 946 changed, 16697 examined... 002: 225 changed, 5093 examined... 003: 81 changed, 1365 examined... 004: 35 changed, 479 examined... 005: 18 changed, 200 examined... 006: 8 changed, 111 examined... 007: 5 changed, 33 examined... 008: 5 changed, 28 examined... 009: 2 changed, 20 examined... 010: 1 changed, 13 examined... 011: 0 changed, 7 examined... 259 labels changed using aseg 000: 120 total segments, 81 labels (463 vertices) changed 001: 42 total segments, 3 labels (4 vertices) changed 002: 39 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 3 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 2248 vertices marked for relabeling... 2248 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 15 seconds. #-------------------------------------------- #@# Make Pial Surf rh Tue May 25 22:29:36 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/scripts mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs sub-06 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-06/mri/filled.mgz... reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/mri/brain.finalsurfs.mgz... reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/mri/../mri/aseg.presurf.mgz... reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/mri/wm.mgz... 43072 bright wm thresholded. 19 bright non-wm voxels segmented. reading original surface position from /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.orig... computing class statistics... border white: 444165 voxels (1.36%) border gray 461455 voxels (1.41%) WM (102.0): 102.0 +- 6.9 [70.0 --> 110.0] GM (80.0) : 79.3 +- 10.0 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 66.0 (was 70) setting MAX_BORDER_WHITE to 115.9 (was 105) setting MIN_BORDER_WHITE to 76.0 (was 85) setting MAX_CSF to 56.1 (was 40) setting MAX_GRAY to 102.1 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 66.0 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 46.1 (was 40) spring scale = 1.25 using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=109+-3.5, GM=76+-6.1 mean inside = 99.8, mean outside = 81.0 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 0.69 +- 0.19 (0.01-->5.64) (max @ vno 134617 --> 137486) face area 0.20 +- 0.09 (0.00-->5.25) mean absolute distance = 1.25 +- 1.40 6615 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 1 vertex label from ripped group deleting segment 0 with 1 points - only 0.00% unknown deleting segment 1 with 152 points - only 0.00% unknown deleting segment 2 with 172 points - only 0.00% unknown removing 2 vertex label from ripped group removing 2 vertex label from ripped group deleting segment 5 with 2 points - only 0.00% unknown deleting segment 6 with 488 points - only 0.00% unknown deleting segment 7 with 81 points - only 0.00% unknown deleting segment 9 with 25 points - only 0.00% unknown deleting segment 10 with 66 points - only 0.00% unknown deleting segment 11 with 24 points - only 0.00% unknown mean border=94.9, 240 (238) missing vertices, mean dist -0.5 [2.2 (%39.4)->0.5 (%60.6))] %47 local maxima, %38 large gradients and %11 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=blg61, 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 (0.04-->5.54) (max @ vno 134617 --> 137486) face area 0.20 +- 0.10 (0.00-->5.17) mean absolute distance = 0.55 +- 0.78 6581 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=2361974.2, rms=5.621 001: dt: 0.5000, sse=1461099.1, rms=3.247 (42.238%) 002: dt: 0.5000, sse=1423696.5, rms=3.056 (5.860%) rms = 3.14, time step reduction 1 of 3 to 0.250... 003: dt: 0.2500, sse=1191243.1, rms=2.069 (32.303%) 004: dt: 0.2500, sse=1123573.9, rms=1.564 (24.407%) 005: dt: 0.2500, sse=1112169.0, rms=1.453 (7.108%) 006: dt: 0.2500, sse=1101287.4, rms=1.397 (3.825%) rms = 1.37, time step reduction 2 of 3 to 0.125... 007: dt: 0.2500, sse=1096947.5, rms=1.368 (2.108%) rms = 1.32, time step reduction 3 of 3 to 0.062... 008: dt: 0.1250, sse=1087588.8, rms=1.325 (3.165%) positioning took 1.0 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 18 points - only 0.00% unknown deleting segment 1 with 141 points - only 0.00% unknown deleting segment 2 with 106 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 4 with 593 points - only 0.00% unknown deleting segment 5 with 14 points - only 28.57% unknown deleting segment 6 with 7 points - only 0.00% unknown deleting segment 7 with 23 points - only 0.00% unknown deleting segment 8 with 11 points - only 0.00% unknown deleting segment 9 with 63 points - only 0.00% unknown deleting segment 10 with 18 points - only 0.00% unknown mean border=94.1, 208 (92) missing vertices, mean dist -0.2 [0.9 (%37.6)->0.3 (%62.4))] %82 local maxima, %11 large gradients and % 3 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=blg61, 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 (0.03-->5.36) (max @ vno 134617 --> 137486) face area 0.21 +- 0.10 (0.00-->5.00) mean absolute distance = 0.31 +- 0.55 8181 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1797355.0, rms=4.239 009: dt: 0.5000, sse=1414587.5, rms=2.978 (29.765%) rms = 3.09, time step reduction 1 of 3 to 0.250... 010: dt: 0.2500, sse=1194485.1, rms=1.985 (33.330%) 011: dt: 0.2500, sse=1122206.4, rms=1.380 (30.484%) 012: dt: 0.2500, sse=1110311.9, rms=1.203 (12.853%) 013: dt: 0.2500, sse=1085313.5, rms=1.131 (5.963%) rms = 1.09, time step reduction 2 of 3 to 0.125... 014: dt: 0.2500, sse=1078950.2, rms=1.091 (3.491%) 015: dt: 0.1250, sse=1076522.4, rms=1.035 (5.178%) rms = 1.02, time step reduction 3 of 3 to 0.062... 016: dt: 0.1250, sse=1068903.6, rms=1.017 (1.746%) positioning took 1.0 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 9 points - only 0.00% unknown deleting segment 1 with 153 points - only 0.00% unknown deleting segment 2 with 135 points - only 0.00% unknown deleting segment 4 with 444 points - only 0.00% unknown deleting segment 5 with 10 points - only 0.00% unknown deleting segment 6 with 32 points - only 0.00% unknown deleting segment 7 with 12 points - only 0.00% unknown deleting segment 8 with 12 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 9 with 4 points - only 0.00% unknown deleting segment 10 with 17 points - only 0.00% unknown deleting segment 11 with 64 points - only 0.00% unknown deleting segment 12 with 18 points - only 0.00% unknown mean border=94.2, 172 (37) missing vertices, mean dist -0.1 [0.5 (%36.5)->0.2 (%63.5))] %91 local maxima, % 4 large gradients and % 1 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=blg61, 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 (0.06-->5.21) (max @ vno 134617 --> 136024) face area 0.20 +- 0.10 (0.00-->4.44) mean absolute distance = 0.22 +- 0.41 6141 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1225130.2, rms=2.326 rms = 2.36, time step reduction 1 of 3 to 0.250... 017: dt: 0.2500, sse=1113236.0, rms=1.657 (28.763%) 018: dt: 0.2500, sse=1064378.1, rms=1.155 (30.325%) 019: dt: 0.2500, sse=1056181.4, rms=1.059 (8.265%) 020: dt: 0.2500, sse=1063949.2, rms=1.009 (4.734%) rms = 1.00, time step reduction 2 of 3 to 0.125... 021: dt: 0.2500, sse=1046914.4, rms=0.995 (1.382%) rms = 0.95, time step reduction 3 of 3 to 0.062... 022: dt: 0.1250, sse=1038520.8, rms=0.952 (4.342%) positioning took 0.8 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 146 points - only 0.00% unknown deleting segment 1 with 132 points - only 0.00% unknown deleting segment 2 with 418 points - only 0.00% unknown deleting segment 3 with 32 points - only 0.00% unknown deleting segment 4 with 7 points - only 0.00% unknown deleting segment 5 with 21 points - only 38.10% unknown deleting segment 6 with 18 points - only 0.00% unknown deleting segment 7 with 32 points - only 0.00% unknown deleting segment 8 with 15 points - only 0.00% unknown deleting segment 9 with 64 points - only 0.00% unknown deleting segment 10 with 16 points - only 0.00% unknown mean border=93.8, 193 (26) missing vertices, mean dist -0.0 [0.4 (%30.6)->0.1 (%69.4))] %93 local maxima, % 3 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=blg61, 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-06/surf/rh.white... writing smoothed curvature to rh.curv 000: dt: 0.0000, sse=1108853.1, rms=1.610 rms = 1.67, time step reduction 1 of 3 to 0.250... 023: dt: 0.2500, sse=1051201.4, rms=1.134 (29.574%) 024: dt: 0.2500, sse=1030616.4, rms=0.811 (28.451%) rms = 0.80, time step reduction 2 of 3 to 0.125... 025: dt: 0.2500, sse=1027245.1, rms=0.799 (1.452%) rms = 0.76, time step reduction 3 of 3 to 0.062... 026: dt: 0.1250, sse=1017156.9, rms=0.759 (5.037%) positioning took 0.5 minutes generating cortex label... 16 non-cortical segments detected only using segment with 11612 vertices erasing segment 0 (vno[0] = 57499) erasing segment 1 (vno[0] = 65999) erasing segment 2 (vno[0] = 73495) erasing segment 4 (vno[0] = 80984) erasing segment 5 (vno[0] = 90728) erasing segment 6 (vno[0] = 140239) erasing segment 7 (vno[0] = 144320) erasing segment 8 (vno[0] = 145857) erasing segment 9 (vno[0] = 147519) erasing segment 10 (vno[0] = 150362) erasing segment 11 (vno[0] = 152976) erasing segment 12 (vno[0] = 152989) erasing segment 13 (vno[0] = 154304) erasing segment 14 (vno[0] = 187923) erasing segment 15 (vno[0] = 220358) writing cortex label to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/label/rh.cortex.label... writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.curv writing smoothed area to rh.area writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.area vertex spacing 0.69 +- 0.19 (0.02-->5.17) (max @ vno 134617 --> 136024) face area 0.20 +- 0.10 (0.00-->4.51) 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 43 points - only 0.00% unknown deleting segment 1 with 159 points - only 0.00% unknown deleting segment 2 with 58 points - only 0.00% unknown deleting segment 3 with 18 points - only 0.00% unknown deleting segment 4 with 22 points - only 0.00% unknown deleting segment 5 with 39 points - only 0.00% unknown deleting segment 6 with 26 points - only 0.00% unknown deleting segment 7 with 28 points - only 0.00% unknown deleting segment 8 with 8 points - only 0.00% unknown deleting segment 9 with 5 points - only 0.00% unknown deleting segment 10 with 19 points - only 0.00% unknown deleting segment 11 with 12 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 12 with 1 points - only 0.00% unknown deleting segment 14 with 11 points - only 0.00% unknown deleting segment 15 with 43 points - only 0.00% unknown deleting segment 16 with 60 points - only 0.00% unknown deleting segment 17 with 16 points - only 0.00% unknown deleting segment 18 with 5 points - only 0.00% unknown deleting segment 19 with 6 points - only 0.00% unknown smoothing surface for 5 iterations... reading initial pial vertex positions from white.preaparc... mean border=73.7, 232 (232) missing vertices, mean dist 0.7 [0.6 (%0.0)->1.1 (%100.0))] %16 local maxima, %43 large gradients and %36 min vals, 38 gradients ignored perforing initial smooth deformation to move away from white surface tol=1.0e-04, sigma=2.0, host=blg61, 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=20055590.0, rms=21.335 001: dt: 0.0500, sse=15517052.0, rms=18.625 (12.700%) 002: dt: 0.0500, sse=13180557.0, rms=17.063 (8.387%) 003: dt: 0.0500, sse=11696348.0, rms=15.991 (6.281%) 004: dt: 0.0500, sse=10638518.0, rms=15.181 (5.066%) 005: dt: 0.0500, sse=9822552.0, rms=14.525 (4.320%) 006: dt: 0.0500, sse=9160361.0, rms=13.970 (3.821%) 007: dt: 0.0500, sse=8601232.0, rms=13.484 (3.483%) 008: dt: 0.0500, sse=8116027.0, rms=13.047 (3.241%) 009: dt: 0.0500, sse=7687190.5, rms=12.648 (3.058%) 010: dt: 0.0500, sse=7302684.5, rms=12.279 (2.917%) positioning took 1.1 minutes mean border=68.1, 127 (92) missing vertices, mean dist 0.8 [0.2 (%0.0)->1.2 (%100.0))] %17 local maxima, %43 large gradients and %35 min vals, 83 gradients ignored tol=1.0e-04, sigma=2.0, host=blg61, 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=14657333.0, rms=18.058 011: dt: 0.0500, sse=14048752.0, rms=17.650 (2.255%) 012: dt: 0.0500, sse=13513700.0, rms=17.284 (2.074%) 013: dt: 0.0500, sse=13038017.0, rms=16.952 (1.922%) 014: dt: 0.0500, sse=12610733.0, rms=16.648 (1.794%) 015: dt: 0.0500, sse=12223145.0, rms=16.367 (1.688%) 016: dt: 0.0500, sse=11867903.0, rms=16.105 (1.600%) 017: dt: 0.0500, sse=11538668.0, rms=15.858 (1.532%) 018: dt: 0.0500, sse=11227597.0, rms=15.622 (1.493%) 019: dt: 0.0500, sse=10928726.0, rms=15.391 (1.478%) 020: dt: 0.0500, sse=10638826.0, rms=15.164 (1.476%) positioning took 1.1 minutes mean border=66.3, 142 (61) missing vertices, mean dist 0.7 [0.1 (%0.1)->1.2 (%99.9))] %17 local maxima, %43 large gradients and %35 min vals, 117 gradients ignored tol=1.0e-04, sigma=2.0, host=blg61, 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=11958966.0, rms=16.175 021: dt: 0.0500, sse=11610694.0, rms=15.915 (1.609%) 022: dt: 0.0500, sse=11280862.0, rms=15.665 (1.574%) 023: dt: 0.0500, sse=10968572.0, rms=15.424 (1.539%) 024: dt: 0.0500, sse=10671066.0, rms=15.190 (1.512%) 025: dt: 0.0500, sse=10387528.0, rms=14.965 (1.486%) 026: dt: 0.0500, sse=10114003.0, rms=14.744 (1.478%) 027: dt: 0.0500, sse=9848893.0, rms=14.526 (1.476%) 028: dt: 0.0500, sse=9591521.0, rms=14.311 (1.477%) 029: dt: 0.0500, sse=9340143.0, rms=14.099 (1.486%) 030: dt: 0.0500, sse=9094422.0, rms=13.888 (1.497%) positioning took 1.1 minutes mean border=65.4, 180 (45) missing vertices, mean dist 0.6 [0.1 (%1.8)->1.0 (%98.2))] %17 local maxima, %43 large gradients and %35 min vals, 117 gradients ignored tol=1.0e-04, sigma=2.0, host=blg61, 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=9797196.0, rms=14.479 031: dt: 0.5000, sse=7973499.0, rms=12.875 (11.073%) 032: dt: 0.5000, sse=6495744.5, rms=11.413 (11.358%) 033: dt: 0.5000, sse=5232780.0, rms=10.008 (12.309%) 034: dt: 0.5000, sse=4287018.0, rms=8.803 (12.044%) 035: dt: 0.5000, sse=3538311.5, rms=7.724 (12.258%) 036: dt: 0.5000, sse=3070779.0, rms=6.962 (9.856%) 037: dt: 0.5000, sse=2784089.0, rms=6.455 (7.286%) 038: dt: 0.5000, sse=2652982.5, rms=6.207 (3.843%) 039: dt: 0.5000, sse=2559811.5, rms=6.027 (2.895%) 040: dt: 0.5000, sse=2528681.5, rms=5.963 (1.068%) 041: dt: 0.5000, sse=2487750.5, rms=5.882 (1.359%) rms = 5.86, time step reduction 1 of 3 to 0.250... 042: dt: 0.5000, sse=2479791.2, rms=5.864 (0.302%) 043: dt: 0.2500, sse=2188161.5, rms=5.181 (11.647%) 044: dt: 0.2500, sse=2130387.0, rms=5.044 (2.650%) rms = 5.09, time step reduction 2 of 3 to 0.125... 045: dt: 0.1250, sse=2084475.6, rms=4.928 (2.296%) 046: dt: 0.1250, sse=2027519.0, rms=4.779 (3.030%) rms = 4.76, time step reduction 3 of 3 to 0.062... 047: dt: 0.1250, sse=2020868.5, rms=4.759 (0.403%) positioning took 2.6 minutes mean border=62.6, 3461 (15) missing vertices, mean dist 0.2 [0.2 (%19.6)->0.5 (%80.4))] %35 local maxima, %27 large gradients and %32 min vals, 86 gradients ignored tol=1.0e-04, sigma=1.0, host=blg61, 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=3368297.2, rms=6.981 048: dt: 0.5000, sse=3246685.5, rms=6.754 (3.245%) 049: dt: 0.5000, sse=2858099.0, rms=6.039 (10.591%) rms = 6.09, time step reduction 1 of 3 to 0.250... 050: dt: 0.2500, sse=2515023.2, rms=5.265 (12.811%) 051: dt: 0.2500, sse=2371750.2, rms=4.895 (7.031%) 052: dt: 0.2500, sse=2291641.2, rms=4.687 (4.244%) 053: dt: 0.2500, sse=2153058.0, rms=4.315 (7.945%) 054: dt: 0.2500, sse=2059491.4, rms=4.042 (6.329%) 055: dt: 0.2500, sse=1942206.6, rms=3.674 (9.087%) 056: dt: 0.2500, sse=1898430.8, rms=3.527 (4.017%) 057: dt: 0.2500, sse=1845300.2, rms=3.342 (5.234%) rms = 3.35, time step reduction 2 of 3 to 0.125... 058: dt: 0.1250, sse=1759927.6, rms=3.003 (10.144%) 059: dt: 0.1250, sse=1646194.1, rms=2.481 (17.385%) 060: dt: 0.1250, sse=1623249.1, rms=2.367 (4.618%) rms = 2.33, time step reduction 3 of 3 to 0.062... 061: dt: 0.1250, sse=1616289.8, rms=2.332 (1.474%) positioning took 2.7 minutes mean border=61.1, 3939 (8) missing vertices, mean dist 0.1 [0.2 (%21.3)->0.2 (%78.7))] %44 local maxima, %17 large gradients and %32 min vals, 93 gradients ignored tol=1.0e-04, sigma=0.5, host=blg61, 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=1901256.8, rms=3.387 rms = 4.79, time step reduction 1 of 3 to 0.250... 062: dt: 0.2500, sse=1768901.5, rms=2.861 (15.507%) 063: dt: 0.2500, sse=1740490.6, rms=2.733 (4.480%) rms = 2.89, time step reduction 2 of 3 to 0.125... 064: dt: 0.1250, sse=1718275.1, rms=2.630 (3.793%) 065: dt: 0.1250, sse=1691706.6, rms=2.504 (4.782%) 066: dt: 0.1250, sse=1679486.8, rms=2.447 (2.287%) rms = 2.42, time step reduction 3 of 3 to 0.062... 067: dt: 0.1250, sse=1673057.2, rms=2.418 (1.162%) positioning took 1.4 minutes mean border=60.4, 8182 (8) missing vertices, mean dist 0.0 [0.2 (%27.9)->0.1 (%72.1))] %46 local maxima, %15 large gradients and %30 min vals, 92 gradients ignored tol=1.0e-04, sigma=0.2, host=blg61, 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-06/surf/rh.pial... writing smoothed curvature to rh.curv.pial 000: dt: 0.0000, sse=1721743.4, rms=2.626 rms = 3.70, time step reduction 1 of 3 to 0.250... 068: dt: 0.2500, sse=1685184.8, rms=2.445 (6.914%) rms = 2.46, time step reduction 2 of 3 to 0.125... rms = 2.41, time step reduction 3 of 3 to 0.062... 069: dt: 0.1250, sse=1678975.6, rms=2.413 (1.293%) positioning took 0.6 minutes writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.curv.pial writing smoothed area to rh.area.pial writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.area.pial vertex spacing 0.79 +- 0.35 (0.02-->6.17) (max @ vno 134617 --> 137486) face area 0.25 +- 0.20 (0.00-->8.54) measuring cortical thickness... writing cortical thickness estimate to 'thickness' file. 0 of 220453 vertices processed 25000 of 220453 vertices processed 50000 of 220453 vertices processed 75000 of 220453 vertices processed 100000 of 220453 vertices processed 125000 of 220453 vertices processed 150000 of 220453 vertices processed 175000 of 220453 vertices processed 200000 of 220453 vertices processed 0 of 220453 vertices processed 25000 of 220453 vertices processed 50000 of 220453 vertices processed 75000 of 220453 vertices processed 100000 of 220453 vertices processed 125000 of 220453 vertices processed 150000 of 220453 vertices processed 175000 of 220453 vertices processed 200000 of 220453 vertices processed thickness calculation complete, 52:460 truncations. 39448 vertices at 0 distance 127864 vertices at 1 distance 135479 vertices at 2 distance 74276 vertices at 3 distance 29063 vertices at 4 distance 8976 vertices at 5 distance 2633 vertices at 6 distance 912 vertices at 7 distance 285 vertices at 8 distance 105 vertices at 9 distance 52 vertices at 10 distance 65 vertices at 11 distance 57 vertices at 12 distance 30 vertices at 13 distance 35 vertices at 14 distance 26 vertices at 15 distance 21 vertices at 16 distance 24 vertices at 17 distance 22 vertices at 18 distance 11 vertices at 19 distance 16 vertices at 20 distance writing curvature file /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.thickness positioning took 17.6 minutes #-------------------------------------------- #@# Surf Volume rh Tue May 25 22:47:13 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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-06 rh /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.volume masking with /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/label/rh.cortex.label Total face volume 234371 Total vertex volume 232364 (mask=0) #@# sub-06 rh 232364 vertexvol Done #----------------------------------------- #@# Cortical Parc 2 rh Tue May 25 22:47:17 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-06 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... 23 labels changed using aseg relabeling using gibbs priors... 000: 12938 changed, 220453 examined... 001: 3092 changed, 51024 examined... 002: 937 changed, 16080 examined... 003: 429 changed, 5344 examined... 004: 193 changed, 2377 examined... 005: 90 changed, 1092 examined... 006: 51 changed, 537 examined... 007: 20 changed, 266 examined... 008: 9 changed, 119 examined... 009: 2 changed, 46 examined... 010: 2 changed, 12 examined... 011: 2 changed, 12 examined... 012: 0 changed, 10 examined... 10 labels changed using aseg 000: 352 total segments, 268 labels (4544 vertices) changed 001: 104 total segments, 22 labels (136 vertices) changed 002: 82 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 65 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1546 vertices marked for relabeling... 1546 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 22:47:37 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 sub-06 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... 2005 labels changed using aseg relabeling using gibbs priors... 000: 2999 changed, 220453 examined... 001: 728 changed, 13416 examined... 002: 205 changed, 4089 examined... 003: 93 changed, 1215 examined... 004: 41 changed, 535 examined... 005: 18 changed, 243 examined... 006: 11 changed, 106 examined... 007: 6 changed, 63 examined... 008: 5 changed, 27 examined... 009: 5 changed, 26 examined... 010: 3 changed, 20 examined... 011: 1 changed, 20 examined... 012: 0 changed, 7 examined... 295 labels changed using aseg 000: 75 total segments, 42 labels (1011 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, 6 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1102 vertices marked for relabeling... 1102 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 22:47:54 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/scripts pctsurfcon --s sub-06 --rh-only Log file is /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/scripts/pctsurfcon.log Tue May 25 22:47:54 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-06/scripts /opt/freesurfer/bin/pctsurfcon $Id: pctsurfcon,v 1.15 2016/02/12 21:43:15 zkaufman Exp $ Linux blg6114.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-06/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/tmp.pctsurfcon.263566/rh.wm.mgh --regheader sub-06 --cortex srcvol = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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-06/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-06/label/rh.cortex.label Reading surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 = 116286 Masking with /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/label/rh.cortex.label Writing to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/tmp.pctsurfcon.263566/rh.wm.mgh Dim: 220453 1 1 mri_vol2surf --mov /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/tmp.pctsurfcon.263566/rh.gm.mgh --projfrac 0.3 --regheader sub-06 --cortex srcvol = /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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-06/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-06/label/rh.cortex.label Reading surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.white Done reading source surface Reading thickness /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 = 138760 Masking with /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/label/rh.cortex.label Writing to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/tmp.pctsurfcon.263566/rh.gm.mgh Dim: 220453 1 1 mri_concat /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/tmp.pctsurfcon.263566/rh.wm.mgh /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/tmp.pctsurfcon.263566/rh.gm.mgh --paired-diff-norm --mul 100 --o /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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-06/surf/rh.w-g.pct.mgh mri_segstats --in /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.w-g.pct.mgh --annot sub-06 rh aparc --sum /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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-06/surf/rh.w-g.pct.mgh --annot sub-06 rh aparc --sum /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/stats/rh.w-g.pct.stats --snr sysname Linux hostname blg6114.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-06/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-06/surf/rh.w-g.pct.mgh Vertex Area is 0.399956 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 20:52:22 UTC 2021 Ended at Tue May 25 22:48:02 UTC 2021 #@#%# recon-all-run-time-hours 1.928 recon-all -s sub-06 finished without error at Tue May 25 22:48:02 UTC 2021 New invocation of recon-all Wed May 26 00:11:01 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06 /opt/freesurfer/bin/recon-all -autorecon-hemi rh -nohyporelabel -openmp 8 -subjid sub-06 -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-06 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 blg6114.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 767932 maxlocks unlimited maxsignal 767932 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 196638260 139102384 7275932 2233852 50259944 48609116 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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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: 2021/05/26-00:11:01-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: blg6114.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 00:11:02 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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-06 rh white computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/mri/wm.mgz... reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 236022 Total vertex volume 233821 (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) = 1492006 mm^3 (det: 1.305695 ) lhCtxGM: 233674.454 460316.000 diff=-226641.5 pctdiff=-96.990 rhCtxGM: 231736.832 454865.000 diff=-223128.2 pctdiff=-96.285 lhCtxWM: 174557.758 398559.500 diff=-224001.7 pctdiff=-128.325 rhCtxWM: 175837.258 403253.500 diff=-227416.2 pctdiff=-129.333 SubCortGMVol 102400.000 SupraTentVol 943733.301 (1856802.000) diff=-913068.699 pctdiff=-96.751 SupraTentVolNotVent 906351.301 (1819420.000) diff=-913068.699 pctdiff=-100.741 BrainSegVol 2130875.000 (2126469.000) diff=4406.000 pctdiff=0.207 BrainSegVolNotVent 2087714.000 (1186381.301) diff=901332.699 pctdiff=43.173 BrainSegVolNotVent 2087714.000 CerebellumVol 268149.000 VentChorVol 37382.000 3rd4th5thCSF 5779.000 CSFVol 1373.000, OptChiasmVol 145.000 MaskVol 2624308.000 2092 915 2021 2.465 0.369 0.073 0.015 10 1.2 bankssts 2214 895 2909 2.549 0.691 0.103 0.028 39 2.6 caudalanteriorcingulate 4450 1849 5400 2.543 0.451 0.081 0.020 37 3.7 caudalmiddlefrontal 3750 1422 3099 2.031 0.443 0.104 0.032 44 5.1 cuneus 1152 460 2205 3.539 0.788 0.078 0.028 8 1.4 entorhinal 6481 2674 8504 2.707 0.641 0.092 0.024 75 6.6 fusiform 14184 5464 14173 2.338 0.452 0.086 0.028 180 17.5 inferiorparietal 8753 3493 11527 2.643 0.727 0.101 0.038 132 15.5 inferiortemporal 1877 750 1556 1.851 1.086 0.110 0.037 34 2.7 isthmuscingulate 12637 4573 11273 2.208 0.587 0.090 0.028 128 14.9 lateraloccipital 6780 2789 8890 2.759 0.605 0.099 0.034 95 9.6 lateralorbitofrontal 7248 2738 6401 2.122 0.528 0.095 0.031 79 9.9 lingual 4528 1866 5544 2.446 0.602 0.090 0.029 80 5.4 medialorbitofrontal 7953 3222 10579 2.706 0.605 0.090 0.028 108 9.6 middletemporal 1458 566 2165 3.116 0.698 0.075 0.021 10 1.3 parahippocampal 3131 1251 3247 2.388 0.386 0.075 0.015 20 2.0 paracentral 3263 1366 4123 2.659 0.503 0.088 0.023 36 3.2 parsopercularis 2398 958 3607 2.797 0.529 0.105 0.030 32 3.4 parsorbitalis 4155 1711 5085 2.603 0.461 0.090 0.021 45 3.8 parstriangularis 3853 1558 2453 1.731 0.458 0.097 0.032 44 5.4 pericalcarine 9708 3610 8575 2.137 0.451 0.071 0.018 87 7.3 postcentral 3185 1280 3337 2.220 0.652 0.099 0.026 47 3.8 posteriorcingulate 11895 4458 12432 2.559 0.462 0.072 0.019 83 9.8 precentral 7871 3262 8293 2.374 0.455 0.089 0.023 84 7.5 precuneus 1779 750 2585 2.697 0.587 0.103 0.024 33 1.9 rostralanteriorcingulate 17047 7104 18954 2.332 0.461 0.100 0.026 242 18.7 rostralmiddlefrontal 17905 7366 22348 2.616 0.496 0.093 0.026 214 20.5 superiorfrontal 12321 4785 11148 2.122 0.443 0.083 0.021 125 10.4 superiorparietal 8726 3536 10937 2.725 0.532 0.074 0.016 64 5.9 superiortemporal 7903 3189 8911 2.481 0.473 0.090 0.022 88 7.4 supramarginal 680 287 1316 2.910 0.470 0.142 0.048 17 1.6 frontalpole 1072 462 2568 3.669 0.779 0.093 0.027 12 1.4 temporalpole 845 332 1092 2.655 0.294 0.088 0.020 7 0.6 transversetemporal 5035 2173 6486 3.013 0.852 0.107 0.050 73 10.8 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-06 rh pial computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/mri/wm.mgz... reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.pial... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 236022 Total vertex volume 233821 (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) = 1492006 mm^3 (det: 1.305695 ) lhCtxGM: 233674.454 460316.000 diff=-226641.5 pctdiff=-96.990 rhCtxGM: 231736.832 454865.000 diff=-223128.2 pctdiff=-96.285 lhCtxWM: 174557.758 398559.500 diff=-224001.7 pctdiff=-128.325 rhCtxWM: 175837.258 403253.500 diff=-227416.2 pctdiff=-129.333 SubCortGMVol 102400.000 SupraTentVol 943733.301 (1856802.000) diff=-913068.699 pctdiff=-96.751 SupraTentVolNotVent 906351.301 (1819420.000) diff=-913068.699 pctdiff=-100.741 BrainSegVol 2130875.000 (2126469.000) diff=4406.000 pctdiff=0.207 BrainSegVolNotVent 2087714.000 (1186381.301) diff=901332.699 pctdiff=43.173 BrainSegVolNotVent 2087714.000 CerebellumVol 268149.000 VentChorVol 37382.000 3rd4th5thCSF 5779.000 CSFVol 1373.000, OptChiasmVol 145.000 MaskVol 2624308.000 2092 720 2021 2.465 0.369 0.071 0.026 28 2.4 bankssts 2214 1255 2909 2.549 0.691 0.100 0.032 38 2.9 caudalanteriorcingulate 4450 2230 5400 2.543 0.451 0.078 0.019 49 3.6 caudalmiddlefrontal 3750 1632 3099 2.031 0.443 0.086 0.021 46 3.5 cuneus 1152 737 2205 3.539 0.788 0.097 0.019 8 1.0 entorhinal 6481 3368 8504 2.707 0.641 0.092 0.023 82 6.7 fusiform 14184 6468 14173 2.338 0.452 0.086 0.027 182 15.0 inferiorparietal 8753 4823 11527 2.643 0.727 0.098 0.030 128 11.0 inferiortemporal 1877 958 1556 1.851 1.086 0.120 0.047 45 3.7 isthmuscingulate 12637 5475 11273 2.208 0.587 0.075 0.019 119 10.9 lateraloccipital 6780 3467 8890 2.759 0.605 0.097 0.027 108 7.8 lateralorbitofrontal 7248 3239 6401 2.122 0.528 0.085 0.088 465 44.6 lingual 4528 2411 5544 2.446 0.602 0.097 0.023 50 4.3 medialorbitofrontal 7953 4349 10579 2.706 0.605 0.092 0.022 71 7.5 middletemporal 1458 761 2165 3.116 0.698 0.076 0.018 16 0.8 parahippocampal 3131 1372 3247 2.388 0.386 0.076 0.016 27 2.1 paracentral 3263 1640 4123 2.659 0.503 0.089 0.023 41 3.1 parsopercularis 2398 1497 3607 2.797 0.529 0.107 0.025 21 2.7 parsorbitalis 4155 2138 5085 2.603 0.461 0.094 0.020 38 3.6 parstriangularis 3853 1378 2453 1.731 0.458 0.065 0.019 54 2.8 pericalcarine 9708 4300 8575 2.137 0.451 0.070 0.016 59 6.1 postcentral 3185 1580 3337 2.220 0.652 0.101 0.025 51 3.3 posteriorcingulate 11895 5029 12432 2.559 0.462 0.068 0.025 154 13.1 precentral 7871 3613 8293 2.374 0.455 0.092 0.032 144 7.8 precuneus 1779 1112 2585 2.697 0.587 0.109 0.026 23 1.9 rostralanteriorcingulate 17047 8657 18954 2.332 0.461 0.099 0.024 179 18.1 rostralmiddlefrontal 17905 9064 22348 2.616 0.496 0.096 0.107 1535 136.5 superiorfrontal 12321 5483 11148 2.122 0.443 0.080 0.018 111 9.3 superiorparietal 8726 4401 10937 2.725 0.532 0.087 0.021 74 8.0 superiortemporal 7903 3819 8911 2.481 0.473 0.091 0.023 103 8.3 supramarginal 680 572 1316 2.910 0.470 0.159 0.039 6 1.2 frontalpole 1072 856 2568 3.669 0.779 0.109 0.019 7 0.9 temporalpole 845 468 1092 2.655 0.294 0.073 0.015 2 0.5 transversetemporal 5035 2064 6486 3.013 0.852 0.096 0.043 119 9.6 insula #----------------------------------------- #@# Parcellation Stats 2 rh Wed May 26 00:13:11 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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-06 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-06/mri/wm.mgz... reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 236022 Total vertex volume 233821 (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) = 1492006 mm^3 (det: 1.305695 ) lhCtxGM: 233674.454 460316.000 diff=-226641.5 pctdiff=-96.990 rhCtxGM: 231736.832 454865.000 diff=-223128.2 pctdiff=-96.285 lhCtxWM: 174557.758 398559.500 diff=-224001.7 pctdiff=-128.325 rhCtxWM: 175837.258 403253.500 diff=-227416.2 pctdiff=-129.333 SubCortGMVol 102400.000 SupraTentVol 943733.301 (1856802.000) diff=-913068.699 pctdiff=-96.751 SupraTentVolNotVent 906351.301 (1819420.000) diff=-913068.699 pctdiff=-100.741 BrainSegVol 2130875.000 (2126469.000) diff=4406.000 pctdiff=0.207 BrainSegVolNotVent 2087714.000 (1186381.301) diff=901332.699 pctdiff=43.173 BrainSegVolNotVent 2087714.000 CerebellumVol 268149.000 VentChorVol 37382.000 3rd4th5thCSF 5779.000 CSFVol 1373.000, OptChiasmVol 145.000 MaskVol 2624308.000 1758 751 1886 2.233 0.445 0.097 0.019 25 1.6 G&S_frontomargin 1758 628 2326 2.883 0.526 0.087 0.026 20 1.8 G&S_occipital_inf 2175 752 2118 2.341 0.357 0.071 0.017 16 1.6 G&S_paracentral 2626 1012 3033 2.571 0.457 0.099 0.025 37 2.9 G&S_subcentral 2510 1021 3095 2.330 0.505 0.113 0.033 51 3.8 G&S_transv_frontopol 4994 2090 6277 2.637 0.428 0.092 0.024 73 4.9 G&S_cingul-Ant 2600 1098 3269 2.739 0.389 0.090 0.025 30 2.7 G&S_cingul-Mid-Ant 2956 1229 3224 2.471 0.383 0.088 0.023 30 3.0 G&S_cingul-Mid-Post 920 360 891 2.137 0.895 0.127 0.045 21 1.7 G_cingul-Post-dorsal 521 201 733 2.677 0.648 0.104 0.033 7 0.7 G_cingul-Post-ventral 3735 1356 3032 1.946 0.487 0.108 0.037 54 6.2 G_cuneus 2142 888 3584 2.910 0.469 0.105 0.029 36 2.6 G_front_inf-Opercular 681 272 1179 2.905 0.405 0.126 0.040 13 1.3 G_front_inf-Orbital 1966 785 2923 2.731 0.441 0.106 0.028 31 2.3 G_front_inf-Triangul 8018 3228 11720 2.597 0.489 0.120 0.037 170 12.4 G_front_middle 11293 4554 16178 2.704 0.536 0.102 0.030 165 15.4 G_front_sup 823 376 1468 3.588 0.619 0.111 0.050 14 1.8 G_Ins_lg&S_cent_ins 949 361 1861 3.475 0.792 0.113 0.061 17 2.6 G_insular_short 3933 1382 4406 2.365 0.559 0.106 0.042 67 7.4 G_occipital_middle 2863 887 2418 2.123 0.481 0.086 0.029 35 3.6 G_occipital_sup 2538 1012 4112 2.864 0.575 0.114 0.034 49 3.5 G_oc-temp_lat-fusifor 4635 1614 4559 2.210 0.550 0.100 0.035 60 7.2 G_oc-temp_med-Lingual 2952 1197 5149 3.334 1.028 0.110 0.050 41 6.7 G_oc-temp_med-Parahip 5076 2051 8256 2.867 0.573 0.111 0.037 95 8.1 G_orbital 5547 1857 6150 2.445 0.522 0.096 0.040 107 9.8 G_pariet_inf-Angular 3837 1506 5392 2.666 0.449 0.100 0.027 58 4.2 G_pariet_inf-Supramar 3613 1373 4148 2.298 0.498 0.097 0.026 56 3.6 G_parietal_sup 3495 1101 2943 2.066 0.378 0.069 0.021 39 3.2 G_postcentral 4552 1439 5405 2.733 0.381 0.069 0.023 37 4.3 G_precentral 3678 1441 4724 2.479 0.507 0.105 0.031 64 4.9 G_precuneus 1189 498 1915 2.612 0.547 0.110 0.042 33 2.0 G_rectus 686 265 906 2.798 1.007 0.077 0.035 10 1.0 G_subcallosal 673 257 945 2.711 0.279 0.092 0.022 6 0.5 G_temp_sup-G_T_transv 3262 1261 4683 2.769 0.602 0.094 0.023 41 3.2 G_temp_sup-Lateral 1309 553 2242 3.394 0.531 0.069 0.017 10 0.8 G_temp_sup-Plan_polar 1217 523 1448 2.437 0.344 0.056 0.011 5 0.5 G_temp_sup-Plan_tempo 4705 1779 7005 2.702 0.757 0.115 0.056 100 12.2 G_temporal_inf 4454 1710 7125 2.867 0.573 0.098 0.038 85 7.3 G_temporal_middle 746 310 629 2.460 0.363 0.054 0.008 2 0.2 Lat_Fis-ant-Horizont 678 284 577 2.430 0.318 0.067 0.014 2 0.4 Lat_Fis-ant-Vertical 2015 837 1744 2.520 0.459 0.074 0.017 10 1.3 Lat_Fis-post 6019 2265 4229 1.768 0.510 0.104 0.034 69 8.7 Pole_occipital 2822 1221 5781 3.203 0.752 0.105 0.031 41 3.9 Pole_temporal 3446 1476 2567 2.032 0.481 0.087 0.025 28 3.7 S_calcarine 4540 1921 3502 2.134 0.498 0.062 0.014 19 2.8 S_central 1428 621 1330 2.209 0.432 0.070 0.013 6 0.8 S_cingul-Marginalis 786 347 846 2.969 0.465 0.069 0.022 3 0.8 S_circular_insula_ant 1935 819 1871 2.825 0.452 0.064 0.016 9 1.5 S_circular_insula_inf 1885 817 1808 2.650 0.522 0.074 0.025 12 1.9 S_circular_insula_sup 1785 779 1787 2.484 0.581 0.076 0.014 10 1.1 S_collat_transv_ant 659 283 478 2.172 0.266 0.075 0.016 3 0.4 S_collat_transv_post 3398 1469 3156 2.301 0.404 0.085 0.020 25 2.7 S_front_inf 3991 1679 3239 2.149 0.327 0.077 0.014 22 2.4 S_front_middle 4915 2092 4835 2.381 0.385 0.073 0.018 32 3.6 S_front_sup 515 210 473 2.303 0.298 0.044 0.006 1 0.1 S_interm_prim-Jensen 5525 2319 4402 2.066 0.317 0.072 0.014 33 3.1 S_intrapariet&P_trans 1686 720 1170 1.980 0.308 0.080 0.016 8 1.2 S_oc_middle&Lunatus 2334 1005 1828 2.081 0.371 0.081 0.018 15 1.8 S_oc_sup&transversal 1105 445 888 2.517 0.305 0.073 0.015 5 0.7 S_occipital_ant 2107 892 1821 2.322 0.452 0.073 0.013 10 1.2 S_oc-temp_lat 2872 1197 2481 2.420 0.498 0.066 0.013 12 1.5 S_oc-temp_med&Lingual 673 288 542 2.246 0.331 0.082 0.017 4 0.4 S_orbital_lateral 1075 461 948 2.379 0.639 0.081 0.028 9 1.1 S_orbital_med-olfact 2855 1173 3252 2.582 0.518 0.095 0.029 31 3.5 S_orbital-H_Shaped 3068 1279 2514 2.256 0.437 0.078 0.018 22 2.3 S_parieto_occipital 2285 884 1186 1.539 0.888 0.097 0.023 37 1.7 S_pericallosal 4373 1818 3428 2.128 0.335 0.074 0.015 28 2.7 S_postcentral 2559 1108 2364 2.359 0.413 0.068 0.012 10 1.3 S_precentral-inf-part 2077 874 1762 2.317 0.364 0.068 0.012 9 1.0 S_precentral-sup-part 709 292 475 1.930 0.356 0.073 0.009 4 0.3 S_suborbital 1724 737 1477 2.155 0.354 0.076 0.017 8 1.3 S_subparietal 2722 1170 1996 2.196 0.453 0.084 0.014 17 1.8 S_temporal_inf 9948 4184 9341 2.430 0.419 0.069 0.014 49 5.7 S_temporal_sup 470 194 365 2.532 0.212 0.078 0.011 2 0.2 S_temporal_transverse #----------------------------------------- #@# Parcellation Stats 3 rh Wed May 26 00:14:19 UTC 2021 /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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-06 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-06/mri/wm.mgz... reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 236022 Total vertex volume 233821 (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) = 1492006 mm^3 (det: 1.305695 ) lhCtxGM: 233674.454 460316.000 diff=-226641.5 pctdiff=-96.990 rhCtxGM: 231736.832 454865.000 diff=-223128.2 pctdiff=-96.285 lhCtxWM: 174557.758 398559.500 diff=-224001.7 pctdiff=-128.325 rhCtxWM: 175837.258 403253.500 diff=-227416.2 pctdiff=-129.333 SubCortGMVol 102400.000 SupraTentVol 943733.301 (1856802.000) diff=-913068.699 pctdiff=-96.751 SupraTentVolNotVent 906351.301 (1819420.000) diff=-913068.699 pctdiff=-100.741 BrainSegVol 2130875.000 (2126469.000) diff=4406.000 pctdiff=0.207 BrainSegVolNotVent 2087714.000 (1186381.301) diff=901332.699 pctdiff=43.173 BrainSegVolNotVent 2087714.000 CerebellumVol 268149.000 VentChorVol 37382.000 3rd4th5thCSF 5779.000 CSFVol 1373.000, OptChiasmVol 145.000 MaskVol 2624308.000 2392 971 3022 2.495 0.720 0.101 0.027 40 2.7 caudalanteriorcingulate 4716 1965 5662 2.543 0.443 0.082 0.020 39 3.9 caudalmiddlefrontal 4495 1667 3710 2.048 0.447 0.097 0.028 49 5.4 cuneus 1139 462 2104 3.329 1.148 0.084 0.033 10 1.7 entorhinal 5797 2390 7631 2.696 0.651 0.093 0.024 70 6.1 fusiform 13868 5367 13809 2.331 0.460 0.086 0.027 173 16.3 inferiorparietal 9492 3811 12618 2.667 0.712 0.099 0.037 136 16.0 inferiortemporal 1867 747 1567 1.852 1.086 0.110 0.036 34 2.7 isthmuscingulate 12826 4616 11411 2.202 0.595 0.091 0.030 137 16.4 lateraloccipital 7795 3255 10505 2.711 0.622 0.106 0.036 126 12.0 lateralorbitofrontal 7057 2672 6178 2.110 0.524 0.094 0.031 76 9.6 lingual 3167 1306 4114 2.473 0.698 0.092 0.031 56 4.0 medialorbitofrontal 9642 3936 12245 2.664 0.585 0.087 0.026 117 10.6 middletemporal 1492 577 2191 3.103 0.699 0.072 0.020 9 1.2 parahippocampal 3372 1344 3469 2.390 0.388 0.075 0.015 22 2.1 paracentral 3728 1568 4655 2.644 0.489 0.087 0.023 41 3.6 parsopercularis 1794 725 2661 2.845 0.550 0.092 0.025 18 2.0 parsorbitalis 4053 1671 4788 2.554 0.473 0.093 0.023 47 4.1 parstriangularis 3887 1557 2555 1.768 0.495 0.098 0.034 45 5.9 pericalcarine 10567 3958 9237 2.131 0.447 0.072 0.018 95 7.9 postcentral 3253 1309 3366 2.245 0.634 0.100 0.027 48 4.1 posteriorcingulate 11436 4271 11943 2.567 0.463 0.072 0.020 81 9.7 precentral 8120 3336 8525 2.360 0.467 0.088 0.023 86 7.6 precuneus 2302 955 2971 2.651 0.595 0.097 0.025 38 2.5 rostralanteriorcingulate 12218 5041 13573 2.377 0.431 0.102 0.027 175 13.9 rostralmiddlefrontal 23666 9779 29508 2.550 0.521 0.094 0.026 306 27.0 superiorfrontal 10291 4060 9449 2.124 0.432 0.085 0.021 111 8.9 superiorparietal 11350 4669 14922 2.787 0.658 0.080 0.021 94 10.2 superiortemporal 7658 3091 8766 2.501 0.453 0.089 0.021 84 6.8 supramarginal 824 326 1083 2.678 0.313 0.087 0.020 7 0.6 transversetemporal 4105 1739 5583 3.104 0.715 0.093 0.038 46 6.9 insula /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/label #-------------------------------------------- #@# BA_exvivo Labels rh Wed May 26 00:15:26 UTC 2021 mri_label2label --srcsubject fsaverage --srclabel /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/fsaverage/label/rh.BA1_exvivo.label --trgsubject sub-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 1263 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.label 5225 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 1799 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.label 8486 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 618 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.label 4598 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 1026 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.label 5548 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 1539 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.label 7286 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 990 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.label 5463 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 3787 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.label 16043 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 3383 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.label 10295 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 3779 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.label 9134 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 5003 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.label 9730 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 8044 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.label 16060 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 1342 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.label 3274 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 695 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.label 1733 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 531 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.label 1283 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 354 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.thresh.label 1230 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 664 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.thresh.label 3352 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 172 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.thresh.label 1870 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 523 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.thresh.label 2706 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 293 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.thresh.label 1681 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 449 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.thresh.label 1938 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 1761 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.thresh.label 8720 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 538 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.thresh.label 1550 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 1132 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.thresh.label 2310 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 3520 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.thresh.label 6752 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 3601 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.thresh.label 7038 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 205 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.thresh.label 473 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 471 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.thresh.label 1165 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-06 --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-06 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-06/surf/rh.white Reading target registration /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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 220453 Number of reverse mapping hits = 237 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.thresh.label 528 mri_label2label: Done mris_label2annot --s sub-06 --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-06/label cmdline mris_label2annot --s sub-06 --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 blg6114.int.ets1.calculquebec.ca machine x86_64 user bpinsard subject sub-06 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-06/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 154023 unhit vertices Writing annot to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/label/rh.BA_exvivo.annot mris_label2annot --s sub-06 --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-06/label cmdline mris_label2annot --s sub-06 --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 blg6114.int.ets1.calculquebec.ca machine x86_64 user bpinsard subject sub-06 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-06/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 182869 unhit vertices Writing annot to /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/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-06 rh white computing statistics for each annotation in ./rh.BA_exvivo.annot. reading volume /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/mri/wm.mgz... reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 236022 Total vertex volume 233821 (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) = 1492006 mm^3 (det: 1.305695 ) lhCtxGM: 233674.454 460316.000 diff=-226641.5 pctdiff=-96.990 rhCtxGM: 231736.832 454865.000 diff=-223128.2 pctdiff=-96.285 lhCtxWM: 174557.758 398559.500 diff=-224001.7 pctdiff=-128.325 rhCtxWM: 175837.258 403253.500 diff=-227416.2 pctdiff=-129.333 SubCortGMVol 102400.000 SupraTentVol 943733.301 (1856802.000) diff=-913068.699 pctdiff=-96.751 SupraTentVolNotVent 906351.301 (1819420.000) diff=-913068.699 pctdiff=-100.741 BrainSegVol 2130875.000 (2126469.000) diff=4406.000 pctdiff=0.207 BrainSegVolNotVent 2087714.000 (1186381.301) diff=901332.699 pctdiff=43.173 BrainSegVolNotVent 2087714.000 CerebellumVol 268149.000 VentChorVol 37382.000 3rd4th5thCSF 5779.000 CSFVol 1373.000, OptChiasmVol 145.000 MaskVol 2624308.000 1597 480 1417 2.125 0.419 0.093 0.029 28 2.0 BA1_exvivo 5066 2000 4148 2.135 0.320 0.067 0.014 32 3.2 BA2_exvivo 1575 661 967 1.972 0.304 0.079 0.023 11 1.6 BA3a_exvivo 3012 1119 2336 1.892 0.397 0.059 0.014 17 1.8 BA3b_exvivo 2428 820 2629 2.615 0.331 0.057 0.011 10 1.2 BA4a_exvivo 1951 761 1932 2.667 0.332 0.058 0.013 7 1.1 BA4p_exvivo 12567 4909 14993 2.599 0.496 0.082 0.023 119 12.3 BA6_exvivo 5766 2425 6919 2.605 0.509 0.084 0.020 53 4.8 BA44_exvivo 7391 3051 9188 2.564 0.501 0.095 0.024 85 7.8 BA45_exvivo 6893 2631 4957 1.830 0.549 0.096 0.033 79 10.3 V1_exvivo 13139 4831 10824 2.043 0.492 0.099 0.032 148 17.7 V2_exvivo 3168 1191 3187 2.471 0.535 0.087 0.030 37 4.4 MT_exvivo 1143 452 2314 3.592 0.715 0.074 0.026 9 1.2 perirhinal_exvivo 734 284 1278 3.415 0.655 0.099 0.033 7 1.2 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-06 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-06/mri/wm.mgz... reading input surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.white... reading input pial surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.pial... reading input white surface /lustre03/project/6003287/datasets/cneuromod_processed/smriprep/sourcedata/freesurfer/sub-06/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 236022 Total vertex volume 233821 (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) = 1492006 mm^3 (det: 1.305695 ) lhCtxGM: 233674.454 460316.000 diff=-226641.5 pctdiff=-96.990 rhCtxGM: 231736.832 454865.000 diff=-223128.2 pctdiff=-96.285 lhCtxWM: 174557.758 398559.500 diff=-224001.7 pctdiff=-128.325 rhCtxWM: 175837.258 403253.500 diff=-227416.2 pctdiff=-129.333 SubCortGMVol 102400.000 SupraTentVol 943733.301 (1856802.000) diff=-913068.699 pctdiff=-96.751 SupraTentVolNotVent 906351.301 (1819420.000) diff=-913068.699 pctdiff=-100.741 BrainSegVol 2130875.000 (2126469.000) diff=4406.000 pctdiff=0.207 BrainSegVolNotVent 2087714.000 (1186381.301) diff=901332.699 pctdiff=43.173 BrainSegVolNotVent 2087714.000 CerebellumVol 268149.000 VentChorVol 37382.000 3rd4th5thCSF 5779.000 CSFVol 1373.000, OptChiasmVol 145.000 MaskVol 2624308.000 1120 335 888 1.933 0.348 0.088 0.029 15 1.4 BA1_exvivo 2935 1117 2630 2.214 0.256 0.059 0.012 18 1.8 BA2_exvivo 1422 610 847 1.983 0.337 0.083 0.024 10 1.6 BA3a_exvivo 2361 920 1660 1.783 0.287 0.049 0.010 8 0.9 BA3b_exvivo 1440 464 1463 2.553 0.339 0.057 0.013 6 0.8 BA4a_exvivo 1684 652 1658 2.709 0.305 0.057 0.013 6 0.8 BA4p_exvivo 7656 2970 9335 2.618 0.471 0.081 0.022 69 6.9 BA6_exvivo 1494 625 2008 2.590 0.490 0.083 0.017 18 1.1 BA44_exvivo 2298 920 3240 2.693 0.408 0.100 0.026 31 2.7 BA45_exvivo 6584 2543 4694 1.826 0.546 0.097 0.033 76 9.9 V1_exvivo 6909 2520 5207 1.895 0.491 0.111 0.037 92 11.2 V2_exvivo 468 151 491 2.735 0.401 0.066 0.019 4 0.3 MT_exvivo 694 278 1527 3.656 0.704 0.073 0.024 4 0.9 perirhinal_exvivo 519 210 841 3.325 0.643 0.097 0.036 5 0.9 entorhinal_exvivo Started at Wed May 26 00:10:57 UTC 2021 Ended at Wed May 26 00:21:13 UTC 2021 #@#%# recon-all-run-time-hours 0.171 recon-all -s sub-06 finished without error at Wed May 26 00:21:13 UTC 2021