Sat Oct 7 18:45:48 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all -subjid 0050184 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/SDSU/0050184/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2 subjid 0050184 setenv SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Actual FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 build-stamp.txt: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c Linux tars-555 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 10240 kbytes coredumpsize 0 kbytes memoryuse 10485760 kbytes vmemoryuse unlimited descriptors 65536 memorylocked 64 kbytes maxproc 1024 total used free shared buffers cached Mem: 65993860 65719592 274268 1762728 0 54206804 -/+ buffers/cache: 11512788 54481072 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: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.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: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: tkregister2.c,v 1.132.2.1 2016/08/02 21:17:29 greve Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.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: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_normalize.c,v 1.88.2.3 2016/12/27 16:47:13 zkaufman Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_watershed.cpp,v 1.103 2016/06/17 18:00:49 zkaufman Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_segment.c,v 1.43.2.1 2016/10/27 22:24:52 zkaufman Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_label2label.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_label2label.c,v 1.48.2.2 2016/12/12 14:15:26 zkaufman Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_em_register.c,v 1.105.2.1 2016/10/27 22:25:10 zkaufman Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_ca_normalize.c,v 1.67.2.2 2016/10/27 22:25:09 zkaufman Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_ca_register.c,v 1.96.2.3 2016/10/27 22:25:10 zkaufman Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_ca_label.c,v 1.113.2.2 2016/10/27 22:25:10 zkaufman Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_pretess ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_pretess.c,v 1.22 2013/08/30 18:12:25 mreuter Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_fill.c,v 1.119 2011/10/25 14:09:58 fischl Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_concatenate_lta.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_concatenate_lta.c,v 1.16 2015/11/21 00:06:20 greve Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_smooth.c,v 1.30 2014/01/21 18:48:21 fischl Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_inflate ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_inflate.c,v 1.45 2016/01/20 23:42:15 greve Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_euler_number.c,v 1.10 2013/01/14 22:39:14 greve Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_volmask ProgramArguments: --all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_volmask.cpp,v 1.26.2.2 2016/11/18 20:05:18 zkaufman Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mrisp_paint.c,v 1.12 2016/03/22 14:47:57 fischl Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_curvature_stats.c,v 1.65 2015/06/04 20:50:51 nicks Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mris_calc.c,v 1.54.2.1 2016/09/27 18:51:28 greve Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.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: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.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: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_or.c,v 1.5 2013/03/20 15:03:29 lzollei Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ProgramName: mri_relabel_hypointensities ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-16:45:48-GMT BuildTimeStamp: Jan 18 2017 16:38:58 CVS: $Id: mri_relabel_hypointensities.c,v 1.13 2015/05/15 18:44:10 nicks Exp $ User: ntraut Machine: tars-555 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400 ####################################### GCADIR /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ####################################### /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184 mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/SDSU/0050184/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig/001.mgz mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/SDSU/0050184/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig/001.mgz $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ reading from /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/SDSU/0050184/session_1/anat_1/mprage.nii.gz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -0, 0) j_ras = (-0, 1, 0) k_ras = (-0, -0, 1) writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig/001.mgz... #-------------------------------------------- #@# MotionCor Sat Oct 7 18:45:51 CEST 2017 Found 1 runs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig/001.mgz Checking for (invalid) multi-frame inputs... WARNING: only one run found. This is OK, but motion correction cannot be performed on one run, so I'll copy the run to rawavg and continue. cp /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184 mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig.mgz --conform mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig.mgz --conform $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ reading from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, -0, 0) j_ras = (-0, 1, 0) k_ras = (-0, -0, 1) changing data type from short to uchar (noscale = 0)... MRIchangeType: Building histogram Reslicing using trilinear interpolation writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig.mgz... mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig.mgz INFO: extension is mgz #-------------------------------------------- #@# Talairach Sat Oct 7 18:46:02 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --n 1 --proto-iters 1000 --distance 50 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/mri_nu_correct.mni --no-rescale --i orig.mgz --o orig_nu.mgz --n 1 --proto-iters 1000 --distance 50 nIters 1 $Id: mri_nu_correct.mni,v 1.27 2016/02/26 16:19:49 mreuter Exp $ Linux tars-555 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux Sat Oct 7 18:46:02 CEST 2017 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 /usr/bin/bc tmpdir is ./tmp.mri_nu_correct.mni.26933 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_convert orig.mgz ./tmp.mri_nu_correct.mni.26933/nu0.mnc -odt float mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.26933/nu0.mnc -odt float $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ reading from orig.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) changing data type from uchar to float (noscale = 0)... writing to ./tmp.mri_nu_correct.mni.26933/nu0.mnc... -------------------------------------------------------- Iteration 1 Sat Oct 7 18:46:06 CEST 2017 nu_correct -clobber ./tmp.mri_nu_correct.mni.26933/nu0.mnc ./tmp.mri_nu_correct.mni.26933/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.26933/0/ -iterations 1000 -distance 50 [ntraut@tars-555:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/] [2017-10-07 18:46:06] running: /pasteur/homes/ntraut/bin/freesurfer-6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 1000 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 50 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.26933/0/ ./tmp.mri_nu_correct.mni.26933/nu0.mnc ./tmp.mri_nu_correct.mni.26933/nu1.imp 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Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Number of iterations: 76 CV of field change: 0.000999319 mri_convert ./tmp.mri_nu_correct.mni.26933/nu1.mnc orig_nu.mgz --like orig.mgz --conform mri_convert.bin ./tmp.mri_nu_correct.mni.26933/nu1.mnc orig_nu.mgz --like orig.mgz --conform $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ reading from ./tmp.mri_nu_correct.mni.26933/nu1.mnc... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) INFO: transform src into the like-volume: orig.mgz changing data type from float to uchar (noscale = 0)... MRIchangeType: Building histogram writing to orig_nu.mgz... Sat Oct 7 18:47:58 CEST 2017 mri_nu_correct.mni done talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm talairach_avi log file is transforms/talairach_avi.log... Started at Sat Oct 7 18:47:58 CEST 2017 Ended at Sat Oct 7 18:49:00 CEST 2017 talairach_avi done cp transforms/talairach.auto.xfm transforms/talairach.xfm #-------------------------------------------- #@# Talairach Failure Detection Sat Oct 7 18:49:02 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri talairach_afd -T 0.005 -xfm transforms/talairach.xfm talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.6680, pval=0.3663 >= threshold=0.0050) awk -f /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/extract_talairach_avi_QA.awk /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/transforms/talairach_avi.log tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/transforms/talairach_avi.log TalAviQA: 0.97416 z-score: 0 #-------------------------------------------- #@# Nu Intensity Correction Sat Oct 7 18:49:02 CEST 2017 mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2 nIters 2 $Id: mri_nu_correct.mni,v 1.27 2016/02/26 16:19:49 mreuter Exp $ Linux tars-555 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux Sat Oct 7 18:49:02 CEST 2017 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 /usr/bin/bc tmpdir is ./tmp.mri_nu_correct.mni.28170 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_convert orig.mgz ./tmp.mri_nu_correct.mni.28170/nu0.mnc -odt float mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.28170/nu0.mnc -odt float $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ reading from orig.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) changing data type from uchar to float (noscale = 0)... writing to ./tmp.mri_nu_correct.mni.28170/nu0.mnc... -------------------------------------------------------- Iteration 1 Sat Oct 7 18:49:06 CEST 2017 nu_correct -clobber ./tmp.mri_nu_correct.mni.28170/nu0.mnc ./tmp.mri_nu_correct.mni.28170/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.28170/0/ [ntraut@tars-555:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/] [2017-10-07 18:49:06] running: /pasteur/homes/ntraut/bin/freesurfer-6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 50 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.28170/0/ ./tmp.mri_nu_correct.mni.28170/nu0.mnc ./tmp.mri_nu_correct.mni.28170/nu1.imp Processing:.................................................................Done 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Processing:.................................................................Done Number of iterations: 50 CV of field change: 0.00133684 -------------------------------------------------------- Iteration 2 Sat Oct 7 18:50:12 CEST 2017 nu_correct -clobber ./tmp.mri_nu_correct.mni.28170/nu1.mnc ./tmp.mri_nu_correct.mni.28170/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.28170/1/ [ntraut@tars-555:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/] [2017-10-07 18:50:12] running: /pasteur/homes/ntraut/bin/freesurfer-6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 50 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.28170/1/ ./tmp.mri_nu_correct.mni.28170/nu1.mnc ./tmp.mri_nu_correct.mni.28170/nu2.imp Processing:.................................................................Done 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Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Processing:.................................................................Done Number of iterations: 43 CV of field change: 0.00099142 mri_binarize --i ./tmp.mri_nu_correct.mni.28170/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.28170/ones.mgz $Id: mri_binarize.c,v 1.43 2016/06/09 20:46:21 greve Exp $ cwd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.28170/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.28170/ones.mgz sysname Linux hostname tars-555 machine x86_64 user ntraut input ./tmp.mri_nu_correct.mni.28170/nu2.mnc frame 0 nErode3d 0 nErode2d 0 output ./tmp.mri_nu_correct.mni.28170/ones.mgz Binarizing based on threshold min -1 max +infinity binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Found 16777216 values in range Counting number of voxels in first frame Found 16777216 voxels in final mask Count: 16777216 16777216.000000 16777216 100.000000 mri_binarize done mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.28170/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.28170/sum.junk --avgwf ./tmp.mri_nu_correct.mni.28170/input.mean.dat $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ cwd cmdline mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.28170/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.28170/sum.junk --avgwf ./tmp.mri_nu_correct.mni.28170/input.mean.dat sysname Linux hostname tars-555 machine x86_64 user ntraut UseRobust 0 Loading ./tmp.mri_nu_correct.mni.28170/ones.mgz Loading orig.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 1 segmentations Computing statistics for each segmentation Reporting on 1 segmentations Using PrintSegStat Computing spatial average of each frame 0 Writing to ./tmp.mri_nu_correct.mni.28170/input.mean.dat mri_segstats done mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.28170/ones.mgz --i ./tmp.mri_nu_correct.mni.28170/nu2.mnc --sum ./tmp.mri_nu_correct.mni.28170/sum.junk --avgwf ./tmp.mri_nu_correct.mni.28170/output.mean.dat $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ cwd cmdline mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.28170/ones.mgz --i ./tmp.mri_nu_correct.mni.28170/nu2.mnc --sum ./tmp.mri_nu_correct.mni.28170/sum.junk --avgwf ./tmp.mri_nu_correct.mni.28170/output.mean.dat sysname Linux hostname tars-555 machine x86_64 user ntraut UseRobust 0 Loading ./tmp.mri_nu_correct.mni.28170/ones.mgz Loading ./tmp.mri_nu_correct.mni.28170/nu2.mnc Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 1 segmentations Computing statistics for each segmentation Reporting on 1 segmentations Using PrintSegStat Computing spatial average of each frame 0 Writing to ./tmp.mri_nu_correct.mni.28170/output.mean.dat mri_segstats done mris_calc -o ./tmp.mri_nu_correct.mni.28170/nu2.mnc ./tmp.mri_nu_correct.mni.28170/nu2.mnc mul 1.04055240595368683110 Saving result to './tmp.mri_nu_correct.mni.28170/nu2.mnc' (type = MINC ) [ ok ] mri_convert ./tmp.mri_nu_correct.mni.28170/nu2.mnc nu.mgz --like orig.mgz mri_convert.bin ./tmp.mri_nu_correct.mni.28170/nu2.mnc nu.mgz --like orig.mgz $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $ reading from ./tmp.mri_nu_correct.mni.28170/nu2.mnc... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) INFO: transform src into the like-volume: orig.mgz writing to nu.mgz... mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz type change took 0 minutes and 9 seconds. mapping ( 2, 92) to ( 3, 110) Sat Oct 7 18:52:16 CEST 2017 mri_nu_correct.mni done mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/transforms/talairach.xfm nu.mgz nu.mgz INFO: extension is mgz #-------------------------------------------- #@# Intensity Normalization Sat Oct 7 18:52:17 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_normalize -g 1 -mprage nu.mgz T1.mgz using max gradient = 1.000 assuming input volume is MGH (Van der Kouwe) MP-RAGE reading from nu.mgz... normalizing image... talairach transform 0.98431 -0.00075 -0.00842 -2.60933; 0.00076 0.93391 0.23857 -23.06819; -0.01376 -0.23111 1.03528 21.36047; 0.00000 0.00000 0.00000 1.00000; processing without aseg, no1d=0 MRInormInit(): INFO: Modifying talairach volume c_(r,a,s) based on average_305 MRInormalize(): MRIsplineNormalize(): npeaks = 15 Starting OpenSpline(): npoints = 15 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Iterating 2 times --------------------------------- 3d normalization pass 1 of 2 white matter peak found at 110 white matter peak found at 103 gm peak at 68 (68), valley at 34 (34) csf peak at 34, setting threshold to 56 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... --------------------------------- 3d normalization pass 2 of 2 white matter peak found at 110 white matter peak found at 110 gm peak at 64 (64), valley at 31 (31) csf peak at 33, setting threshold to 53 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to T1.mgz 3D bias adjustment took 2 minutes and 13 seconds. #-------------------------------------------- #@# Skull Stripping Sat Oct 7 18:54:31 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mri_em_register.skull.dat -skull nu.mgz /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta aligning to atlas containing skull, setting unknown_nbr_spacing = 5 == Number of threads available to mri_em_register for OpenMP = 2 == reading 1 input volumes... logging results to talairach_with_skull.log reading '/pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca'... average std = 22.9 using min determinant for regularization = 52.6 0 singular and 9002 ill-conditioned covariance matrices regularized reading 'nu.mgz'... freeing gibbs priors...done. accounting for voxel sizes in initial transform bounding unknown intensity as < 8.7 or > 569.1 total sample mean = 77.6 (1399 zeros) ************************************************ spacing=8, using 3243 sample points, tol=1.00e-05... ************************************************ register_mri: find_optimal_transform find_optimal_transform: nsamples 3243, passno 0, spacing 8 resetting wm mean[0]: 100 --> 108 resetting gm mean[0]: 61 --> 61 input volume #1 is the most T1-like using real data threshold=9.0 skull bounding box = (41, 19, 19) --> (213, 182, 238) using (98, 73, 129) as brain centroid... mean wm in atlas = 108, using box (77,53,102) --> (119, 93,156) to find MRI wm before smoothing, mri peak at 99 robust fit to distribution - 102 +- 9.8 distribution too broad for accurate scaling - disabling after smoothing, mri peak at 108, scaling input intensities by 1.000 scaling channel 0 by 1 initial log_p = -4.498 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.309348 @ (-9.091, 9.091, -27.273) max log p = -4.124539 @ (4.545, 4.545, 4.545) max log p = -4.089582 @ (2.273, -2.273, 6.818) max log p = -4.071950 @ (-1.136, 1.136, -3.409) max log p = -4.039015 @ (1.705, 0.568, 0.568) max log p = -4.039015 @ (0.000, 0.000, 0.000) Found translation: (-1.7, 13.1, -18.8): log p = -4.039 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.917, old_max_log_p =-4.039 (thresh=-4.0) 1.00000 0.00000 0.00000 -1.70455; 0.00000 1.03837 0.27823 -20.46469; 0.00000 -0.27823 1.03837 12.19563; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.887, old_max_log_p =-3.917 (thresh=-3.9) 1.00000 0.00000 0.00000 -1.70455; 0.00000 1.11625 0.29910 -32.66261; 0.00000 -0.25736 0.96049 19.60020; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 2 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.887, old_max_log_p =-3.887 (thresh=-3.9) 1.00000 0.00000 0.00000 -1.70455; 0.00000 1.11625 0.29910 -32.66261; 0.00000 -0.25736 0.96049 19.60020; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 **************************************** Nine parameter search. iteration 3 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.847, old_max_log_p =-3.887 (thresh=-3.9) 1.01750 0.03628 0.00764 -9.33657; -0.03331 1.10828 0.23341 -19.07110; 0.00000 -0.17744 0.95972 11.79417; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.839, old_max_log_p =-3.847 (thresh=-3.8) 1.03599 -0.02945 -0.04152 0.71170; 0.03267 1.08168 0.25766 -29.08694; 0.03374 -0.20833 0.93347 12.74713; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 5 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.834, old_max_log_p =-3.839 (thresh=-3.8) 1.01761 -0.00219 -0.00179 -5.39724; -0.00018 1.07493 0.28827 -27.95473; -0.00129 -0.24706 0.94276 20.85762; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 6 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.834, old_max_log_p =-3.834 (thresh=-3.8) 1.01761 -0.00219 -0.00179 -5.39724; -0.00018 1.07493 0.28827 -27.95473; -0.00129 -0.24706 0.94276 20.85762; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 **************************************** Nine parameter search. iteration 7 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.801, old_max_log_p =-3.834 (thresh=-3.8) 1.01757 0.00665 0.00045 -6.30698; -0.00847 1.08007 0.27313 -25.58531; -0.00129 -0.22998 0.94957 17.86847; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 8 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.801, old_max_log_p =-3.801 (thresh=-3.8) 1.01757 0.00665 0.00045 -6.30698; -0.00847 1.08007 0.27313 -25.58531; -0.00129 -0.22998 0.94957 17.86847; 0.00000 0.00000 0.00000 1.00000; min search scale 0.025000 reached *********************************************** Computing MAP estimate using 3243 samples... *********************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-05 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 1.01757 0.00665 0.00045 -6.30698; -0.00847 1.08007 0.27313 -25.58531; -0.00129 -0.22998 0.94957 17.86847; 0.00000 0.00000 0.00000 1.00000; nsamples 3243 Quasinewton: input matrix 1.01757 0.00665 0.00045 -6.30698; -0.00847 1.08007 0.27313 -25.58531; -0.00129 -0.22998 0.94957 17.86847; 0.00000 0.00000 0.00000 1.00000; outof QuasiNewtonEMA: 011: -log(p) = -0.0 tol 0.000010 Resulting transform: 1.01757 0.00665 0.00045 -6.30698; -0.00847 1.08007 0.27313 -25.58531; -0.00129 -0.22998 0.94957 17.86847; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -3.801 (old=-4.498) transform before final EM align: 1.01757 0.00665 0.00045 -6.30698; -0.00847 1.08007 0.27313 -25.58531; -0.00129 -0.22998 0.94957 17.86847; 0.00000 0.00000 0.00000 1.00000; ************************************************** EM alignment process ... Computing final MAP estimate using 364799 samples. ************************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-07 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 1.01757 0.00665 0.00045 -6.30698; -0.00847 1.08007 0.27313 -25.58531; -0.00129 -0.22998 0.94957 17.86847; 0.00000 0.00000 0.00000 1.00000; nsamples 364799 Quasinewton: input matrix 1.01757 0.00665 0.00045 -6.30698; -0.00847 1.08007 0.27313 -25.58531; -0.00129 -0.22998 0.94957 17.86847; 0.00000 0.00000 0.00000 1.00000; outof QuasiNewtonEMA: 013: -log(p) = 4.3 tol 0.000000 final transform: 1.01757 0.00665 0.00045 -6.30698; -0.00847 1.08007 0.27313 -25.58531; -0.00129 -0.22998 0.94957 17.86847; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach_with_skull.lta... mri_em_register utimesec 2025.949008 mri_em_register stimesec 1.648749 mri_em_register ru_maxrss 609824 mri_em_register ru_ixrss 0 mri_em_register ru_idrss 0 mri_em_register ru_isrss 0 mri_em_register ru_minflt 157574 mri_em_register ru_majflt 0 mri_em_register ru_nswap 0 mri_em_register ru_inblock 0 mri_em_register ru_oublock 32 mri_em_register ru_msgsnd 0 mri_em_register ru_msgrcv 0 mri_em_register ru_nsignals 0 mri_em_register ru_nvcsw 82 mri_em_register ru_nivcsw 6444 registration took 17 minutes and 21 seconds. mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mri_watershed.dat -T1 -brain_atlas /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz Mode: T1 normalized volume Mode: Use the information of atlas (default parms, --help for details) ********************************************************* The input file is T1.mgz The output file is brainmask.auto.mgz Weighting the input with atlas information before watershed *************************WATERSHED************************** Sorting... first estimation of the COG coord: x=136 y=96 z=120 r=75 first estimation of the main basin volume: 1821999 voxels Looking for seedpoints 2 found in the cerebellum 18 found in the rest of the brain global maximum in x=101, y=93, z=87, Imax=255 CSF=17, WM_intensity=110, WM_VARIANCE=5 WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110 preflooding height equal to 10 percent done. Analyze... main basin size=9436720963 voxels, voxel volume =1.000 = 9436720963 mmm3 = 9436721.152 cm3 done. PostAnalyze...Basin Prior 84 basins merged thanks to atlas ***** 0 basin(s) merged in 1 iteration(s) ***** 0 voxel(s) added to the main basin done. Weighting the input with prior template ****************TEMPLATE DEFORMATION**************** second estimation of the COG coord: x=128,y=105, z=118, r=10967 iterations ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^ GLOBAL CSF_MIN=0, CSF_intensity=9, CSF_MAX=50 , nb = 45568 RIGHT_CER CSF_MIN=0, CSF_intensity=8, CSF_MAX=39 , nb = -1028897749 LEFT_CER CSF_MIN=0, CSF_intensity=8, CSF_MAX=40 , nb = 1087512728 RIGHT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=52 , nb = 1077836325 LEFT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=49 , nb = 1076550464 OTHER CSF_MIN=0, CSF_intensity=23, CSF_MAX=39 , nb = 1078382326 CSF_MAX TRANSITION GM_MIN GM GLOBAL before analyzing : 50, 43, 40, 59 after analyzing : 33, 43, 43, 47 RIGHT_CER before analyzing : 39, 39, 40, 65 after analyzing : 31, 39, 40, 45 LEFT_CER before analyzing : 40, 40, 40, 59 after analyzing : 30, 40, 40, 44 RIGHT_BRAIN before analyzing : 52, 43, 41, 57 after analyzing : 34, 43, 43, 46 LEFT_BRAIN before analyzing : 49, 43, 40, 60 after analyzing : 33, 43, 43, 47 OTHER before analyzing : 39, 57, 78, 95 after analyzing : 39, 71, 78, 77 mri_strip_skull: done peeling brain highly tesselated surface with 10242 vertices matching...73 iterations *********************VALIDATION********************* curvature mean = -0.012, std = 0.012 curvature mean = 73.435, std = 8.634 No Rigid alignment: -atlas Mode Off (basic atlas / no registration) before rotation: sse = 1.99, sigma = 2.98 after rotation: sse = 1.99, sigma = 2.98 Localization of inacurate regions: Erosion-Dilation steps the sse mean is 1.99, its var is 2.37 before Erosion-Dilatation 0.00% of inacurate vertices after Erosion-Dilatation 0.00% of inacurate vertices Validation of the shape of the surface done. Scaling of atlas fields onto current surface fields ********FINAL ITERATIVE TEMPLATE DEFORMATION******** Compute Local values csf/gray Fine Segmentation...45 iterations mri_strip_skull: done peeling brain Brain Size = 1937511 voxels, voxel volume = 1.000 mm3 = 1937511 mmm3 = 1937.511 cm3 ****************************** Saving brainmask.auto.mgz done mri_watershed utimesec 27.060886 mri_watershed stimesec 0.462929 mri_watershed ru_maxrss 831880 mri_watershed ru_ixrss 0 mri_watershed ru_idrss 0 mri_watershed ru_isrss 0 mri_watershed ru_minflt 215302 mri_watershed ru_majflt 0 mri_watershed ru_nswap 0 mri_watershed ru_inblock 0 mri_watershed ru_oublock 3336 mri_watershed ru_msgsnd 0 mri_watershed ru_msgrcv 0 mri_watershed ru_nsignals 0 mri_watershed ru_nvcsw 1689 mri_watershed ru_nivcsw 112 mri_watershed done cp brainmask.auto.mgz brainmask.mgz #------------------------------------- #@# EM Registration Sat Oct 7 19:12:18 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mri_em_register.dat -uns 3 -mask brainmask.mgz nu.mgz /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca transforms/talairach.lta setting unknown_nbr_spacing = 3 using MR volume brainmask.mgz to mask input volume... == Number of threads available to mri_em_register for OpenMP = 2 == reading 1 input volumes... logging results to talairach.log reading '/pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca'... average std = 7.3 using min determinant for regularization = 5.3 0 singular and 841 ill-conditioned covariance matrices regularized reading 'nu.mgz'... freeing gibbs priors...done. accounting for voxel sizes in initial transform bounding unknown intensity as < 6.3 or > 503.7 total sample mean = 78.8 (1011 zeros) ************************************************ spacing=8, using 2830 sample points, tol=1.00e-05... ************************************************ register_mri: find_optimal_transform find_optimal_transform: nsamples 2830, passno 0, spacing 8 resetting wm mean[0]: 98 --> 107 resetting gm mean[0]: 61 --> 61 input volume #1 is the most T1-like using real data threshold=27.0 skull bounding box = (56, 36, 38) --> (200, 182, 210) using (104, 85, 124) as brain centroid... mean wm in atlas = 107, using box (86,67,103) --> (121, 102,145) to find MRI wm before smoothing, mri peak at 105 robust fit to distribution - 103 +- 9.9 distribution too broad for accurate scaling - disabling after smoothing, mri peak at 107, scaling input intensities by 1.000 scaling channel 0 by 1 initial log_p = -4.440 ************************************************ First Search limited to translation only. ************************************************ max log p = -4.130618 @ (-9.091, 9.091, -9.091) max log p = -3.922699 @ (4.545, 4.545, -4.545) max log p = -3.922281 @ (2.273, -2.273, 2.273) max log p = -3.866064 @ (-1.136, 5.682, -3.409) max log p = -3.846840 @ (-0.568, -0.568, -0.568) max log p = -3.846840 @ (0.000, 0.000, 0.000) Found translation: (-4.0, 16.5, -15.3): log p = -3.847 **************************************** Nine parameter search. iteration 0 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.695, old_max_log_p =-3.847 (thresh=-3.8) 1.00000 0.00000 0.00000 -3.97727; 0.00000 1.03837 0.27823 -21.07383; 0.00000 -0.23941 0.89348 29.63912; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 1 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.659, old_max_log_p =-3.695 (thresh=-3.7) 1.00000 0.00000 0.00000 -3.97727; 0.00000 1.06074 0.15923 -9.97843; 0.00000 -0.10182 0.92215 4.46649; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 2 nscales = 0 ... **************************************** Result so far: scale 1.000: max_log_p=-3.659, old_max_log_p =-3.659 (thresh=-3.7) 1.00000 0.00000 0.00000 -3.97727; 0.00000 1.06074 0.15923 -9.97843; 0.00000 -0.10182 0.92215 4.46649; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.2500 **************************************** Nine parameter search. iteration 3 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.554, old_max_log_p =-3.659 (thresh=-3.7) 0.98002 -0.03485 -0.00829 3.25627; 0.03090 1.02549 0.24405 -20.74267; 0.00000 -0.20530 0.90211 21.37124; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 4 nscales = 1 ... **************************************** Result so far: scale 0.250: max_log_p=-3.554, old_max_log_p =-3.554 (thresh=-3.6) 0.98002 -0.03485 -0.00829 3.25627; 0.03090 1.02549 0.24405 -20.74267; 0.00000 -0.20530 0.90211 21.37124; 0.00000 0.00000 0.00000 1.00000; reducing scale to 0.0625 **************************************** Nine parameter search. iteration 5 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.518, old_max_log_p =-3.554 (thresh=-3.6) 0.98385 -0.01813 -0.00432 0.53916; 0.01491 1.03118 0.23763 -18.02869; 0.00012 -0.19640 0.90196 20.43950; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 6 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.513, old_max_log_p =-3.518 (thresh=-3.5) 0.98385 -0.01813 -0.00432 0.53916; 0.01497 1.03481 0.23847 -18.51182; 0.00012 -0.19663 0.90302 20.33989; 0.00000 0.00000 0.00000 1.00000; **************************************** Nine parameter search. iteration 7 nscales = 2 ... **************************************** Result so far: scale 0.062: max_log_p=-3.513, old_max_log_p =-3.513 (thresh=-3.5) 0.98385 -0.01813 -0.00432 0.53916; 0.01497 1.03481 0.23847 -18.51182; 0.00012 -0.19663 0.90302 20.33989; 0.00000 0.00000 0.00000 1.00000; min search scale 0.025000 reached *********************************************** Computing MAP estimate using 2830 samples... *********************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-05 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.98385 -0.01813 -0.00432 0.53916; 0.01497 1.03481 0.23847 -18.51182; 0.00012 -0.19663 0.90302 20.33989; 0.00000 0.00000 0.00000 1.00000; nsamples 2830 Quasinewton: input matrix 0.98385 -0.01813 -0.00432 0.53916; 0.01497 1.03481 0.23847 -18.51182; 0.00012 -0.19663 0.90302 20.33989; 0.00000 0.00000 0.00000 1.00000; outof QuasiNewtonEMA: 010: -log(p) = -0.0 tol 0.000010 Resulting transform: 0.98385 -0.01813 -0.00432 0.53916; 0.01497 1.03481 0.23847 -18.51182; 0.00012 -0.19663 0.90302 20.33989; 0.00000 0.00000 0.00000 1.00000; pass 1, spacing 8: log(p) = -3.513 (old=-4.440) transform before final EM align: 0.98385 -0.01813 -0.00432 0.53916; 0.01497 1.03481 0.23847 -18.51182; 0.00012 -0.19663 0.90302 20.33989; 0.00000 0.00000 0.00000 1.00000; ************************************************** EM alignment process ... Computing final MAP estimate using 315557 samples. ************************************************** dt = 5.00e-06, momentum=0.80, tol=1.00e-07 l_intensity = 1.0000 Aligning input volume to GCA... Transform matrix 0.98385 -0.01813 -0.00432 0.53916; 0.01497 1.03481 0.23847 -18.51182; 0.00012 -0.19663 0.90302 20.33989; 0.00000 0.00000 0.00000 1.00000; nsamples 315557 Quasinewton: input matrix 0.98385 -0.01813 -0.00432 0.53916; 0.01497 1.03481 0.23847 -18.51182; 0.00012 -0.19663 0.90302 20.33989; 0.00000 0.00000 0.00000 1.00000; outof QuasiNewtonEMA: 012: -log(p) = 4.0 tol 0.000000 final transform: 0.98385 -0.01813 -0.00432 0.53916; 0.01497 1.03481 0.23847 -18.51182; 0.00012 -0.19663 0.90302 20.33989; 0.00000 0.00000 0.00000 1.00000; writing output transformation to transforms/talairach.lta... mri_em_register utimesec 1276.914879 mri_em_register stimesec 1.379790 mri_em_register ru_maxrss 599052 mri_em_register ru_ixrss 0 mri_em_register ru_idrss 0 mri_em_register ru_isrss 0 mri_em_register ru_minflt 159501 mri_em_register ru_majflt 0 mri_em_register ru_nswap 0 mri_em_register ru_inblock 0 mri_em_register ru_oublock 24 mri_em_register ru_msgsnd 0 mri_em_register ru_msgrcv 0 mri_em_register ru_nsignals 0 mri_em_register ru_nvcsw 132 mri_em_register ru_nivcsw 3684 registration took 10 minutes and 55 seconds. #-------------------------------------- #@# CA Normalize Sat Oct 7 19:23:13 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_ca_normalize -c ctrl_pts.mgz -mask brainmask.mgz nu.mgz /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca transforms/talairach.lta norm.mgz writing control point volume to ctrl_pts.mgz using MR volume brainmask.mgz to mask input volume... reading 1 input volume reading atlas from '/pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca'... reading transform from 'transforms/talairach.lta'... reading input volume from nu.mgz... resetting wm mean[0]: 98 --> 107 resetting gm mean[0]: 61 --> 61 input volume #1 is the most T1-like using real data threshold=27.0 skull bounding box = (56, 36, 38) --> (200, 182, 210) using (104, 85, 124) as brain centroid... mean wm in atlas = 107, using box (86,67,103) --> (121, 102,145) to find MRI wm before smoothing, mri peak at 105 robust fit to distribution - 103 +- 9.9 distribution too broad for accurate scaling - disabling after smoothing, mri peak at 107, scaling input intensities by 1.000 scaling channel 0 by 1 using 246344 sample points... INFO: compute sample coordinates transform 0.98385 -0.01813 -0.00432 0.53916; 0.01497 1.03481 0.23847 -18.51182; 0.00012 -0.19663 0.90302 20.33989; 0.00000 0.00000 0.00000 1.00000; INFO: transform used finding control points in Left_Cerebral_White_Matter.... found 39915 control points for structure... bounding box (130, 41, 34) --> (197, 153, 212) Left_Cerebral_White_Matter: limiting intensities to 113.0 --> 132.0 1 of 13 (7.7%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39557 control points for structure... bounding box (65, 41, 33) --> (132, 149, 213) Right_Cerebral_White_Matter: limiting intensities to 109.0 --> 132.0 0 of 8 (0.0%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3059 control points for structure... bounding box (132, 129, 64) --> (182, 169, 123) Left_Cerebellum_White_Matter: limiting intensities to 108.0 --> 132.0 15 of 20 (75.0%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2705 control points for structure... bounding box (86, 129, 62) --> (131, 168, 124) Right_Cerebellum_White_Matter: limiting intensities to 102.0 --> 132.0 1 of 19 (5.3%) samples deleted finding control points in Brain_Stem.... found 3518 control points for structure... bounding box (114, 115, 103) --> (149, 182, 135) Brain_Stem: limiting intensities to 88.0 --> 132.0 0 of 22 (0.0%) samples deleted using 82 total control points for intensity normalization... bias field = 0.845 +- 0.073 0 of 65 control points discarded finding control points in Left_Cerebral_White_Matter.... found 39915 control points for structure... bounding box (130, 41, 34) --> (197, 153, 212) Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 6 of 123 (4.9%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39557 control points for structure... bounding box (65, 41, 33) --> (132, 149, 213) Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 3 of 105 (2.9%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3059 control points for structure... bounding box (132, 129, 64) --> (182, 169, 123) Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 48 of 58 (82.8%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2705 control points for structure... bounding box (86, 129, 62) --> (131, 168, 124) Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 11 of 30 (36.7%) samples deleted finding control points in Brain_Stem.... found 3518 control points for structure... bounding box (114, 115, 103) --> (149, 182, 135) Brain_Stem: limiting intensities to 88.0 --> 132.0 57 of 71 (80.3%) samples deleted using 387 total control points for intensity normalization... bias field = 1.042 +- 0.089 0 of 262 control points discarded finding control points in Left_Cerebral_White_Matter.... found 39915 control points for structure... bounding box (130, 41, 34) --> (197, 153, 212) Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 1 of 171 (0.6%) samples deleted finding control points in Right_Cerebral_White_Matter.... found 39557 control points for structure... bounding box (65, 41, 33) --> (132, 149, 213) Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0 3 of 181 (1.7%) samples deleted finding control points in Left_Cerebellum_White_Matter.... found 3059 control points for structure... bounding box (132, 129, 64) --> (182, 169, 123) Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 64 of 69 (92.8%) samples deleted finding control points in Right_Cerebellum_White_Matter.... found 2705 control points for structure... bounding box (86, 129, 62) --> (131, 168, 124) Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0 14 of 41 (34.1%) samples deleted finding control points in Brain_Stem.... found 3518 control points for structure... bounding box (114, 115, 103) --> (149, 182, 135) Brain_Stem: limiting intensities to 88.0 --> 132.0 133 of 159 (83.6%) samples deleted using 621 total control points for intensity normalization... bias field = 1.008 +- 0.067 0 of 404 control points discarded writing normalized volume to norm.mgz... writing control points to ctrl_pts.mgz freeing GCA...done. normalization took 1 minutes and 49 seconds. #-------------------------------------- #@# CA Reg Sat Oct 7 19:25:03 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mri_ca_register.dat -nobigventricles -T transforms/talairach.lta -align-after -mask brainmask.mgz norm.mgz /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca transforms/talairach.m3z not handling expanded ventricles... using previously computed transform transforms/talairach.lta renormalizing sequences with structure alignment, equivalent to: -renormalize -regularize_mean 0.500 -regularize 0.500 using MR volume brainmask.mgz to mask input volume... == Number of threads available to mri_ca_register for OpenMP = 2 == reading 1 input volumes... logging results to talairach.log reading input volume 'norm.mgz'... reading GCA '/pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca'... label assignment complete, 0 changed (0.00%) det(m_affine) = 0.97 (predicted orig area = 8.3) label assignment complete, 0 changed (0.00%) freeing gibbs priors...done. average std[0] = 5.0 **************** pass 1 of 1 ************************ enabling zero nodes setting smoothness coefficient to 0.039 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.859, neg=0, invalid=762 0001: dt=129.472000, rms=0.787 (8.425%), neg=0, invalid=762 0002: dt=298.548038, rms=0.752 (4.454%), neg=0, invalid=762 0003: dt=288.025337, rms=0.739 (1.705%), neg=0, invalid=762 0004: dt=168.585366, rms=0.732 (0.944%), neg=0, invalid=762 0005: dt=443.904000, rms=0.725 (0.958%), neg=0, invalid=762 0006: dt=146.285714, rms=0.720 (0.647%), neg=0, invalid=762 0007: dt=443.904000, rms=0.717 (0.487%), neg=0, invalid=762 0008: dt=129.472000, rms=0.714 (0.388%), neg=0, invalid=762 0009: dt=1183.744000, rms=0.709 (0.699%), neg=0, invalid=762 0010: dt=110.976000, rms=0.706 (0.447%), neg=0, invalid=762 0011: dt=1183.744000, rms=0.703 (0.372%), neg=0, invalid=762 0012: dt=129.472000, rms=0.701 (0.302%), neg=0, invalid=762 0013: dt=517.888000, rms=0.700 (0.174%), neg=0, invalid=762 0014: dt=517.888000, rms=0.700 (-0.006%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.701, neg=0, invalid=762 0015: dt=369.920000, rms=0.698 (0.354%), neg=0, invalid=762 0016: dt=443.904000, rms=0.697 (0.137%), neg=0, invalid=762 0017: dt=443.904000, rms=0.697 (-0.079%), neg=0, invalid=762 setting smoothness coefficient to 0.154 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.702, neg=0, invalid=762 0018: dt=268.955466, rms=0.685 (2.416%), neg=0, invalid=762 0019: dt=85.705040, rms=0.673 (1.686%), neg=0, invalid=762 0020: dt=124.416000, rms=0.669 (0.686%), neg=0, invalid=762 0021: dt=92.753623, rms=0.665 (0.625%), neg=0, invalid=762 0022: dt=103.680000, rms=0.662 (0.377%), neg=0, invalid=762 0023: dt=111.937255, rms=0.659 (0.449%), neg=0, invalid=762 0024: dt=80.919540, rms=0.657 (0.311%), neg=0, invalid=762 0025: dt=145.152000, rms=0.655 (0.348%), neg=0, invalid=762 0026: dt=68.321543, rms=0.653 (0.288%), neg=0, invalid=762 0027: dt=145.152000, rms=0.651 (0.331%), neg=0, invalid=762 0028: dt=93.257143, rms=0.650 (0.187%), neg=0, invalid=762 0029: dt=93.257143, rms=0.648 (0.225%), neg=0, invalid=762 0030: dt=93.257143, rms=0.646 (0.316%), neg=0, invalid=762 0031: dt=93.257143, rms=0.643 (0.413%), neg=0, invalid=762 0032: dt=93.257143, rms=0.640 (0.455%), neg=0, invalid=762 0033: dt=93.257143, rms=0.637 (0.507%), neg=0, invalid=762 0034: dt=93.257143, rms=0.634 (0.464%), neg=0, invalid=762 0035: dt=93.257143, rms=0.631 (0.433%), neg=0, invalid=762 0036: dt=93.257143, rms=0.629 (0.386%), neg=0, invalid=762 0037: dt=93.257143, rms=0.627 (0.313%), neg=0, invalid=762 0038: dt=93.257143, rms=0.625 (0.285%), neg=0, invalid=762 0039: dt=93.257143, rms=0.624 (0.223%), neg=0, invalid=762 0040: dt=93.257143, rms=0.623 (0.205%), neg=0, invalid=762 0041: dt=93.257143, rms=0.622 (0.128%), neg=0, invalid=762 0042: dt=93.257143, rms=0.621 (0.153%), neg=0, invalid=762 0043: dt=93.257143, rms=0.620 (0.103%), neg=0, invalid=762 0044: dt=93.257143, rms=0.619 (0.124%), neg=0, invalid=762 0045: dt=93.257143, rms=0.619 (0.074%), neg=0, invalid=762 0046: dt=36.288000, rms=0.619 (0.030%), neg=0, invalid=762 0047: dt=36.288000, rms=0.619 (0.009%), neg=0, invalid=762 0048: dt=36.288000, rms=0.619 (0.014%), neg=0, invalid=762 0049: dt=36.288000, rms=0.619 (0.016%), neg=0, invalid=762 0050: dt=36.288000, rms=0.618 (0.018%), neg=0, invalid=762 0051: dt=36.288000, rms=0.618 (0.019%), neg=0, invalid=762 0052: dt=36.288000, rms=0.618 (0.019%), neg=0, invalid=762 0053: dt=36.288000, rms=0.618 (0.023%), neg=0, invalid=762 0054: dt=36.288000, rms=0.618 (0.018%), neg=0, invalid=762 0055: dt=36.288000, rms=0.618 (0.014%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.619, neg=0, invalid=762 0056: dt=36.288000, rms=0.618 (0.205%), neg=0, invalid=762 0057: dt=36.288000, rms=0.617 (0.022%), neg=0, invalid=762 0058: dt=36.288000, rms=0.617 (0.002%), neg=0, invalid=762 0059: dt=36.288000, rms=0.617 (0.002%), neg=0, invalid=762 0060: dt=36.288000, rms=0.617 (-0.022%), neg=0, invalid=762 setting smoothness coefficient to 0.588 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.646, neg=0, invalid=762 0061: dt=1.200000, rms=0.645 (0.152%), neg=0, invalid=762 0062: dt=0.500000, rms=0.645 (-0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.646, neg=0, invalid=762 0063: dt=0.000586, rms=0.645 (0.149%), neg=0, invalid=762 0064: dt=0.000000, rms=0.645 (0.000%), neg=0, invalid=762 setting smoothness coefficient to 2.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.727, neg=0, invalid=762 0065: dt=5.854271, rms=0.700 (3.720%), neg=0, invalid=762 0066: dt=4.032000, rms=0.698 (0.298%), neg=0, invalid=762 0067: dt=1.250000, rms=0.698 (0.012%), neg=0, invalid=762 0068: dt=1.250000, rms=0.698 (-0.011%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.699, neg=0, invalid=762 0069: dt=0.000000, rms=0.698 (0.122%), neg=0, invalid=762 0070: dt=0.000000, rms=0.698 (0.000%), neg=0, invalid=762 setting smoothness coefficient to 5.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.763, neg=0, invalid=762 0071: dt=1.024000, rms=0.760 (0.405%), neg=0, invalid=762 0072: dt=2.336364, rms=0.754 (0.750%), neg=0, invalid=762 0073: dt=1.024000, rms=0.754 (0.091%), neg=0, invalid=762 0074: dt=1.024000, rms=0.752 (0.251%), neg=0, invalid=762 0075: dt=1.024000, rms=0.750 (0.187%), neg=0, invalid=762 0076: dt=1.024000, rms=0.750 (-0.066%), neg=0, invalid=762 0077: dt=0.000000, rms=0.750 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.751, neg=0, invalid=762 0078: dt=1.024000, rms=0.750 (0.181%), neg=0, invalid=762 0079: dt=1.792000, rms=0.749 (0.101%), neg=0, invalid=762 0080: dt=1.792000, rms=0.749 (-0.091%), neg=0, invalid=762 resetting metric properties... setting smoothness coefficient to 10.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.707, neg=0, invalid=762 0081: dt=0.849099, rms=0.687 (2.798%), neg=0, invalid=762 0082: dt=0.080000, rms=0.686 (0.136%), neg=0, invalid=762 0083: dt=0.080000, rms=0.686 (-0.083%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.687, neg=0, invalid=762 0084: dt=0.028000, rms=0.686 (0.154%), neg=0, invalid=762 0085: dt=0.016000, rms=0.686 (0.001%), neg=0, invalid=762 0086: dt=0.016000, rms=0.686 (-0.003%), neg=0, invalid=762 renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.10027 (20) mri peak = 0.07979 (19) Left_Lateral_Ventricle (4): linear fit = 0.90 x + 0.0 (831 voxels, overlap=0.572) Left_Lateral_Ventricle (4): linear fit = 0.90 x + 0.0 (831 voxels, peak = 18), gca=18.1 gca peak = 0.15565 (16) mri peak = 0.12767 (15) Right_Lateral_Ventricle (43): linear fit = 0.90 x + 0.0 (1100 voxels, overlap=0.746) Right_Lateral_Ventricle (43): linear fit = 0.90 x + 0.0 (1100 voxels, peak = 14), gca=14.5 gca peak = 0.26829 (96) mri peak = 0.07110 (87) Right_Pallidum (52): linear fit = 0.90 x + 0.0 (951 voxels, overlap=0.504) Right_Pallidum (52): linear fit = 0.90 x + 0.0 (951 voxels, peak = 87), gca=86.9 gca peak = 0.20183 (93) mri peak = 0.07805 (80) Left_Pallidum (13): linear fit = 0.88 x + 0.0 (961 voxels, overlap=0.084) Left_Pallidum (13): linear fit = 0.88 x + 0.0 (961 voxels, peak = 81), gca=81.4 gca peak = 0.21683 (55) mri peak = 0.06624 (58) Right_Hippocampus (53): linear fit = 0.94 x + 0.0 (624 voxels, overlap=0.969) Right_Hippocampus (53): linear fit = 0.94 x + 0.0 (624 voxels, peak = 52), gca=52.0 gca peak = 0.30730 (58) mri peak = 0.07819 (61) Left_Hippocampus (17): linear fit = 1.02 x + 0.0 (789 voxels, overlap=0.998) Left_Hippocampus (17): linear fit = 1.02 x + 0.0 (789 voxels, peak = 59), gca=59.4 gca peak = 0.11430 (101) mri peak = 0.05792 (102) Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (52084 voxels, overlap=0.937) Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (52084 voxels, peak = 104), gca=103.5 gca peak = 0.12076 (102) mri peak = 0.05627 (102) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (60859 voxels, overlap=0.914) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (60859 voxels, peak = 105), gca=104.5 gca peak = 0.14995 (59) mri peak = 0.03803 (61) Left_Cerebral_Cortex (3): linear fit = 1.08 x + 0.0 (17674 voxels, overlap=0.905) Left_Cerebral_Cortex (3): linear fit = 1.08 x + 0.0 (17674 voxels, peak = 63), gca=63.4 gca peak = 0.15082 (58) mri peak = 0.03772 (63) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (19694 voxels, overlap=0.998) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (19694 voxels, peak = 59), gca=59.4 gca peak = 0.14161 (67) mri peak = 0.05545 (65) Right_Caudate (50): linear fit = 0.95 x + 0.0 (626 voxels, overlap=0.900) Right_Caudate (50): linear fit = 0.95 x + 0.0 (626 voxels, peak = 64), gca=64.0 gca peak = 0.15243 (71) mri peak = 0.07921 (75) Left_Caudate (11): linear fit = 1.03 x + 0.0 (947 voxels, overlap=0.987) Left_Caudate (11): linear fit = 1.03 x + 0.0 (947 voxels, peak = 73), gca=73.5 gca peak = 0.13336 (57) mri peak = 0.04331 (52) Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (17318 voxels, overlap=0.964) Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (17318 voxels, peak = 54), gca=53.9 gca peak = 0.13252 (56) mri peak = 0.04044 (59) Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (15046 voxels, overlap=0.923) Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (15046 voxels, peak = 59), gca=58.5 gca peak = 0.18181 (84) mri peak = 0.05013 (76) Left_Cerebellum_White_Matter (7): linear fit = 0.93 x + 0.0 (7592 voxels, overlap=0.738) Left_Cerebellum_White_Matter (7): linear fit = 0.93 x + 0.0 (7592 voxels, peak = 78), gca=77.7 gca peak = 0.20573 (83) mri peak = 0.05774 (83) Right_Cerebellum_White_Matter (46): linear fit = 1.05 x + 0.0 (6156 voxels, overlap=0.872) Right_Cerebellum_White_Matter (46): linear fit = 1.05 x + 0.0 (6156 voxels, peak = 88), gca=87.6 gca peak = 0.21969 (57) mri peak = 0.07292 (60) Left_Amygdala (18): linear fit = 1.02 x + 0.0 (390 voxels, overlap=0.999) Left_Amygdala (18): linear fit = 1.02 x + 0.0 (390 voxels, peak = 58), gca=58.4 gca peak = 0.39313 (56) mri peak = 0.11294 (54) Right_Amygdala (54): linear fit = 0.94 x + 0.0 (530 voxels, overlap=1.003) Right_Amygdala (54): linear fit = 0.94 x + 0.0 (530 voxels, peak = 53), gca=52.9 gca peak = 0.14181 (85) mri peak = 0.05411 (88) Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (6707 voxels, overlap=0.984) Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (6707 voxels, peak = 86), gca=86.3 gca peak = 0.11978 (83) mri peak = 0.07377 (82) Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (5029 voxels, overlap=0.920) Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (5029 voxels, peak = 83), gca=82.6 gca peak = 0.13399 (79) mri peak = 0.04791 (82) Left_Putamen (12): linear fit = 1.02 x + 0.0 (2027 voxels, overlap=0.997) Left_Putamen (12): linear fit = 1.02 x + 0.0 (2027 voxels, peak = 81), gca=81.0 gca peak = 0.14159 (79) mri peak = 0.05414 (72) Right_Putamen (51): linear fit = 0.94 x + 0.0 (2266 voxels, overlap=0.918) Right_Putamen (51): linear fit = 0.94 x + 0.0 (2266 voxels, peak = 74), gca=73.9 gca peak = 0.10025 (80) mri peak = 0.11247 (81) Brain_Stem (16): linear fit = 1.07 x + 0.0 (11988 voxels, overlap=0.401) Brain_Stem (16): linear fit = 1.07 x + 0.0 (11988 voxels, peak = 85), gca=85.2 gca peak = 0.13281 (86) mri peak = 0.08178 (89) Right_VentralDC (60): linear fit = 1.03 x + 0.0 (1406 voxels, overlap=0.724) Right_VentralDC (60): linear fit = 1.03 x + 0.0 (1406 voxels, peak = 89), gca=89.0 gca peak = 0.12801 (89) mri peak = 0.06300 (91) Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1846 voxels, overlap=0.851) Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1846 voxels, peak = 92), gca=92.1 gca peak = 0.20494 (23) mri peak = 1.00000 (34) Third_Ventricle (14): linear fit = 1.46 x + 0.0 (89 voxels, overlap=1.996) Third_Ventricle (14): linear fit = 1.46 x + 0.0 (89 voxels, peak = 33), gca=33.5 gca peak = 0.15061 (21) mri peak = 0.09446 (17) Fourth_Ventricle (15): linear fit = 0.87 x + 0.0 (556 voxels, overlap=0.922) Fourth_Ventricle (15): linear fit = 0.87 x + 0.0 (556 voxels, peak = 18), gca=18.2 gca peak Unknown = 0.94835 ( 0) gca peak Left_Inf_Lat_Vent = 0.18056 (32) gca peak Left_Thalamus = 0.64095 (94) gca peak CSF = 0.20999 (34) gca peak Left_Accumbens_area = 0.39030 (62) gca peak Left_undetermined = 0.95280 (25) gca peak Left_vessel = 0.67734 (53) gca peak Left_choroid_plexus = 0.09433 (44) gca peak Right_Inf_Lat_Vent = 0.23544 (26) gca peak Right_Accumbens_area = 0.30312 (64) gca peak Right_vessel = 0.46315 (51) gca peak Right_choroid_plexus = 0.14086 (44) gca peak Fifth_Ventricle = 0.51669 (36) gca peak WM_hypointensities = 0.09722 (76) gca peak non_WM_hypointensities = 0.11899 (47) gca peak Optic_Chiasm = 0.39033 (72) label assignment complete, 0 changed (0.00%) not using caudate to estimate GM means estimating mean gm scale to be 1.01 x + 0.0 estimating mean wm scale to be 1.02 x + 0.0 estimating mean csf scale to be 1.03 x + 0.0 saving intensity scales to talairach.label_intensities.txt **************** pass 1 of 1 ************************ enabling zero nodes setting smoothness coefficient to 0.008 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.688, neg=0, invalid=762 0087: dt=135.724138, rms=0.680 (1.123%), neg=0, invalid=762 0088: dt=369.920000, rms=0.675 (0.709%), neg=0, invalid=762 0089: dt=129.472000, rms=0.673 (0.320%), neg=0, invalid=762 0090: dt=369.920000, rms=0.671 (0.314%), neg=0, invalid=762 0091: dt=110.976000, rms=0.670 (0.186%), neg=0, invalid=762 0092: dt=517.888000, rms=0.669 (0.190%), neg=0, invalid=762 0093: dt=110.976000, rms=0.668 (0.134%), neg=0, invalid=762 0094: dt=517.888000, rms=0.667 (0.162%), neg=0, invalid=762 0095: dt=129.472000, rms=0.666 (0.088%), neg=0, invalid=762 0096: dt=295.936000, rms=0.666 (0.054%), neg=0, invalid=762 0097: dt=129.472000, rms=0.665 (0.069%), neg=0, invalid=762 0098: dt=517.888000, rms=0.665 (0.062%), neg=0, invalid=762 0099: dt=129.472000, rms=0.664 (0.087%), neg=0, invalid=762 0100: dt=295.936000, rms=0.664 (0.037%), neg=0, invalid=762 0101: dt=295.936000, rms=0.664 (0.023%), neg=0, invalid=762 0102: dt=295.936000, rms=0.663 (0.117%), neg=0, invalid=762 0103: dt=295.936000, rms=0.662 (0.139%), neg=0, invalid=762 0104: dt=295.936000, rms=0.661 (0.096%), neg=0, invalid=762 0105: dt=295.936000, rms=0.661 (0.064%), neg=0, invalid=762 0106: dt=295.936000, rms=0.660 (0.138%), neg=0, invalid=762 0107: dt=295.936000, rms=0.660 (0.052%), neg=0, invalid=762 0108: dt=295.936000, rms=0.659 (0.041%), neg=0, invalid=762 0109: dt=295.936000, rms=0.659 (0.112%), neg=0, invalid=762 0110: dt=295.936000, rms=0.659 (0.010%), neg=0, invalid=762 0111: dt=295.936000, rms=0.658 (0.036%), neg=0, invalid=762 0112: dt=295.936000, rms=0.658 (0.089%), neg=0, invalid=762 0113: dt=295.936000, rms=0.658 (0.041%), neg=0, invalid=762 0114: dt=295.936000, rms=0.657 (0.034%), neg=0, invalid=762 0115: dt=295.936000, rms=0.657 (0.088%), neg=0, invalid=762 0116: dt=295.936000, rms=0.656 (0.076%), neg=0, invalid=762 0117: dt=295.936000, rms=0.656 (0.073%), neg=0, invalid=762 0118: dt=295.936000, rms=0.655 (0.088%), neg=0, invalid=762 0119: dt=295.936000, rms=0.655 (0.083%), neg=0, invalid=762 0120: dt=295.936000, rms=0.654 (0.107%), neg=0, invalid=762 0121: dt=295.936000, rms=0.653 (0.090%), neg=0, invalid=762 0122: dt=295.936000, rms=0.653 (0.085%), neg=0, invalid=762 0123: dt=295.936000, rms=0.652 (0.106%), neg=0, invalid=762 0124: dt=295.936000, rms=0.652 (0.077%), neg=0, invalid=762 0125: dt=295.936000, rms=0.651 (0.059%), neg=0, invalid=762 0126: dt=295.936000, rms=0.651 (0.088%), neg=0, invalid=762 0127: dt=295.936000, rms=0.650 (0.068%), neg=0, invalid=762 0128: dt=295.936000, rms=0.650 (0.057%), neg=0, invalid=762 0129: dt=295.936000, rms=0.649 (0.069%), neg=0, invalid=762 0130: dt=295.936000, rms=0.649 (0.047%), neg=0, invalid=762 0131: dt=295.936000, rms=0.649 (0.065%), neg=0, invalid=762 0132: dt=295.936000, rms=0.648 (0.051%), neg=0, invalid=762 0133: dt=295.936000, rms=0.648 (0.040%), neg=0, invalid=762 0134: dt=295.936000, rms=0.648 (0.059%), neg=0, invalid=762 0135: dt=295.936000, rms=0.647 (0.054%), neg=0, invalid=762 0136: dt=295.936000, rms=0.647 (0.044%), neg=0, invalid=762 0137: dt=295.936000, rms=0.647 (0.037%), neg=0, invalid=762 0138: dt=295.936000, rms=0.647 (0.030%), neg=0, invalid=762 0139: dt=295.936000, rms=0.646 (0.033%), neg=0, invalid=762 0140: dt=295.936000, rms=0.646 (0.019%), neg=0, invalid=762 0141: dt=295.936000, rms=0.646 (0.032%), neg=0, invalid=762 0142: dt=295.936000, rms=0.646 (0.045%), neg=0, invalid=762 0143: dt=295.936000, rms=0.646 (0.036%), neg=0, invalid=762 0144: dt=295.936000, rms=0.645 (0.040%), neg=0, invalid=762 0145: dt=295.936000, rms=0.645 (0.035%), neg=0, invalid=762 0146: dt=295.936000, rms=0.645 (0.032%), neg=0, invalid=762 0147: dt=295.936000, rms=0.645 (0.034%), neg=0, invalid=762 0148: dt=295.936000, rms=0.645 (0.028%), neg=0, invalid=762 0149: dt=295.936000, rms=0.644 (0.043%), neg=0, invalid=762 0150: dt=295.936000, rms=0.644 (0.038%), neg=0, invalid=762 0151: dt=295.936000, rms=0.644 (0.023%), neg=0, invalid=762 0152: dt=295.936000, rms=0.644 (0.041%), neg=0, invalid=762 0153: dt=295.936000, rms=0.643 (0.044%), neg=0, invalid=762 0154: dt=295.936000, rms=0.643 (0.024%), neg=0, invalid=762 0155: dt=295.936000, rms=0.643 (0.029%), neg=0, invalid=762 0156: dt=295.936000, rms=0.643 (0.035%), neg=0, invalid=762 0157: dt=295.936000, rms=0.643 (0.025%), neg=0, invalid=762 0158: dt=295.936000, rms=0.642 (0.031%), neg=0, invalid=762 0159: dt=295.936000, rms=0.642 (0.029%), neg=0, invalid=762 0160: dt=295.936000, rms=0.642 (0.022%), neg=0, invalid=762 0161: dt=295.936000, rms=0.642 (0.034%), neg=0, invalid=762 0162: dt=295.936000, rms=0.642 (0.026%), neg=0, invalid=762 0163: dt=295.936000, rms=0.642 (0.016%), neg=0, invalid=762 0164: dt=295.936000, rms=0.641 (0.034%), neg=0, invalid=762 0165: dt=295.936000, rms=0.641 (0.019%), neg=0, invalid=762 0166: dt=295.936000, rms=0.641 (0.014%), neg=0, invalid=762 0167: dt=295.936000, rms=0.641 (0.014%), neg=0, invalid=762 0168: dt=18.496000, rms=0.641 (-0.004%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.642, neg=0, invalid=762 0169: dt=221.952000, rms=0.640 (0.250%), neg=0, invalid=762 0170: dt=129.472000, rms=0.640 (0.058%), neg=0, invalid=762 0171: dt=1183.744000, rms=0.639 (0.114%), neg=0, invalid=762 0172: dt=129.472000, rms=0.639 (0.065%), neg=0, invalid=762 0173: dt=517.888000, rms=0.638 (0.044%), neg=0, invalid=762 0174: dt=517.888000, rms=0.638 (-0.052%), neg=0, invalid=762 setting smoothness coefficient to 0.031 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.641, neg=0, invalid=762 0175: dt=82.944000, rms=0.639 (0.416%), neg=0, invalid=762 0176: dt=145.152000, rms=0.635 (0.671%), neg=0, invalid=762 0177: dt=62.208000, rms=0.633 (0.273%), neg=0, invalid=762 0178: dt=331.776000, rms=0.628 (0.721%), neg=0, invalid=762 0179: dt=63.549296, rms=0.625 (0.586%), neg=0, invalid=762 0180: dt=145.152000, rms=0.622 (0.429%), neg=0, invalid=762 0181: dt=36.288000, rms=0.621 (0.149%), neg=0, invalid=762 0182: dt=145.152000, rms=0.619 (0.268%), neg=0, invalid=762 0183: dt=145.152000, rms=0.617 (0.289%), neg=0, invalid=762 0184: dt=36.288000, rms=0.617 (0.156%), neg=0, invalid=762 0185: dt=103.680000, rms=0.615 (0.172%), neg=0, invalid=762 0186: dt=9.072000, rms=0.615 (0.010%), neg=0, invalid=762 0187: dt=9.072000, rms=0.615 (0.024%), neg=0, invalid=762 0188: dt=4.536000, rms=0.615 (0.014%), neg=0, invalid=762 0189: dt=1.134000, rms=0.615 (0.005%), neg=0, invalid=762 0190: dt=0.025312, rms=0.615 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.616, neg=0, invalid=762 0191: dt=105.626016, rms=0.613 (0.555%), neg=0, invalid=762 0192: dt=103.680000, rms=0.610 (0.355%), neg=0, invalid=762 0193: dt=36.288000, rms=0.610 (0.122%), neg=0, invalid=762 0194: dt=331.776000, rms=0.608 (0.316%), neg=0, invalid=762 0195: dt=36.288000, rms=0.606 (0.296%), neg=0, invalid=762 0196: dt=145.152000, rms=0.605 (0.194%), neg=0, invalid=762 0197: dt=36.288000, rms=0.604 (0.065%), neg=0, invalid=762 0198: dt=331.776000, rms=0.603 (0.200%), neg=0, invalid=762 0199: dt=66.921162, rms=0.602 (0.227%), neg=0, invalid=762 0200: dt=36.288000, rms=0.602 (0.036%), neg=0, invalid=762 0201: dt=36.288000, rms=0.601 (0.034%), neg=0, invalid=762 0202: dt=36.288000, rms=0.601 (0.060%), neg=0, invalid=762 0203: dt=36.288000, rms=0.600 (0.091%), neg=0, invalid=762 0204: dt=36.288000, rms=0.600 (0.118%), neg=0, invalid=762 0205: dt=36.288000, rms=0.599 (0.133%), neg=0, invalid=762 0206: dt=36.288000, rms=0.598 (0.141%), neg=0, invalid=762 0207: dt=36.288000, rms=0.597 (0.142%), neg=0, invalid=762 0208: dt=36.288000, rms=0.596 (0.148%), neg=0, invalid=762 0209: dt=36.288000, rms=0.595 (0.158%), neg=0, invalid=762 0210: dt=36.288000, rms=0.595 (0.157%), neg=0, invalid=762 0211: dt=36.288000, rms=0.594 (0.160%), neg=0, invalid=762 0212: dt=36.288000, rms=0.593 (0.152%), neg=0, invalid=762 0213: dt=36.288000, rms=0.592 (0.150%), neg=0, invalid=762 0214: dt=36.288000, rms=0.591 (0.142%), neg=0, invalid=762 0215: dt=36.288000, rms=0.591 (0.011%), neg=0, invalid=762 0216: dt=36.288000, rms=0.591 (0.032%), neg=0, invalid=762 0217: dt=36.288000, rms=0.591 (0.023%), neg=0, invalid=762 0218: dt=18.144000, rms=0.591 (0.002%), neg=0, invalid=762 0219: dt=2.268000, rms=0.591 (0.001%), neg=0, invalid=762 0220: dt=1.134000, rms=0.591 (0.000%), neg=0, invalid=762 0221: dt=0.567000, rms=0.591 (0.000%), neg=0, invalid=762 0222: dt=0.283500, rms=0.591 (0.000%), neg=0, invalid=762 0223: dt=0.141750, rms=0.591 (0.000%), neg=0, invalid=762 setting smoothness coefficient to 0.118 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.598, neg=0, invalid=762 0224: dt=38.400000, rms=0.590 (1.322%), neg=0, invalid=762 0225: dt=44.800000, rms=0.582 (1.301%), neg=0, invalid=762 0226: dt=38.400000, rms=0.578 (0.692%), neg=0, invalid=762 0227: dt=2.800000, rms=0.578 (0.076%), neg=0, invalid=762 0228: dt=0.175000, rms=0.578 (0.003%), neg=0, invalid=762 0229: dt=0.175000, rms=0.578 (0.005%), neg=0, invalid=762 0230: dt=0.087500, rms=0.578 (0.002%), neg=0, invalid=762 0231: dt=0.021875, rms=0.578 (0.001%), neg=0, invalid=762 0232: dt=0.000000, rms=0.578 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.579, neg=0, invalid=762 0233: dt=28.438163, rms=0.574 (0.750%), neg=0, invalid=762 0234: dt=44.800000, rms=0.570 (0.723%), neg=0, invalid=762 0235: dt=8.000000, rms=0.569 (0.194%), neg=0, invalid=762 0236: dt=0.700000, rms=0.569 (0.009%), neg=0, invalid=762 0237: dt=0.175000, rms=0.569 (-0.000%), neg=0, invalid=762 setting smoothness coefficient to 0.400 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.589, neg=0, invalid=762 0238: dt=18.845481, rms=0.581 (1.364%), neg=0, invalid=762 0239: dt=11.520000, rms=0.576 (0.882%), neg=0, invalid=762 0240: dt=4.032000, rms=0.576 (0.110%), neg=0, invalid=762 0241: dt=1.008000, rms=0.575 (0.030%), neg=0, invalid=762 0242: dt=0.504000, rms=0.575 (0.011%), neg=0, invalid=762 0243: dt=0.252000, rms=0.575 (0.007%), neg=0, invalid=762 0244: dt=0.126000, rms=0.575 (0.002%), neg=0, invalid=762 0245: dt=0.063000, rms=0.575 (0.001%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.576, neg=0, invalid=762 0246: dt=7.706122, rms=0.574 (0.260%), neg=0, invalid=762 0247: dt=9.216000, rms=0.574 (0.054%), neg=0, invalid=762 0248: dt=13.824000, rms=0.574 (0.065%), neg=0, invalid=762 0249: dt=16.128000, rms=0.573 (0.127%), neg=0, invalid=762 0250: dt=9.000000, rms=0.573 (0.077%), neg=0, invalid=762 0251: dt=4.032000, rms=0.572 (0.043%), neg=0, invalid=762 0252: dt=4.032000, rms=0.572 (0.037%), neg=0, invalid=762 0253: dt=4.032000, rms=0.572 (0.063%), neg=0, invalid=762 0254: dt=0.504000, rms=0.572 (0.006%), neg=0, invalid=762 0255: dt=0.252000, rms=0.572 (0.002%), neg=0, invalid=762 0256: dt=0.063000, rms=0.572 (0.000%), neg=0, invalid=762 0257: dt=0.063000, rms=0.572 (0.001%), neg=0, invalid=762 0258: dt=0.015750, rms=0.572 (0.000%), neg=0, invalid=762 0259: dt=0.001969, rms=0.572 (-0.000%), neg=0, invalid=762 setting smoothness coefficient to 1.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.594, neg=0, invalid=762 0260: dt=0.000000, rms=0.593 (0.125%), neg=0, invalid=762 0261: dt=0.000000, rms=0.593 (0.000%), neg=0, invalid=762 0262: dt=0.100000, rms=0.593 (-0.085%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.594, neg=0, invalid=762 0263: dt=0.000000, rms=0.593 (0.125%), neg=0, invalid=762 0264: dt=0.000000, rms=0.593 (0.000%), neg=0, invalid=762 0265: dt=0.100000, rms=0.593 (-0.064%), neg=0, invalid=762 resetting metric properties... setting smoothness coefficient to 2.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.558, neg=0, invalid=762 0266: dt=0.448000, rms=0.542 (2.822%), neg=0, invalid=762 0267: dt=0.448000, rms=0.539 (0.628%), neg=0, invalid=762 0268: dt=0.448000, rms=0.537 (0.370%), neg=0, invalid=762 0269: dt=0.448000, rms=0.536 (0.238%), neg=0, invalid=762 0270: dt=0.448000, rms=0.535 (0.178%), neg=0, invalid=762 0271: dt=0.448000, rms=0.534 (0.138%), neg=0, invalid=762 0272: dt=0.448000, rms=0.533 (0.112%), neg=0, invalid=762 0273: dt=0.448000, rms=0.533 (0.090%), neg=0, invalid=762 0274: dt=0.448000, rms=0.532 (0.077%), neg=0, invalid=762 0275: dt=0.448000, rms=0.532 (0.069%), neg=0, invalid=762 0276: dt=0.448000, rms=0.532 (0.056%), neg=0, invalid=762 0277: dt=0.448000, rms=0.531 (0.050%), neg=0, invalid=762 0278: dt=0.448000, rms=0.531 (0.046%), neg=0, invalid=762 0279: dt=0.448000, rms=0.531 (0.039%), neg=0, invalid=762 0280: dt=0.448000, rms=0.531 (0.071%), neg=0, invalid=762 0281: dt=0.448000, rms=0.530 (0.092%), neg=0, invalid=762 0282: dt=0.448000, rms=0.530 (0.093%), neg=0, invalid=762 0283: dt=0.448000, rms=0.529 (0.089%), neg=0, invalid=762 0284: dt=0.448000, rms=0.529 (0.081%), neg=0, invalid=762 0285: dt=0.448000, rms=0.528 (0.065%), neg=0, invalid=762 0286: dt=0.448000, rms=0.528 (0.040%), neg=0, invalid=762 0287: dt=0.448000, rms=0.528 (0.025%), neg=0, invalid=762 0288: dt=0.448000, rms=0.528 (0.015%), neg=0, invalid=762 0289: dt=0.112000, rms=0.528 (-0.001%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.529, neg=0, invalid=762 0290: dt=0.448000, rms=0.521 (1.487%), neg=0, invalid=762 0291: dt=0.448000, rms=0.520 (0.154%), neg=0, invalid=762 0292: dt=0.320000, rms=0.520 (0.032%), neg=0, invalid=762 0293: dt=0.320000, rms=0.520 (0.007%), neg=0, invalid=762 0294: dt=0.320000, rms=0.520 (0.006%), neg=0, invalid=762 0295: dt=0.320000, rms=0.520 (-0.017%), neg=0, invalid=762 label assignment complete, 0 changed (0.00%) ********************* ALLOWING NEGATIVE NODES IN DEFORMATION******************************** **************** pass 1 of 1 ************************ enabling zero nodes setting smoothness coefficient to 0.008 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.518, neg=0, invalid=762 0296: dt=0.000000, rms=0.517 (0.159%), neg=0, invalid=762 0297: dt=0.000000, rms=0.517 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.518, neg=0, invalid=762 0298: dt=129.472000, rms=0.517 (0.208%), neg=0, invalid=762 0299: dt=92.480000, rms=0.517 (0.011%), neg=0, invalid=762 0300: dt=92.480000, rms=0.516 (0.017%), neg=0, invalid=762 0301: dt=92.480000, rms=0.516 (0.018%), neg=0, invalid=762 0302: dt=92.480000, rms=0.516 (0.026%), neg=0, invalid=762 0303: dt=92.480000, rms=0.516 (0.021%), neg=0, invalid=762 0304: dt=92.480000, rms=0.516 (0.018%), neg=0, invalid=762 setting smoothness coefficient to 0.031 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.517, neg=0, invalid=762 0305: dt=20.736000, rms=0.516 (0.204%), neg=0, invalid=762 0306: dt=9.072000, rms=0.516 (0.006%), neg=0, invalid=762 0307: dt=9.072000, rms=0.516 (0.003%), neg=0, invalid=762 0308: dt=9.072000, rms=0.516 (-0.007%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.517, neg=0, invalid=762 0309: dt=82.944000, rms=0.514 (0.410%), neg=0, invalid=762 0310: dt=36.288000, rms=0.514 (0.152%), neg=0, invalid=762 0311: dt=36.288000, rms=0.513 (0.066%), neg=0, invalid=762 0312: dt=36.288000, rms=0.513 (0.098%), neg=0, invalid=762 0313: dt=36.288000, rms=0.512 (0.133%), neg=0, invalid=762 0314: dt=36.288000, rms=0.511 (0.120%), neg=0, invalid=762 0315: dt=36.288000, rms=0.511 (0.120%), neg=0, invalid=762 0316: dt=145.152000, rms=0.511 (0.049%), neg=0, invalid=762 0317: dt=145.152000, rms=0.511 (-0.380%), neg=0, invalid=762 setting smoothness coefficient to 0.118 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.512, neg=0, invalid=762 iter 0, gcam->neg = 1 after 1 iterations, nbhd size=0, neg = 0 0318: dt=24.195122, rms=0.509 (0.606%), neg=0, invalid=762 iter 0, gcam->neg = 4 after 2 iterations, nbhd size=0, neg = 0 0319: dt=38.400000, rms=0.507 (0.345%), neg=0, invalid=762 0320: dt=21.948718, rms=0.506 (0.174%), neg=0, invalid=762 iter 0, gcam->neg = 3 after 7 iterations, nbhd size=1, neg = 0 0321: dt=21.948718, rms=0.505 (0.178%), neg=0, invalid=762 iter 0, gcam->neg = 3 after 0 iterations, nbhd size=0, neg = 0 0322: dt=21.948718, rms=0.504 (0.190%), neg=0, invalid=762 iter 0, gcam->neg = 11 after 9 iterations, nbhd size=1, neg = 0 0323: dt=21.948718, rms=0.503 (0.129%), neg=0, invalid=762 iter 0, gcam->neg = 12 after 10 iterations, nbhd size=1, neg = 0 0324: dt=21.948718, rms=0.503 (0.137%), neg=0, invalid=762 iter 0, gcam->neg = 25 after 11 iterations, nbhd size=1, neg = 0 0325: dt=21.948718, rms=0.502 (0.115%), neg=0, invalid=762 iter 0, gcam->neg = 11 after 11 iterations, nbhd size=1, neg = 0 0326: dt=21.948718, rms=0.502 (0.124%), neg=0, invalid=762 iter 0, gcam->neg = 23 after 12 iterations, nbhd size=1, neg = 0 0327: dt=21.948718, rms=0.501 (0.145%), neg=0, invalid=762 iter 0, gcam->neg = 36 after 12 iterations, nbhd size=1, neg = 0 0328: dt=21.948718, rms=0.500 (0.151%), neg=0, invalid=762 iter 0, gcam->neg = 18 after 9 iterations, nbhd size=1, neg = 0 0329: dt=21.948718, rms=0.499 (0.209%), neg=0, invalid=762 iter 0, gcam->neg = 8 after 10 iterations, nbhd size=1, neg = 0 0330: dt=21.948718, rms=0.498 (0.165%), neg=0, invalid=762 iter 0, gcam->neg = 3 after 1 iterations, nbhd size=0, neg = 0 0331: dt=21.948718, rms=0.498 (0.151%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 4 iterations, nbhd size=0, neg = 0 0332: dt=21.948718, rms=0.497 (0.147%), neg=0, invalid=762 iter 0, gcam->neg = 4 after 7 iterations, nbhd size=1, neg = 0 0333: dt=21.948718, rms=0.496 (0.140%), neg=0, invalid=762 iter 0, gcam->neg = 7 after 6 iterations, nbhd size=0, neg = 0 0334: dt=21.948718, rms=0.496 (0.115%), neg=0, invalid=762 iter 0, gcam->neg = 5 after 11 iterations, nbhd size=1, neg = 0 0335: dt=21.948718, rms=0.495 (0.104%), neg=0, invalid=762 iter 0, gcam->neg = 6 after 1 iterations, nbhd size=0, neg = 0 0336: dt=102.400000, rms=0.494 (0.187%), neg=0, invalid=762 0337: dt=19.200000, rms=0.494 (0.038%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 2 iterations, nbhd size=0, neg = 0 0338: dt=19.200000, rms=0.494 (0.024%), neg=0, invalid=762 0339: dt=19.200000, rms=0.494 (0.019%), neg=0, invalid=762 0340: dt=19.200000, rms=0.494 (0.018%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.494, neg=0, invalid=762 0341: dt=44.800000, rms=0.490 (0.885%), neg=0, invalid=762 0342: dt=32.000000, rms=0.488 (0.353%), neg=0, invalid=762 0343: dt=25.600000, rms=0.488 (0.155%), neg=0, invalid=762 0344: dt=25.600000, rms=0.487 (0.129%), neg=0, invalid=762 0345: dt=25.600000, rms=0.486 (0.218%), neg=0, invalid=762 0346: dt=25.600000, rms=0.485 (0.212%), neg=0, invalid=762 0347: dt=25.600000, rms=0.484 (0.134%), neg=0, invalid=762 0348: dt=25.600000, rms=0.484 (0.089%), neg=0, invalid=762 0349: dt=25.600000, rms=0.483 (0.075%), neg=0, invalid=762 0350: dt=38.400000, rms=0.483 (0.073%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0351: dt=38.400000, rms=0.483 (-0.070%), neg=0, invalid=762 setting smoothness coefficient to 0.400 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.491, neg=0, invalid=762 0352: dt=1.200000, rms=0.490 (0.149%), neg=0, invalid=762 0353: dt=0.576000, rms=0.490 (0.013%), neg=0, invalid=762 0354: dt=0.576000, rms=0.490 (-0.001%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.491, neg=0, invalid=762 0355: dt=4.032000, rms=0.490 (0.216%), neg=0, invalid=762 0356: dt=2.880000, rms=0.490 (0.021%), neg=0, invalid=762 0357: dt=2.880000, rms=0.490 (0.007%), neg=0, invalid=762 0358: dt=2.880000, rms=0.490 (-0.029%), neg=0, invalid=762 setting smoothness coefficient to 1.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.501, neg=0, invalid=762 0359: dt=0.112000, rms=0.500 (0.168%), neg=0, invalid=762 0360: dt=0.024000, rms=0.500 (0.001%), neg=0, invalid=762 0361: dt=0.024000, rms=0.500 (-0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.501, neg=0, invalid=762 0362: dt=1.536000, rms=0.499 (0.418%), neg=0, invalid=762 0363: dt=1.024000, rms=0.499 (0.047%), neg=0, invalid=762 0364: dt=1.024000, rms=0.499 (0.008%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0365: dt=1.024000, rms=0.499 (-0.093%), neg=0, invalid=762 resetting metric properties... setting smoothness coefficient to 2.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.490, neg=0, invalid=762 iter 0, gcam->neg = 601 after 12 iterations, nbhd size=1, neg = 0 0366: dt=2.362108, rms=0.455 (7.163%), neg=0, invalid=762 0367: dt=0.112000, rms=0.454 (0.157%), neg=0, invalid=762 0368: dt=0.112000, rms=0.454 (-0.060%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.455, neg=0, invalid=762 0369: dt=0.112000, rms=0.454 (0.343%), neg=0, invalid=762 0370: dt=0.024000, rms=0.454 (0.003%), neg=0, invalid=762 0371: dt=0.024000, rms=0.454 (-0.003%), neg=0, invalid=762 label assignment complete, 0 changed (0.00%) label assignment complete, 0 changed (0.00%) ***************** morphing with label term set to 0 ******************************* **************** pass 1 of 1 ************************ enabling zero nodes setting smoothness coefficient to 0.008 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.438, neg=0, invalid=762 0372: dt=0.000000, rms=0.438 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.438, neg=0, invalid=762 0373: dt=32.368000, rms=0.438 (0.008%), neg=0, invalid=762 0374: dt=55.488000, rms=0.438 (0.004%), neg=0, invalid=762 0375: dt=55.488000, rms=0.438 (0.002%), neg=0, invalid=762 0376: dt=55.488000, rms=0.438 (0.002%), neg=0, invalid=762 0377: dt=55.488000, rms=0.438 (0.000%), neg=0, invalid=762 setting smoothness coefficient to 0.031 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.438, neg=0, invalid=762 0378: dt=0.000000, rms=0.438 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.438, neg=0, invalid=762 0379: dt=124.416000, rms=0.438 (0.092%), neg=0, invalid=762 0380: dt=145.152000, rms=0.437 (0.066%), neg=0, invalid=762 0381: dt=145.152000, rms=0.437 (-0.097%), neg=0, invalid=762 setting smoothness coefficient to 0.118 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.438, neg=0, invalid=762 0382: dt=9.600000, rms=0.438 (0.084%), neg=0, invalid=762 0383: dt=2.800000, rms=0.438 (0.004%), neg=0, invalid=762 0384: dt=2.800000, rms=0.438 (0.000%), neg=0, invalid=762 0385: dt=2.800000, rms=0.438 (-0.014%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.438, neg=0, invalid=762 0386: dt=44.800000, rms=0.436 (0.520%), neg=0, invalid=762 0387: dt=32.000000, rms=0.434 (0.255%), neg=0, invalid=762 0388: dt=25.600000, rms=0.434 (0.139%), neg=0, invalid=762 0389: dt=25.600000, rms=0.433 (0.116%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0390: dt=25.600000, rms=0.433 (0.154%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 6 iterations, nbhd size=1, neg = 0 0391: dt=25.600000, rms=0.432 (0.184%), neg=0, invalid=762 0392: dt=25.600000, rms=0.431 (0.161%), neg=0, invalid=762 iter 0, gcam->neg = 3 after 9 iterations, nbhd size=1, neg = 0 0393: dt=25.600000, rms=0.430 (0.170%), neg=0, invalid=762 0394: dt=25.600000, rms=0.430 (0.148%), neg=0, invalid=762 iter 0, gcam->neg = 3 after 8 iterations, nbhd size=1, neg = 0 0395: dt=25.600000, rms=0.429 (0.116%), neg=0, invalid=762 iter 0, gcam->neg = 2 after 0 iterations, nbhd size=0, neg = 0 0396: dt=25.600000, rms=0.429 (0.116%), neg=0, invalid=762 iter 0, gcam->neg = 2 after 0 iterations, nbhd size=0, neg = 0 0397: dt=25.600000, rms=0.428 (0.104%), neg=0, invalid=762 0398: dt=44.800000, rms=0.428 (0.035%), neg=0, invalid=762 iter 0, gcam->neg = 1 after 0 iterations, nbhd size=0, neg = 0 0399: dt=44.800000, rms=0.428 (-0.013%), neg=0, invalid=762 setting smoothness coefficient to 0.400 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.433, neg=0, invalid=762 0400: dt=0.000000, rms=0.433 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.433, neg=0, invalid=762 0401: dt=6.000000, rms=0.432 (0.105%), neg=0, invalid=762 0402: dt=6.000000, rms=0.432 (0.030%), neg=0, invalid=762 0403: dt=6.000000, rms=0.432 (0.016%), neg=0, invalid=762 0404: dt=6.000000, rms=0.432 (-0.023%), neg=0, invalid=762 setting smoothness coefficient to 1.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.439, neg=0, invalid=762 0405: dt=0.000000, rms=0.439 (0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.439, neg=0, invalid=762 0406: dt=0.000000, rms=0.439 (0.000%), neg=0, invalid=762 resetting metric properties... setting smoothness coefficient to 2.000 blurring input image with Gaussian with sigma=2.000... 0000: dt=0.000, rms=0.427, neg=0, invalid=762 iter 0, gcam->neg = 468 after 13 iterations, nbhd size=1, neg = 0 0407: dt=1.536000, rms=0.415 (2.872%), neg=0, invalid=762 0408: dt=0.000013, rms=0.415 (0.000%), neg=0, invalid=762 0409: dt=0.000013, rms=0.415 (-0.000%), neg=0, invalid=762 blurring input image with Gaussian with sigma=0.500... 0000: dt=0.000, rms=0.415, neg=0, invalid=762 0410: dt=0.112000, rms=0.414 (0.111%), neg=0, invalid=762 0411: dt=0.064000, rms=0.414 (0.018%), neg=0, invalid=762 0412: dt=0.064000, rms=0.414 (-0.000%), neg=0, invalid=762 writing output transformation to transforms/talairach.m3z... GCAMwrite mri_ca_register took 3 hours, 13 minutes and 40 seconds. mri_ca_register utimesec 12780.643046 mri_ca_register stimesec 8.438717 mri_ca_register ru_maxrss 1335560 mri_ca_register ru_ixrss 0 mri_ca_register ru_idrss 0 mri_ca_register ru_isrss 0 mri_ca_register ru_minflt 4406551 mri_ca_register ru_majflt 0 mri_ca_register ru_nswap 0 mri_ca_register ru_inblock 0 mri_ca_register ru_oublock 63368 mri_ca_register ru_msgsnd 0 mri_ca_register ru_msgrcv 0 mri_ca_register ru_nsignals 0 mri_ca_register ru_nvcsw 4499 mri_ca_register ru_nivcsw 23257 FSRUNTIME@ mri_ca_register 3.2279 hours 2 threads #-------------------------------------- #@# SubCort Seg Sat Oct 7 22:38:43 CEST 2017 mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca aseg.auto_noCCseg.mgz sysname Linux hostname tars-555 machine x86_64 setenv SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 cd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca aseg.auto_noCCseg.mgz == Number of threads available to mri_ca_label for OpenMP = 2 == relabeling unlikely voxels with window_size = 9 and prior threshold 0.30 using Gibbs prior factor = 0.500 renormalizing sequences with structure alignment, equivalent to: -renormalize -renormalize_mean 0.500 -regularize 0.500 reading 1 input volumes reading classifier array from /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca reading input volume from norm.mgz average std[0] = 7.3 reading transform from transforms/talairach.m3z setting orig areas to linear transform determinant scaled 8.28 Atlas used for the 3D morph was /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca average std = 7.3 using min determinant for regularization = 5.3 0 singular and 0 ill-conditioned covariance matrices regularized labeling volume... renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.16259 (20) mri peak = 0.11163 (19) Left_Lateral_Ventricle (4): linear fit = 0.85 x + 0.0 (209 voxels, overlap=0.727) Left_Lateral_Ventricle (4): linear fit = 0.85 x + 0.0 (209 voxels, peak = 17), gca=16.9 gca peak = 0.17677 (13) mri peak = 0.10218 (14) Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (433 voxels, overlap=0.836) Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (433 voxels, peak = 13), gca=13.5 gca peak = 0.28129 (95) mri peak = 0.08444 (90) Right_Pallidum (52): linear fit = 0.93 x + 0.0 (609 voxels, overlap=0.768) Right_Pallidum (52): linear fit = 0.93 x + 0.0 (609 voxels, peak = 88), gca=87.9 gca peak = 0.16930 (96) mri peak = 0.09454 (92) Left_Pallidum (13): linear fit = 0.94 x + 0.0 (671 voxels, overlap=0.844) Left_Pallidum (13): linear fit = 0.94 x + 0.0 (671 voxels, peak = 91), gca=90.7 gca peak = 0.24553 (55) mri peak = 0.09643 (57) Right_Hippocampus (53): linear fit = 0.94 x + 0.0 (436 voxels, overlap=0.823) Right_Hippocampus (53): linear fit = 0.94 x + 0.0 (436 voxels, peak = 51), gca=51.4 gca peak = 0.30264 (59) mri peak = 0.06878 (60) Left_Hippocampus (17): linear fit = 1.04 x + 0.0 (774 voxels, overlap=1.016) Left_Hippocampus (17): linear fit = 1.04 x + 0.0 (774 voxels, peak = 62), gca=61.7 gca peak = 0.07580 (103) mri peak = 0.06062 (102) Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (31385 voxels, overlap=0.859) Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (31385 voxels, peak = 106), gca=105.6 gca peak = 0.07714 (104) mri peak = 0.05384 (102) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (39107 voxels, overlap=0.835) Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (39107 voxels, peak = 107), gca=106.6 gca peak = 0.09712 (58) mri peak = 0.04067 (61) Left_Cerebral_Cortex (3): linear fit = 1.04 x + 0.0 (27072 voxels, overlap=0.967) Left_Cerebral_Cortex (3): linear fit = 1.04 x + 0.0 (27072 voxels, peak = 61), gca=60.6 gca peak = 0.11620 (58) mri peak = 0.03800 (59) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (24807 voxels, overlap=0.986) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (24807 voxels, peak = 59), gca=59.4 gca peak = 0.30970 (66) mri peak = 0.08714 (67) Right_Caudate (50): linear fit = 1.00 x + 0.0 (717 voxels, overlap=1.008) Right_Caudate (50): linear fit = 1.00 x + 0.0 (717 voxels, peak = 66), gca=66.0 gca peak = 0.15280 (69) mri peak = 0.07383 (71) Left_Caudate (11): linear fit = 0.99 x + 0.0 (744 voxels, overlap=1.005) Left_Caudate (11): linear fit = 0.99 x + 0.0 (744 voxels, peak = 68), gca=68.0 gca peak = 0.13902 (56) mri peak = 0.04998 (52) Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (15718 voxels, overlap=0.987) Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (15718 voxels, peak = 53), gca=52.9 gca peak = 0.14777 (55) mri peak = 0.04981 (58) Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (12768 voxels, overlap=0.987) Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (12768 voxels, peak = 57), gca=57.5 gca peak = 0.16765 (84) mri peak = 0.06480 (78) Left_Cerebellum_White_Matter (7): linear fit = 0.95 x + 0.0 (6038 voxels, overlap=1.000) Left_Cerebellum_White_Matter (7): linear fit = 0.95 x + 0.0 (6038 voxels, peak = 80), gca=80.2 gca peak = 0.18739 (84) mri peak = 0.06633 (87) Right_Cerebellum_White_Matter (46): linear fit = 1.07 x + 0.0 (4777 voxels, overlap=0.802) Right_Cerebellum_White_Matter (46): linear fit = 1.07 x + 0.0 (4777 voxels, peak = 89), gca=89.5 gca peak = 0.29869 (57) mri peak = 0.07568 (62) Left_Amygdala (18): linear fit = 1.04 x + 0.0 (437 voxels, overlap=1.036) Left_Amygdala (18): linear fit = 1.04 x + 0.0 (437 voxels, peak = 60), gca=59.6 gca peak = 0.33601 (57) mri peak = 0.10857 (54) Right_Amygdala (54): linear fit = 0.93 x + 0.0 (399 voxels, overlap=1.021) Right_Amygdala (54): linear fit = 0.93 x + 0.0 (399 voxels, peak = 53), gca=52.7 gca peak = 0.11131 (90) mri peak = 0.06882 (88) Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (5454 voxels, overlap=0.995) Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (5454 voxels, peak = 88), gca=87.8 gca peak = 0.11793 (83) mri peak = 0.07480 (82) Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (4516 voxels, overlap=0.978) Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (4516 voxels, peak = 83), gca=82.6 gca peak = 0.08324 (81) mri peak = 0.06930 (75) Left_Putamen (12): linear fit = 0.98 x + 0.0 (1683 voxels, overlap=0.984) Left_Putamen (12): linear fit = 0.98 x + 0.0 (1683 voxels, peak = 79), gca=79.0 gca peak = 0.10360 (77) mri peak = 0.06390 (70) Right_Putamen (51): linear fit = 0.93 x + 0.0 (1333 voxels, overlap=0.916) Right_Putamen (51): linear fit = 0.93 x + 0.0 (1333 voxels, peak = 71), gca=71.2 gca peak = 0.08424 (78) mri peak = 0.10802 (81) Brain_Stem (16): linear fit = 1.05 x + 0.0 (12175 voxels, overlap=0.476) Brain_Stem (16): linear fit = 1.05 x + 0.0 (12175 voxels, peak = 82), gca=82.3 gca peak = 0.12631 (89) mri peak = 0.07831 (89) Right_VentralDC (60): linear fit = 1.02 x + 0.0 (1753 voxels, overlap=0.824) Right_VentralDC (60): linear fit = 1.02 x + 0.0 (1753 voxels, peak = 91), gca=91.2 gca peak = 0.14500 (87) mri peak = 0.06351 (91) Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1784 voxels, overlap=0.893) Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1784 voxels, peak = 90), gca=90.0 gca peak = 0.14975 (24) mri peak = 0.15011 (19) gca peak = 0.19357 (14) mri peak = 0.10187 (16) Fourth_Ventricle (15): linear fit = 1.03 x + 0.0 (697 voxels, overlap=0.851) Fourth_Ventricle (15): linear fit = 1.03 x + 0.0 (697 voxels, peak = 14), gca=14.5 gca peak Unknown = 0.94835 ( 0) gca peak Left_Inf_Lat_Vent = 0.16825 (27) gca peak Left_Thalamus = 1.00000 (94) gca peak Third_Ventricle = 0.14975 (24) gca peak CSF = 0.23379 (36) gca peak Left_Accumbens_area = 0.70037 (62) gca peak Left_undetermined = 1.00000 (26) gca peak Left_vessel = 0.75997 (52) gca peak Left_choroid_plexus = 0.12089 (35) gca peak Right_Inf_Lat_Vent = 0.24655 (23) gca peak Right_Accumbens_area = 0.45042 (65) gca peak Right_vessel = 0.82168 (52) gca peak Right_choroid_plexus = 0.14516 (37) gca peak Fifth_Ventricle = 0.65475 (32) gca peak WM_hypointensities = 0.07854 (76) gca peak non_WM_hypointensities = 0.08491 (43) gca peak Optic_Chiasm = 0.71127 (75) not using caudate to estimate GM means estimating mean gm scale to be 1.00 x + 0.0 estimating mean wm scale to be 1.02 x + 0.0 estimating mean csf scale to be 0.97 x + 0.0 saving intensity scales to aseg.auto_noCCseg.label_intensities.txt renormalizing by structure alignment.... renormalizing input #0 gca peak = 0.21216 (17) mri peak = 0.11163 (19) Left_Lateral_Ventricle (4): linear fit = 1.03 x + 0.0 (209 voxels, overlap=0.795) Left_Lateral_Ventricle (4): linear fit = 1.03 x + 0.0 (209 voxels, peak = 18), gca=17.6 gca peak = 0.19438 (13) mri peak = 0.10218 (14) Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (433 voxels, overlap=0.767) Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (433 voxels, peak = 13), gca=13.5 gca peak = 0.24419 (89) mri peak = 0.08444 (90) Right_Pallidum (52): linear fit = 1.00 x + 0.0 (609 voxels, overlap=1.011) Right_Pallidum (52): linear fit = 1.00 x + 0.0 (609 voxels, peak = 89), gca=88.6 gca peak = 0.16840 (91) mri peak = 0.09454 (92) Left_Pallidum (13): linear fit = 1.01 x + 0.0 (671 voxels, overlap=1.008) Left_Pallidum (13): linear fit = 1.01 x + 0.0 (671 voxels, peak = 92), gca=92.4 gca peak = 0.28639 (52) mri peak = 0.09643 (57) Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (436 voxels, overlap=1.006) Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (436 voxels, peak = 52), gca=52.0 gca peak = 0.32511 (59) mri peak = 0.06878 (60) Left_Hippocampus (17): linear fit = 0.98 x + 0.0 (774 voxels, overlap=1.016) Left_Hippocampus (17): linear fit = 0.98 x + 0.0 (774 voxels, peak = 58), gca=57.5 gca peak = 0.07614 (105) mri peak = 0.06062 (102) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (31385 voxels, overlap=0.919) Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (31385 voxels, peak = 104), gca=104.5 gca peak = 0.07686 (107) mri peak = 0.05384 (102) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (39107 voxels, overlap=0.913) Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (39107 voxels, peak = 107), gca=107.0 gca peak = 0.09234 (61) mri peak = 0.04067 (61) Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (27072 voxels, overlap=0.989) Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (27072 voxels, peak = 63), gca=62.5 gca peak = 0.11325 (59) mri peak = 0.03800 (59) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (24807 voxels, overlap=0.993) Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (24807 voxels, peak = 60), gca=60.5 gca peak = 0.30222 (66) mri peak = 0.08714 (67) Right_Caudate (50): linear fit = 1.00 x + 0.0 (717 voxels, overlap=1.010) Right_Caudate (50): linear fit = 1.00 x + 0.0 (717 voxels, peak = 66), gca=66.0 gca peak = 0.16874 (68) mri peak = 0.07383 (71) Left_Caudate (11): linear fit = 1.00 x + 0.0 (744 voxels, overlap=1.001) Left_Caudate (11): linear fit = 1.00 x + 0.0 (744 voxels, peak = 68), gca=68.0 gca peak = 0.15123 (53) mri peak = 0.04998 (52) Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (15718 voxels, overlap=1.000) Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (15718 voxels, peak = 53), gca=53.0 gca peak = 0.14231 (57) mri peak = 0.04981 (58) Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (12768 voxels, overlap=0.996) Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (12768 voxels, peak = 58), gca=58.4 gca peak = 0.16015 (80) mri peak = 0.06480 (78) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (6038 voxels, overlap=0.990) Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (6038 voxels, peak = 80), gca=79.6 gca peak = 0.15054 (90) mri peak = 0.06633 (87) Right_Cerebellum_White_Matter (46): linear fit = 0.99 x + 0.0 (4777 voxels, overlap=0.979) Right_Cerebellum_White_Matter (46): linear fit = 0.99 x + 0.0 (4777 voxels, peak = 89), gca=88.7 gca peak = 0.31733 (61) mri peak = 0.07568 (62) Left_Amygdala (18): linear fit = 0.99 x + 0.0 (437 voxels, overlap=1.024) Left_Amygdala (18): linear fit = 0.99 x + 0.0 (437 voxels, peak = 60), gca=60.1 gca peak = 0.43092 (53) mri peak = 0.10857 (54) Right_Amygdala (54): linear fit = 1.00 x + 0.0 (399 voxels, overlap=1.014) Right_Amygdala (54): linear fit = 1.00 x + 0.0 (399 voxels, peak = 53), gca=53.0 gca peak = 0.11206 (86) mri peak = 0.06882 (88) Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (5454 voxels, overlap=0.996) Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (5454 voxels, peak = 86), gca=85.6 gca peak = 0.10106 (80) mri peak = 0.07480 (82) Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4516 voxels, overlap=0.972) Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4516 voxels, peak = 81), gca=81.2 gca peak = 0.08313 (79) mri peak = 0.06930 (75) Left_Putamen (12): linear fit = 1.00 x + 0.0 (1683 voxels, overlap=0.983) Left_Putamen (12): linear fit = 1.00 x + 0.0 (1683 voxels, peak = 79), gca=79.0 gca peak = 0.09183 (69) mri peak = 0.06390 (70) Right_Putamen (51): linear fit = 1.00 x + 0.0 (1333 voxels, overlap=0.999) Right_Putamen (51): linear fit = 1.00 x + 0.0 (1333 voxels, peak = 69), gca=69.0 gca peak = 0.07349 (83) mri peak = 0.10802 (81) Brain_Stem (16): linear fit = 1.00 x + 0.0 (12175 voxels, overlap=0.673) Brain_Stem (16): linear fit = 1.00 x + 0.0 (12175 voxels, peak = 83), gca=82.6 gca peak = 0.11568 (91) mri peak = 0.07831 (89) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1753 voxels, overlap=0.862) Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1753 voxels, peak = 91), gca=90.5 gca peak = 0.14313 (90) mri peak = 0.06351 (91) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1784 voxels, overlap=0.932) Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1784 voxels, peak = 90), gca=89.6 gca peak = 0.16788 (25) mri peak = 0.15011 (19) gca peak = 0.18343 (17) mri peak = 0.10187 (16) Fourth_Ventricle (15): linear fit = 1.00 x + 0.0 (697 voxels, overlap=0.863) Fourth_Ventricle (15): linear fit = 1.00 x + 0.0 (697 voxels, peak = 17), gca=17.0 gca peak Unknown = 0.94835 ( 0) gca peak Left_Inf_Lat_Vent = 0.16516 (28) gca peak Left_Thalamus = 0.64095 (94) gca peak Third_Ventricle = 0.16788 (25) gca peak CSF = 0.23379 (35) gca peak Left_Accumbens_area = 0.61943 (61) gca peak Left_undetermined = 1.00000 (26) gca peak Left_vessel = 0.75962 (52) gca peak Left_choroid_plexus = 0.12089 (35) gca peak Right_Inf_Lat_Vent = 0.24684 (22) gca peak Right_Accumbens_area = 0.43037 (65) gca peak Right_vessel = 0.82168 (52) gca peak Right_choroid_plexus = 0.14516 (37) gca peak Fifth_Ventricle = 0.65475 (31) gca peak WM_hypointensities = 0.07194 (77) gca peak non_WM_hypointensities = 0.07502 (56) gca peak Optic_Chiasm = 0.70933 (75) not using caudate to estimate GM means estimating mean gm scale to be 1.00 x + 0.0 estimating mean wm scale to be 1.00 x + 0.0 estimating mean csf scale to be 1.02 x + 0.0 saving intensity scales to aseg.auto_noCCseg.label_intensities.txt saving sequentially combined intensity scales to aseg.auto_noCCseg.label_intensities.txt 130685 voxels changed in iteration 0 of unlikely voxel relabeling 269 voxels changed in iteration 1 of unlikely voxel relabeling 8 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 65978 gm and wm labels changed (%26 to gray, %74 to white out of all changed labels) 624 hippocampal voxels changed. 0 amygdala voxels changed. pass 1: 114094 changed. image ll: -2.203, PF=0.500 pass 2: 32965 changed. image ll: -2.203, PF=0.500 pass 3: 9672 changed. pass 4: 3501 changed. 80428 voxels changed in iteration 0 of unlikely voxel relabeling 280 voxels changed in iteration 1 of unlikely voxel relabeling 16 voxels changed in iteration 2 of unlikely voxel relabeling 3 voxels changed in iteration 3 of unlikely voxel relabeling 2 voxels changed in iteration 4 of unlikely voxel relabeling 9137 voxels changed in iteration 0 of unlikely voxel relabeling 91 voxels changed in iteration 1 of unlikely voxel relabeling 0 voxels changed in iteration 2 of unlikely voxel relabeling 7934 voxels changed in iteration 0 of unlikely voxel relabeling 79 voxels changed in iteration 1 of unlikely voxel relabeling 37 voxels changed in iteration 2 of unlikely voxel relabeling 0 voxels changed in iteration 3 of unlikely voxel relabeling 6403 voxels changed in iteration 0 of unlikely voxel relabeling 45 voxels changed in iteration 1 of unlikely voxel relabeling 0 voxels changed in iteration 2 of unlikely voxel relabeling MRItoUCHAR: min=0, max=85 MRItoUCHAR: converting to UCHAR writing labeled volume to aseg.auto_noCCseg.mgz mri_ca_label utimesec 4639.638667 mri_ca_label stimesec 1.417784 mri_ca_label ru_maxrss 2138008 mri_ca_label ru_ixrss 0 mri_ca_label ru_idrss 0 mri_ca_label ru_isrss 0 mri_ca_label ru_minflt 637619 mri_ca_label ru_majflt 0 mri_ca_label ru_nswap 0 mri_ca_label ru_inblock 63360 mri_ca_label ru_oublock 584 mri_ca_label ru_msgsnd 0 mri_ca_label ru_msgrcv 0 mri_ca_label ru_nsignals 0 mri_ca_label ru_nvcsw 246 mri_ca_label ru_nivcsw 5770 auto-labeling took 76 minutes and 32 seconds. mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/transforms/cc_up.lta 0050184 will read input aseg from aseg.auto_noCCseg.mgz writing aseg with cc labels to aseg.auto.mgz will write lta as /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/transforms/cc_up.lta reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aseg.auto_noCCseg.mgz reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/norm.mgz 28282 voxels in left wm, 59580 in right wm, xrange [123, 132] searching rotation angles z=[-8 6], y=[-7 7] searching scale 1 Z rot -8.2 searching scale 1 Z rot -8.0 searching scale 1 Z rot -7.7 searching scale 1 Z rot -7.5 searching scale 1 Z rot -7.2 searching scale 1 Z rot -7.0 searching scale 1 Z rot -6.7 searching scale 1 Z rot -6.5 searching scale 1 Z rot -6.2 searching scale 1 Z rot -6.0 searching scale 1 Z rot -5.7 searching scale 1 Z rot -5.5 searching scale 1 Z rot -5.2 searching scale 1 Z rot -5.0 searching scale 1 Z rot -4.7 searching scale 1 Z rot -4.5 searching scale 1 Z rot -4.2 searching scale 1 Z rot -4.0 searching scale 1 Z rot -3.7 searching scale 1 Z rot -3.5 searching scale 1 Z rot -3.2 searching scale 1 Z rot -3.0 searching scale 1 Z rot -2.7 searching scale 1 Z rot -2.5 searching scale 1 Z rot -2.2 searching scale 1 Z rot -2.0 searching scale 1 Z rot -1.7 searching scale 1 Z rot -1.5 searching scale 1 Z rot -1.2 searching scale 1 Z rot -1.0 searching scale 1 Z rot -0.7 searching scale 1 Z rot -0.5 searching scale 1 Z rot -0.2 searching scale 1 Z rot 0.0 searching scale 1 Z rot 0.3 searching scale 1 Z rot 0.5 searching scale 1 Z rot 0.8 searching scale 1 Z rot 1.0 searching scale 1 Z rot 1.3 searching scale 1 Z rot 1.5 searching scale 1 Z rot 1.8 searching scale 1 Z rot 2.0 searching scale 1 Z rot 2.3 searching scale 1 Z rot 2.5 searching scale 1 Z rot 2.8 searching scale 1 Z rot 3.0 searching scale 1 Z rot 3.3 searching scale 1 Z rot 3.5 searching scale 1 Z rot 3.8 searching scale 1 Z rot 4.0 searching scale 1 Z rot 4.3 searching scale 1 Z rot 4.5 searching scale 1 Z rot 4.8 searching scale 1 Z rot 5.0 searching scale 1 Z rot 5.3 searching scale 1 Z rot 5.5 global minimum found at slice 128.4, rotations (-0.16, -1.22) final transformation (x=128.4, yr=-0.155, zr=-1.219): 0.99977 0.02128 -0.00271 -1.95836; -0.02128 0.99977 0.00006 43.74620; 0.00271 0.00000 1.00000 14.65190; 0.00000 0.00000 0.00000 1.00000; updating x range to be [126, 130] in xformed coordinates best xformed slice 128 cc center is found at 128 87 113 eigenvectors: 0.00071 0.00050 1.00000; -0.12910 -0.99163 0.00058; 0.99163 -0.12910 -0.00064; writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aseg.auto.mgz... corpus callosum segmentation took 0.8 minutes #-------------------------------------- #@# Merge ASeg Sat Oct 7 23:56:05 CEST 2017 cp aseg.auto.mgz aseg.presurf.mgz #-------------------------------------------- #@# Intensity Normalization2 Sat Oct 7 23:56:05 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_normalize -mprage -aseg aseg.presurf.mgz -mask brainmask.mgz norm.mgz brain.mgz assuming input volume is MGH (Van der Kouwe) MP-RAGE using segmentation for initial intensity normalization using MR volume brainmask.mgz to mask input volume... reading from norm.mgz... Reading aseg aseg.presurf.mgz normalizing image... processing with aseg removing outliers in the aseg WM... 1995 control points removed Building bias image building Voronoi diagram... performing soap bubble smoothing, sigma = 0... Smoothing with sigma 8 Applying bias correction building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Iterating 2 times --------------------------------- 3d normalization pass 1 of 2 white matter peak found at 110 white matter peak found at 104 gm peak at 65 (65), valley at 26 (26) csf peak at 33, setting threshold to 54 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... --------------------------------- 3d normalization pass 2 of 2 white matter peak found at 110 white matter peak found at 109 gm peak at 62 (62), valley at 26 (26) csf peak at 32, setting threshold to 52 building Voronoi diagram... performing soap bubble smoothing, sigma = 8... Done iterating --------------------------------- writing output to brain.mgz 3D bias adjustment took 3 minutes and 13 seconds. #-------------------------------------------- #@# Mask BFS Sat Oct 7 23:59:20 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz threshold mask volume at 5 DoAbs = 0 Found 1915427 voxels in mask (pct= 11.42) Writing masked volume to brain.finalsurfs.mgz...done. #-------------------------------------------- #@# WM Segmentation Sat Oct 7 23:59:21 CEST 2017 mri_segment -mprage brain.mgz wm.seg.mgz doing initial intensity segmentation... using local statistics to label ambiguous voxels... computing class statistics for intensity windows... WM (105.0): 105.9 +- 5.1 [79.0 --> 125.0] GM (68.0) : 66.8 +- 9.2 [30.0 --> 95.0] setting bottom of white matter range to 75.9 setting top of gray matter range to 85.1 doing initial intensity segmentation... using local statistics to label ambiguous voxels... using local geometry to label remaining ambiguous voxels... reclassifying voxels using Gaussian border classifier... removing voxels with positive offset direction... smoothing T1 volume with sigma = 0.250 removing 1-dimensional structures... 22107 sparsely connected voxels removed... thickening thin strands.... 20 segments, 6300 filled 233 bright non-wm voxels segmented. 8561 diagonally connected voxels added... white matter segmentation took 1.7 minutes writing output to wm.seg.mgz... assuming input volume is MGH (Van der Kouwe) MP-RAGE mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz preserving editing changes in input volume... auto filling took 0.51 minutes reading wm segmentation from wm.seg.mgz... 441 voxels added to wm to prevent paths from MTL structures to cortex 3889 additional wm voxels added 0 additional wm voxels added SEG EDIT: 47084 voxels turned on, 34927 voxels turned off. propagating editing to output volume from wm.seg.mgz 115,126,128 old 90 new 90 115,126,128 old 90 new 90 writing edited volume to wm.asegedit.mgz.... mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz Iteration Number : 1 pass 1 (xy+): 54 found - 54 modified | TOTAL: 54 pass 2 (xy+): 0 found - 54 modified | TOTAL: 54 pass 1 (xy-): 49 found - 49 modified | TOTAL: 103 pass 2 (xy-): 0 found - 49 modified | TOTAL: 103 pass 1 (yz+): 49 found - 49 modified | TOTAL: 152 pass 2 (yz+): 0 found - 49 modified | TOTAL: 152 pass 1 (yz-): 55 found - 55 modified | TOTAL: 207 pass 2 (yz-): 0 found - 55 modified | TOTAL: 207 pass 1 (xz+): 53 found - 53 modified | TOTAL: 260 pass 2 (xz+): 0 found - 53 modified | TOTAL: 260 pass 1 (xz-): 48 found - 48 modified | TOTAL: 308 pass 2 (xz-): 0 found - 48 modified | TOTAL: 308 Iteration Number : 1 pass 1 (+++): 62 found - 62 modified | TOTAL: 62 pass 2 (+++): 0 found - 62 modified | TOTAL: 62 pass 1 (+++): 65 found - 65 modified | TOTAL: 127 pass 2 (+++): 0 found - 65 modified | TOTAL: 127 pass 1 (+++): 108 found - 108 modified | TOTAL: 235 pass 2 (+++): 0 found - 108 modified | TOTAL: 235 pass 1 (+++): 44 found - 44 modified | TOTAL: 279 pass 2 (+++): 0 found - 44 modified | TOTAL: 279 Iteration Number : 1 pass 1 (++): 396 found - 396 modified | TOTAL: 396 pass 2 (++): 0 found - 396 modified | TOTAL: 396 pass 1 (+-): 363 found - 363 modified | TOTAL: 759 pass 2 (+-): 0 found - 363 modified | TOTAL: 759 pass 1 (--): 315 found - 315 modified | TOTAL: 1074 pass 2 (--): 0 found - 315 modified | TOTAL: 1074 pass 1 (-+): 340 found - 340 modified | TOTAL: 1414 pass 2 (-+): 0 found - 340 modified | TOTAL: 1414 Iteration Number : 2 pass 1 (xy+): 20 found - 20 modified | TOTAL: 20 pass 2 (xy+): 0 found - 20 modified | TOTAL: 20 pass 1 (xy-): 25 found - 25 modified | TOTAL: 45 pass 2 (xy-): 0 found - 25 modified | TOTAL: 45 pass 1 (yz+): 23 found - 23 modified | TOTAL: 68 pass 2 (yz+): 0 found - 23 modified | TOTAL: 68 pass 1 (yz-): 23 found - 23 modified | TOTAL: 91 pass 2 (yz-): 0 found - 23 modified | TOTAL: 91 pass 1 (xz+): 14 found - 14 modified | TOTAL: 105 pass 2 (xz+): 0 found - 14 modified | TOTAL: 105 pass 1 (xz-): 26 found - 26 modified | TOTAL: 131 pass 2 (xz-): 0 found - 26 modified | TOTAL: 131 Iteration Number : 2 pass 1 (+++): 7 found - 7 modified | TOTAL: 7 pass 2 (+++): 0 found - 7 modified | TOTAL: 7 pass 1 (+++): 4 found - 4 modified | TOTAL: 11 pass 2 (+++): 0 found - 4 modified | TOTAL: 11 pass 1 (+++): 10 found - 10 modified | TOTAL: 21 pass 2 (+++): 0 found - 10 modified | TOTAL: 21 pass 1 (+++): 4 found - 4 modified | TOTAL: 25 pass 2 (+++): 0 found - 4 modified | TOTAL: 25 Iteration Number : 2 pass 1 (++): 18 found - 18 modified | TOTAL: 18 pass 2 (++): 0 found - 18 modified | TOTAL: 18 pass 1 (+-): 6 found - 6 modified | TOTAL: 24 pass 2 (+-): 0 found - 6 modified | TOTAL: 24 pass 1 (--): 7 found - 7 modified | TOTAL: 31 pass 2 (--): 0 found - 7 modified | TOTAL: 31 pass 1 (-+): 17 found - 17 modified | TOTAL: 48 pass 2 (-+): 0 found - 17 modified | TOTAL: 48 Iteration Number : 3 pass 1 (xy+): 5 found - 5 modified | TOTAL: 5 pass 2 (xy+): 0 found - 5 modified | TOTAL: 5 pass 1 (xy-): 2 found - 2 modified | TOTAL: 7 pass 2 (xy-): 0 found - 2 modified | TOTAL: 7 pass 1 (yz+): 5 found - 5 modified | TOTAL: 12 pass 2 (yz+): 0 found - 5 modified | TOTAL: 12 pass 1 (yz-): 0 found - 0 modified | TOTAL: 12 pass 1 (xz+): 1 found - 1 modified | TOTAL: 13 pass 2 (xz+): 0 found - 1 modified | TOTAL: 13 pass 1 (xz-): 3 found - 3 modified | TOTAL: 16 pass 2 (xz-): 0 found - 3 modified | TOTAL: 16 Iteration Number : 3 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 2 found - 2 modified | TOTAL: 2 pass 2 (+++): 0 found - 2 modified | TOTAL: 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 2 pass 1 (+++): 2 found - 2 modified | TOTAL: 4 pass 2 (+++): 0 found - 2 modified | TOTAL: 4 Iteration Number : 3 pass 1 (++): 2 found - 2 modified | TOTAL: 2 pass 2 (++): 0 found - 2 modified | TOTAL: 2 pass 1 (+-): 1 found - 1 modified | TOTAL: 3 pass 2 (+-): 0 found - 1 modified | TOTAL: 3 pass 1 (--): 0 found - 0 modified | TOTAL: 3 pass 1 (-+): 1 found - 1 modified | TOTAL: 4 pass 2 (-+): 0 found - 1 modified | TOTAL: 4 Iteration Number : 4 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 2 found - 2 modified | TOTAL: 2 pass 2 (xz+): 0 found - 2 modified | TOTAL: 2 pass 1 (xz-): 1 found - 1 modified | TOTAL: 3 pass 2 (xz-): 0 found - 1 modified | TOTAL: 3 Iteration Number : 4 pass 1 (+++): 1 found - 1 modified | TOTAL: 1 pass 2 (+++): 0 found - 1 modified | TOTAL: 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 1 Iteration Number : 4 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 2 found - 2 modified | TOTAL: 2 pass 2 (--): 0 found - 2 modified | TOTAL: 2 pass 1 (-+): 0 found - 0 modified | TOTAL: 2 Iteration Number : 5 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+): 0 found - 0 modified | TOTAL: 1 pass 1 (yz-): 0 found - 0 modified | TOTAL: 1 pass 1 (xz+): 0 found - 0 modified | TOTAL: 1 pass 1 (xz-): 0 found - 0 modified | TOTAL: 1 Iteration Number : 5 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 : 5 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 : 6 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 : 6 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 : 6 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 = 2236 (out of 613272: 0.364602) binarizing input wm segmentation... Ambiguous edge configurations... mri_pretess done #-------------------------------------------- #@# Fill Sun Oct 8 00:01:38 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.auto_noCCseg.mgz wm.mgz filled.mgz logging cutting plane coordinates to ../scripts/ponscc.cut.log... INFO: Using transforms/talairach.lta and its offset for Talairach volume ... using segmentation aseg.auto_noCCseg.mgz... reading input volume...done. searching for cutting planes...voxel to talairach voxel transform 0.98385 -0.01813 -0.00432 0.53917; 0.01497 1.03481 0.23847 -18.51181; 0.00012 -0.19663 0.90302 20.33989; 0.00000 0.00000 0.00000 1.00000; voxel to talairach voxel transform 0.98385 -0.01813 -0.00432 0.53917; 0.01497 1.03481 0.23847 -18.51181; 0.00012 -0.19663 0.90302 20.33989; 0.00000 0.00000 0.00000 1.00000; reading segmented volume aseg.auto_noCCseg.mgz... Looking for area (min, max) = (350, 1400) area[0] = 753 (min = 350, max = 1400), aspect = 0.53 (min = 0.10, max = 0.75) no need to search using seed (124, 120, 147), TAL = (4.0, 19.0, 8.0) talairach voxel to voxel transform 1.01615 0.01784 0.00015 -0.22069; -0.01396 0.91994 -0.24301 21.98006; -0.00318 0.20032 1.05448 -17.73807; 0.00000 0.00000 0.00000 1.00000; segmentation indicates cc at (124, 120, 147) --> (4.0, 19.0, 8.0) done. writing output to filled.mgz... filling took 0.7 minutes talairach cc position changed to (4.00, 19.00, 8.00) Erasing brainstem...done. seed_search_size = 9, min_neighbors = 5 search rh wm seed point around talairach space:(22.00, 19.00, 8.00) SRC: (109.65, 95.17, 160.97) search lh wm seed point around talairach space (-14.00, 19.00, 8.00), SRC: (146.23, 94.67, 160.86) compute mri_fill using aseg Erasing Brain Stem and Cerebellum ... Define left and right masks using aseg: Building Voronoi diagram ... Using the Voronoi diagram to separate WM into two hemispheres ... Find the largest connected component for each hemisphere ... #-------------------------------------------- #@# Tessellate lh Sun Oct 8 00:02:20 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz Iteration Number : 1 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 2 found - 2 modified | TOTAL: 2 pass 2 (xy-): 0 found - 2 modified | TOTAL: 2 pass 1 (yz+): 1 found - 1 modified | TOTAL: 3 pass 2 (yz+): 0 found - 1 modified | TOTAL: 3 pass 1 (yz-): 1 found - 1 modified | TOTAL: 4 pass 2 (yz-): 0 found - 1 modified | TOTAL: 4 pass 1 (xz+): 2 found - 2 modified | TOTAL: 6 pass 2 (xz+): 0 found - 2 modified | TOTAL: 6 pass 1 (xz-): 0 found - 0 modified | TOTAL: 6 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 1 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 1 found - 1 modified | TOTAL: 1 pass 2 (+-): 0 found - 1 modified | TOTAL: 1 pass 1 (--): 3 found - 3 modified | TOTAL: 4 pass 2 (--): 0 found - 3 modified | TOTAL: 4 pass 1 (-+): 0 found - 0 modified | TOTAL: 4 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 = 10 (out of 301981: 0.003311) Ambiguous edge configurations... mri_pretess done mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ slice 40: 844 vertices, 968 faces slice 50: 6881 vertices, 7193 faces slice 60: 17099 vertices, 17566 faces slice 70: 30968 vertices, 31513 faces slice 80: 44710 vertices, 45200 faces slice 90: 60571 vertices, 61104 faces slice 100: 75132 vertices, 75711 faces slice 110: 90541 vertices, 91210 faces slice 120: 105304 vertices, 105945 faces slice 130: 119547 vertices, 120224 faces slice 140: 133578 vertices, 134226 faces slice 150: 147330 vertices, 148023 faces slice 160: 159091 vertices, 159776 faces slice 170: 169104 vertices, 169716 faces slice 180: 178046 vertices, 178625 faces slice 190: 185600 vertices, 186120 faces slice 200: 190945 vertices, 191421 faces slice 210: 193886 vertices, 194198 faces slice 220: 193886 vertices, 194198 faces slice 230: 193886 vertices, 194198 faces slice 240: 193886 vertices, 194198 faces slice 250: 193886 vertices, 194198 faces using the conformed surface RAS to save vertex points... writing ../surf/lh.orig.nofix using vox2ras matrix: -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; rm -f ../mri/filled-pretess255.mgz mris_extract_main_component ../surf/lh.orig.nofix ../surf/lh.orig.nofix counting number of connected components... 193886 voxel in cpt #1: X=-312 [v=193886,e=582594,f=388396] located at (-30.268389, -12.472794, 29.853104) For the whole surface: X=-312 [v=193886,e=582594,f=388396] One single component has been found nothing to do done #-------------------------------------------- #@# Tessellate rh Sun Oct 8 00:02:27 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz Iteration Number : 1 pass 1 (xy+): 1 found - 1 modified | TOTAL: 1 pass 2 (xy+): 0 found - 1 modified | TOTAL: 1 pass 1 (xy-): 1 found - 1 modified | TOTAL: 2 pass 2 (xy-): 0 found - 1 modified | TOTAL: 2 pass 1 (yz+): 4 found - 4 modified | TOTAL: 6 pass 2 (yz+): 0 found - 4 modified | TOTAL: 6 pass 1 (yz-): 1 found - 1 modified | TOTAL: 7 pass 2 (yz-): 0 found - 1 modified | TOTAL: 7 pass 1 (xz+): 0 found - 0 modified | TOTAL: 7 pass 1 (xz-): 0 found - 0 modified | TOTAL: 7 Iteration Number : 1 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 1 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (xy+): 0 found - 0 modified | TOTAL: 0 pass 1 (xy-): 0 found - 0 modified | TOTAL: 0 pass 1 (yz+): 0 found - 0 modified | TOTAL: 0 pass 1 (yz-): 0 found - 0 modified | TOTAL: 0 pass 1 (xz+): 0 found - 0 modified | TOTAL: 0 pass 1 (xz-): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 pass 1 (+++): 0 found - 0 modified | TOTAL: 0 Iteration Number : 2 pass 1 (++): 0 found - 0 modified | TOTAL: 0 pass 1 (+-): 0 found - 0 modified | TOTAL: 0 pass 1 (--): 0 found - 0 modified | TOTAL: 0 pass 1 (-+): 0 found - 0 modified | TOTAL: 0 Total Number of Modified Voxels = 7 (out of 288649: 0.002425) Ambiguous edge configurations... mri_pretess done mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ slice 40: 477 vertices, 556 faces slice 50: 4720 vertices, 4922 faces slice 60: 13161 vertices, 13536 faces slice 70: 25543 vertices, 26090 faces slice 80: 39804 vertices, 40270 faces slice 90: 55730 vertices, 56332 faces slice 100: 71181 vertices, 71777 faces slice 110: 87120 vertices, 87763 faces slice 120: 101518 vertices, 102221 faces slice 130: 115621 vertices, 116293 faces slice 140: 130101 vertices, 130869 faces slice 150: 144143 vertices, 144937 faces slice 160: 155457 vertices, 156285 faces slice 170: 166061 vertices, 166872 faces slice 180: 174559 vertices, 175331 faces slice 190: 181646 vertices, 182396 faces slice 200: 187388 vertices, 188091 faces slice 210: 190771 vertices, 191353 faces slice 220: 190920 vertices, 191460 faces slice 230: 190920 vertices, 191460 faces slice 240: 190920 vertices, 191460 faces slice 250: 190920 vertices, 191460 faces using the conformed surface RAS to save vertex points... writing ../surf/rh.orig.nofix using vox2ras matrix: -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; rm -f ../mri/filled-pretess127.mgz mris_extract_main_component ../surf/rh.orig.nofix ../surf/rh.orig.nofix counting number of connected components... 190920 voxel in cpt #1: X=-540 [v=190920,e=574380,f=382920] located at (29.403620, -10.666451, 31.321522) For the whole surface: X=-540 [v=190920,e=574380,f=382920] One single component has been found nothing to do done #-------------------------------------------- #@# Smooth1 lh Sun Oct 8 00:02:34 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix #-------------------------------------------- #@# Smooth1 rh Sun Oct 8 00:02:34 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix Waiting for PID 16941 of (16941 16944) to complete... Waiting for PID 16944 of (16941 16944) to complete... mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix setting seed for random number generator to 1234 smoothing surface tessellation for 10 iterations... smoothing complete - recomputing first and second fundamental forms... 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... PIDs (16941 16944) completed and logs appended. #-------------------------------------------- #@# Inflation1 lh Sun Oct 8 00:02:45 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix #-------------------------------------------- #@# Inflation1 rh Sun Oct 8 00:02:45 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix Waiting for PID 16996 of (16996 16999) to complete... Waiting for PID 16999 of (16996 16999) to complete... mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix Not saving sulc Reading ../surf/lh.smoothwm.nofix avg radius = 50.4 mm, total surface area = 97673 mm^2 writing inflated surface to ../surf/lh.inflated.nofix inflation took 2.0 minutes step 000: RMS=0.174 (target=0.015) step 005: RMS=0.133 (target=0.015) step 010: RMS=0.105 (target=0.015) step 015: RMS=0.094 (target=0.015) step 020: RMS=0.086 (target=0.015) step 025: RMS=0.078 (target=0.015) step 030: RMS=0.073 (target=0.015) step 035: RMS=0.069 (target=0.015) step 040: RMS=0.066 (target=0.015) step 045: RMS=0.064 (target=0.015) step 050: RMS=0.062 (target=0.015) step 055: RMS=0.061 (target=0.015) step 060: RMS=0.060 (target=0.015) inflation complete. Not saving sulc mris_inflate utimesec 119.907771 mris_inflate stimesec 0.190970 mris_inflate ru_maxrss 283508 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 40664 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 13656 mris_inflate ru_oublock 13672 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 6898 mris_inflate ru_nivcsw 10041 mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix Not saving sulc Reading ../surf/rh.smoothwm.nofix avg radius = 49.4 mm, total surface area = 95014 mm^2 writing inflated surface to ../surf/rh.inflated.nofix inflation took 2.1 minutes step 000: RMS=0.184 (target=0.015) step 005: RMS=0.143 (target=0.015) step 010: RMS=0.116 (target=0.015) step 015: RMS=0.105 (target=0.015) step 020: RMS=0.096 (target=0.015) step 025: RMS=0.090 (target=0.015) step 030: RMS=0.086 (target=0.015) step 035: RMS=0.083 (target=0.015) step 040: RMS=0.080 (target=0.015) step 045: RMS=0.077 (target=0.015) step 050: RMS=0.076 (target=0.015) step 055: RMS=0.076 (target=0.015) step 060: RMS=0.075 (target=0.015) inflation complete. Not saving sulc mris_inflate utimesec 125.449928 mris_inflate stimesec 0.166974 mris_inflate ru_maxrss 280716 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 40476 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 13456 mris_inflate ru_oublock 13472 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 3367 mris_inflate ru_nivcsw 12137 PIDs (16996 16999) completed and logs appended. #-------------------------------------------- #@# QSphere lh Sun Oct 8 00:04:49 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix #-------------------------------------------- #@# QSphere rh Sun Oct 8 00:04:49 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix Waiting for PID 17226 of (17226 17230) to complete... Waiting for PID 17230 of (17226 17230) to complete... mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix doing quick spherical unfolding. setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... vertex spacing 0.83 +- 0.55 (0.00-->7.04) (max @ vno 90220 --> 91727) face area 0.02 +- 0.03 (-0.46-->0.47) == Number of threads available to mris_sphere for OpenMP = 2 == scaling brain by 0.275... inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=176.735, avgs=0 005/300: dt: 0.9000, rms radial error=176.476, avgs=0 010/300: dt: 0.9000, rms radial error=175.920, avgs=0 015/300: dt: 0.9000, rms radial error=175.189, avgs=0 020/300: dt: 0.9000, rms radial error=174.357, avgs=0 025/300: dt: 0.9000, rms radial error=173.466, avgs=0 030/300: dt: 0.9000, rms radial error=172.542, avgs=0 035/300: dt: 0.9000, rms radial error=171.601, avgs=0 040/300: dt: 0.9000, rms radial error=170.656, avgs=0 045/300: dt: 0.9000, rms radial error=169.709, avgs=0 050/300: dt: 0.9000, rms radial error=168.762, avgs=0 055/300: dt: 0.9000, rms radial error=167.818, avgs=0 060/300: dt: 0.9000, rms radial error=166.877, avgs=0 065/300: dt: 0.9000, rms radial error=165.941, avgs=0 070/300: dt: 0.9000, rms radial error=165.010, avgs=0 075/300: dt: 0.9000, rms radial error=164.085, avgs=0 080/300: dt: 0.9000, rms radial error=163.164, avgs=0 085/300: dt: 0.9000, rms radial error=162.249, avgs=0 090/300: dt: 0.9000, rms radial error=161.338, avgs=0 095/300: dt: 0.9000, rms radial error=160.433, avgs=0 100/300: dt: 0.9000, rms radial error=159.532, avgs=0 105/300: dt: 0.9000, rms radial error=158.637, avgs=0 110/300: dt: 0.9000, rms radial error=157.746, avgs=0 115/300: dt: 0.9000, rms radial error=156.860, avgs=0 120/300: dt: 0.9000, rms radial error=155.980, avgs=0 125/300: dt: 0.9000, rms radial error=155.104, avgs=0 130/300: dt: 0.9000, rms radial error=154.233, avgs=0 135/300: dt: 0.9000, rms radial error=153.366, avgs=0 140/300: dt: 0.9000, rms radial error=152.504, avgs=0 145/300: dt: 0.9000, rms radial error=151.647, avgs=0 150/300: dt: 0.9000, rms radial error=150.794, avgs=0 155/300: dt: 0.9000, rms radial error=149.946, avgs=0 160/300: dt: 0.9000, rms radial error=149.103, avgs=0 165/300: dt: 0.9000, rms radial error=148.264, avgs=0 170/300: dt: 0.9000, rms radial error=147.430, avgs=0 175/300: dt: 0.9000, rms radial error=146.601, avgs=0 180/300: dt: 0.9000, rms radial error=145.775, avgs=0 185/300: dt: 0.9000, rms radial error=144.955, avgs=0 190/300: dt: 0.9000, rms radial error=144.139, avgs=0 195/300: dt: 0.9000, rms radial error=143.327, avgs=0 200/300: dt: 0.9000, rms radial error=142.520, avgs=0 205/300: dt: 0.9000, rms radial error=141.717, avgs=0 210/300: dt: 0.9000, rms radial error=140.919, avgs=0 215/300: dt: 0.9000, rms radial error=140.125, avgs=0 220/300: dt: 0.9000, rms radial error=139.336, avgs=0 225/300: dt: 0.9000, rms radial error=138.551, avgs=0 230/300: dt: 0.9000, rms radial error=137.771, avgs=0 235/300: dt: 0.9000, rms radial error=136.994, avgs=0 240/300: dt: 0.9000, rms radial error=136.223, avgs=0 245/300: dt: 0.9000, rms radial error=135.455, avgs=0 250/300: dt: 0.9000, rms radial error=134.692, avgs=0 255/300: dt: 0.9000, rms radial error=133.933, avgs=0 260/300: dt: 0.9000, rms radial error=133.178, avgs=0 265/300: dt: 0.9000, rms radial error=132.428, avgs=0 270/300: dt: 0.9000, rms radial error=131.681, avgs=0 275/300: dt: 0.9000, rms radial error=130.939, avgs=0 280/300: dt: 0.9000, rms radial error=130.201, avgs=0 285/300: dt: 0.9000, rms radial error=129.467, avgs=0 290/300: dt: 0.9000, rms radial error=128.737, avgs=0 295/300: dt: 0.9000, rms radial error=128.010, avgs=0 300/300: dt: 0.9000, rms radial error=127.288, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 23736.27 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 = 4426.30 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00001 epoch 3 (K=160.0), pass 1, starting sse = 584.59 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.03/10 = 0.00338 epoch 4 (K=640.0), pass 1, starting sse = 62.87 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.08/11 = 0.00719 final distance error %30.41 writing spherical brain to ../surf/lh.qsphere.nofix spherical transformation took 0.19 hours mris_sphere utimesec 687.373503 mris_sphere stimesec 0.241963 mris_sphere ru_maxrss 283704 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 40200 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 13696 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 8270 mris_sphere ru_nivcsw 46165 FSRUNTIME@ mris_sphere 0.1912 hours 1 threads 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 0.84 +- 0.57 (0.00-->8.79) (max @ vno 125513 --> 125531) face area 0.02 +- 0.03 (-0.19-->0.56) == Number of threads available to mris_sphere for OpenMP = 2 == scaling brain by 0.276... inflating to sphere (rms error < 2.00) 000: dt: 0.0000, rms radial error=177.118, avgs=0 005/300: dt: 0.9000, rms radial error=176.857, avgs=0 010/300: dt: 0.9000, rms radial error=176.298, avgs=0 015/300: dt: 0.9000, rms radial error=175.564, avgs=0 020/300: dt: 0.9000, rms radial error=174.729, avgs=0 025/300: dt: 0.9000, rms radial error=173.835, avgs=0 030/300: dt: 0.9000, rms radial error=172.910, avgs=0 035/300: dt: 0.9000, rms radial error=171.968, avgs=0 040/300: dt: 0.9000, rms radial error=171.018, avgs=0 045/300: dt: 0.9000, rms radial error=170.066, avgs=0 050/300: dt: 0.9000, rms radial error=169.116, avgs=0 055/300: dt: 0.9000, rms radial error=168.169, avgs=0 060/300: dt: 0.9000, rms radial error=167.226, avgs=0 065/300: dt: 0.9000, rms radial error=166.287, avgs=0 070/300: dt: 0.9000, rms radial error=165.352, avgs=0 075/300: dt: 0.9000, rms radial error=164.422, avgs=0 080/300: dt: 0.9000, rms radial error=163.498, avgs=0 085/300: dt: 0.9000, rms radial error=162.579, avgs=0 090/300: dt: 0.9000, rms radial error=161.664, avgs=0 095/300: dt: 0.9000, rms radial error=160.755, avgs=0 100/300: dt: 0.9000, rms radial error=159.850, avgs=0 105/300: dt: 0.9000, rms radial error=158.951, avgs=0 110/300: dt: 0.9000, rms radial error=158.057, avgs=0 115/300: dt: 0.9000, rms radial error=157.167, avgs=0 120/300: dt: 0.9000, rms radial error=156.283, avgs=0 125/300: dt: 0.9000, rms radial error=155.403, avgs=0 130/300: dt: 0.9000, rms radial error=154.528, avgs=0 135/300: dt: 0.9000, rms radial error=153.658, avgs=0 140/300: dt: 0.9000, rms radial error=152.793, avgs=0 145/300: dt: 0.9000, rms radial error=151.932, avgs=0 150/300: dt: 0.9000, rms radial error=151.077, avgs=0 155/300: dt: 0.9000, rms radial error=150.226, avgs=0 160/300: dt: 0.9000, rms radial error=149.379, avgs=0 165/300: dt: 0.9000, rms radial error=148.537, avgs=0 170/300: dt: 0.9000, rms radial error=147.700, avgs=0 175/300: dt: 0.9000, rms radial error=146.867, avgs=0 180/300: dt: 0.9000, rms radial error=146.039, avgs=0 185/300: dt: 0.9000, rms radial error=145.215, avgs=0 190/300: dt: 0.9000, rms radial error=144.396, avgs=0 195/300: dt: 0.9000, rms radial error=143.582, avgs=0 200/300: dt: 0.9000, rms radial error=142.772, avgs=0 205/300: dt: 0.9000, rms radial error=141.967, avgs=0 210/300: dt: 0.9000, rms radial error=141.168, avgs=0 215/300: dt: 0.9000, rms radial error=140.374, avgs=0 220/300: dt: 0.9000, rms radial error=139.584, avgs=0 225/300: dt: 0.9000, rms radial error=138.798, avgs=0 230/300: dt: 0.9000, rms radial error=138.017, avgs=0 235/300: dt: 0.9000, rms radial error=137.240, avgs=0 240/300: dt: 0.9000, rms radial error=136.468, avgs=0 245/300: dt: 0.9000, rms radial error=135.700, avgs=0 250/300: dt: 0.9000, rms radial error=134.936, avgs=0 255/300: dt: 0.9000, rms radial error=134.177, avgs=0 260/300: dt: 0.9000, rms radial error=133.422, avgs=0 265/300: dt: 0.9000, rms radial error=132.671, avgs=0 270/300: dt: 0.9000, rms radial error=131.924, avgs=0 275/300: dt: 0.9000, rms radial error=131.181, avgs=0 280/300: dt: 0.9000, rms radial error=130.443, avgs=0 285/300: dt: 0.9000, rms radial error=129.709, avgs=0 290/300: dt: 0.9000, rms radial error=128.979, avgs=0 295/300: dt: 0.9000, rms radial error=128.254, avgs=0 300/300: dt: 0.9000, rms radial error=127.532, avgs=0 spherical inflation complete. epoch 1 (K=10.0), pass 1, starting sse = 23441.30 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00012 epoch 2 (K=40.0), pass 1, starting sse = 4410.85 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.00/10 = 0.00001 epoch 3 (K=160.0), pass 1, starting sse = 603.60 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.01/10 = 0.00131 epoch 4 (K=640.0), pass 1, starting sse = 76.62 taking momentum steps... taking momentum steps... taking momentum steps... pass 1 complete, delta sse/iter = 0.08/11 = 0.00753 final distance error %30.24 writing spherical brain to ../surf/rh.qsphere.nofix spherical transformation took 0.20 hours mris_sphere utimesec 713.856477 mris_sphere stimesec 0.274958 mris_sphere ru_maxrss 280888 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 40006 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 13496 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 8399 mris_sphere ru_nivcsw 45456 FSRUNTIME@ mris_sphere 0.1959 hours 1 threads PIDs (17226 17230) completed and logs appended. #-------------------------------------------- #@# Fix Topology Copy lh Sun Oct 8 00:16:35 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts cp ../surf/lh.orig.nofix ../surf/lh.orig cp ../surf/lh.inflated.nofix ../surf/lh.inflated #-------------------------------------------- #@# Fix Topology Copy rh Sun Oct 8 00:16:35 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts cp ../surf/rh.orig.nofix ../surf/rh.orig cp ../surf/rh.inflated.nofix ../surf/rh.inflated #@# Fix Topology lh Sun Oct 8 00:16:35 CEST 2017 mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050184 lh #@# Fix Topology rh Sun Oct 8 00:16:35 CEST 2017 mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050184 rh Waiting for PID 17666 of (17666 17669) to complete... Waiting for PID 17669 of (17666 17669) to complete... mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050184 lh reading spherical homeomorphism from 'qsphere.nofix' using genetic algorithm with optimized parameters setting seed for random number genererator to 1234 ************************************************************* Topology Correction Parameters retessellation mode: genetic search number of patches/generation : 10 number of generations : 10 surface mri loglikelihood coefficient : 1.0 volume mri loglikelihood coefficient : 10.0 normal dot loglikelihood coefficient : 1.0 quadratic curvature loglikelihood coefficient : 1.0 volume resolution : 2 eliminate vertices during search : 1 initial patch selection : 1 select all defect vertices : 0 ordering dependant retessellation: 0 use precomputed edge table : 0 smooth retessellated patch : 2 match retessellated patch : 1 verbose mode : 0 ************************************************************* INFO: assuming .mgz format $Id: mris_fix_topology.c,v 1.50.2.1 2016/10/27 22:25:58 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ before topology correction, eno=-312 (nv=193886, nf=388396, ne=582594, g=157) 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 6 iterations marking ambiguous vertices... 22902 ambiguous faces found in tessellation segmenting defects... 170 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 9 into 8 -merging segment 13 into 12 -merging segment 29 into 26 -merging segment 22 into 28 -merging segment 79 into 73 -merging segment 85 into 81 -merging segment 105 into 98 -merging segment 117 into 111 -merging segment 126 into 113 -merging segment 128 into 115 -merging segment 129 into 115 -merging segment 119 into 118 -merging segment 125 into 124 -merging segment 142 into 144 -merging segment 154 into 150 155 defects to be corrected 0 vertices coincident reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Computing Initial Surface Statistics -face loglikelihood: -9.9423 (-4.9712) -vertex loglikelihood: -6.6183 (-3.3091) -normal dot loglikelihood: -3.5749 (-3.5749) -quad curv loglikelihood: -6.5302 (-3.2651) Total Loglikelihood : -26.6657 CORRECTING DEFECT 0 (vertices=28, convex hull=59, v0=136) After retessellation of defect 0 (v0=136), euler #=-162 (180037,534768,354569) : difference with theory (-152) = 10 CORRECTING DEFECT 1 (vertices=68, convex hull=102, v0=261) After retessellation of defect 1 (v0=261), euler #=-162 (180063,534899,354674) : difference with theory (-151) = 11 CORRECTING DEFECT 2 (vertices=24, convex hull=43, v0=543) After retessellation of defect 2 (v0=543), euler #=-161 (180071,534936,354704) : difference with theory (-150) = 11 CORRECTING DEFECT 3 (vertices=14, convex hull=25, v0=795) After retessellation of defect 3 (v0=795), euler #=-160 (180074,534953,354719) : difference with theory (-149) = 11 CORRECTING DEFECT 4 (vertices=41, convex hull=34, v0=844) After retessellation of defect 4 (v0=844), euler #=-159 (180076,534969,354734) : difference with theory (-148) = 11 CORRECTING DEFECT 5 (vertices=20, convex hull=58, v0=1386) After retessellation of defect 5 (v0=1386), euler #=-158 (180085,535020,354777) : difference with theory (-147) = 11 CORRECTING DEFECT 6 (vertices=35, convex hull=67, v0=1565) After retessellation of defect 6 (v0=1565), euler #=-157 (180096,535080,354827) : difference with theory (-146) = 11 CORRECTING DEFECT 7 (vertices=25, convex hull=17, v0=2090) After retessellation of defect 7 (v0=2090), euler #=-156 (180096,535082,354830) : difference with theory (-145) = 11 CORRECTING DEFECT 8 (vertices=71, convex hull=114, v0=3073) After retessellation of defect 8 (v0=3073), euler #=-154 (180121,535205,354930) : difference with theory (-144) = 10 CORRECTING DEFECT 9 (vertices=233, convex hull=129, v0=6441) After retessellation of defect 9 (v0=6441), euler #=-153 (180174,535418,355091) : difference with theory (-143) = 10 CORRECTING DEFECT 10 (vertices=277, convex hull=125, v0=7570) After retessellation of defect 10 (v0=7570), euler #=-152 (180217,535609,355240) : difference with theory (-142) = 10 CORRECTING DEFECT 11 (vertices=56, convex hull=85, v0=9892) After retessellation of defect 11 (v0=9892), euler #=-150 (180242,535726,355334) : difference with theory (-141) = 9 CORRECTING DEFECT 12 (vertices=71, convex hull=67, v0=12831) After retessellation of defect 12 (v0=12831), euler #=-149 (180258,535802,355395) : difference with theory (-140) = 9 CORRECTING DEFECT 13 (vertices=30, convex hull=43, v0=13964) After retessellation of defect 13 (v0=13964), euler #=-148 (180264,535835,355423) : difference with theory (-139) = 9 CORRECTING DEFECT 14 (vertices=6, convex hull=36, v0=14058) After retessellation of defect 14 (v0=14058), euler #=-147 (180266,535850,355437) : difference with theory (-138) = 9 CORRECTING DEFECT 15 (vertices=40, convex hull=76, v0=14317) After retessellation of defect 15 (v0=14317), euler #=-146 (180282,535929,355501) : difference with theory (-137) = 9 CORRECTING DEFECT 16 (vertices=38, convex hull=61, v0=14453) After retessellation of defect 16 (v0=14453), euler #=-145 (180286,535967,355536) : difference with theory (-136) = 9 CORRECTING DEFECT 17 (vertices=113, convex hull=96, v0=15867) After retessellation of defect 17 (v0=15867), euler #=-144 (180314,536090,355632) : difference with theory (-135) = 9 CORRECTING DEFECT 18 (vertices=21, convex hull=60, v0=16696) After retessellation of defect 18 (v0=16696), euler #=-143 (180322,536135,355670) : difference with theory (-134) = 9 CORRECTING DEFECT 19 (vertices=36, convex hull=83, v0=17010) After retessellation of defect 19 (v0=17010), euler #=-142 (180337,536213,355734) : difference with theory (-133) = 9 CORRECTING DEFECT 20 (vertices=233, convex hull=126, v0=17954) After retessellation of defect 20 (v0=17954), euler #=-141 (180366,536360,355853) : difference with theory (-132) = 9 CORRECTING DEFECT 21 (vertices=37, convex hull=36, v0=18905) After retessellation of defect 21 (v0=18905), euler #=-140 (180375,536399,355884) : difference with theory (-131) = 9 CORRECTING DEFECT 22 (vertices=707, convex hull=240, v0=19223) After retessellation of defect 22 (v0=19223), euler #=-139 (180562,537088,356387) : difference with theory (-130) = 9 CORRECTING DEFECT 23 (vertices=87, convex hull=105, v0=20229) After retessellation of defect 23 (v0=20229), euler #=-137 (180576,537172,356459) : difference with theory (-129) = 8 CORRECTING DEFECT 24 (vertices=9, convex hull=41, v0=20356) After retessellation of defect 24 (v0=20356), euler #=-136 (180578,537188,356474) : difference with theory (-128) = 8 CORRECTING DEFECT 25 (vertices=216, convex hull=103, v0=24526) After retessellation of defect 25 (v0=24526), euler #=-134 (180614,537342,356594) : difference with theory (-127) = 7 CORRECTING DEFECT 26 (vertices=44, convex hull=31, v0=28028) After retessellation of defect 26 (v0=28028), euler #=-133 (180618,537363,356612) : difference with theory (-126) = 7 CORRECTING DEFECT 27 (vertices=62, convex hull=76, v0=29104) After retessellation of defect 27 (v0=29104), euler #=-132 (180631,537434,356671) : difference with theory (-125) = 7 CORRECTING DEFECT 28 (vertices=25, convex hull=62, v0=33356) After retessellation of defect 28 (v0=33356), euler #=-131 (180637,537474,356706) : difference with theory (-124) = 7 CORRECTING DEFECT 29 (vertices=31, convex hull=57, v0=33565) After retessellation of defect 29 (v0=33565), euler #=-130 (180648,537530,356752) : difference with theory (-123) = 7 CORRECTING DEFECT 30 (vertices=78, convex hull=77, v0=34658) After retessellation of defect 30 (v0=34658), euler #=-129 (180664,537613,356820) : difference with theory (-122) = 7 CORRECTING DEFECT 31 (vertices=317, convex hull=156, v0=34804) After retessellation of defect 31 (v0=34804), euler #=-128 (180735,537894,357031) : difference with theory (-121) = 7 CORRECTING DEFECT 32 (vertices=22, convex hull=30, v0=34865) After retessellation of defect 32 (v0=34865), euler #=-127 (180737,537909,357045) : difference with theory (-120) = 7 CORRECTING DEFECT 33 (vertices=29, convex hull=47, v0=35849) After retessellation of defect 33 (v0=35849), euler #=-126 (180747,537957,357084) : difference with theory (-119) = 7 CORRECTING DEFECT 34 (vertices=52, convex hull=69, v0=36452) After retessellation of defect 34 (v0=36452), euler #=-125 (180767,538043,357151) : difference with theory (-118) = 7 CORRECTING DEFECT 35 (vertices=50, convex hull=78, v0=39746) After retessellation of defect 35 (v0=39746), euler #=-124 (180782,538123,357217) : difference with theory (-117) = 7 CORRECTING DEFECT 36 (vertices=73, convex hull=106, v0=41862) After retessellation of defect 36 (v0=41862), euler #=-123 (180807,538241,357311) : difference with theory (-116) = 7 CORRECTING DEFECT 37 (vertices=170, convex hull=96, v0=42084) After retessellation of defect 37 (v0=42084), euler #=-122 (180851,538414,357441) : difference with theory (-115) = 7 CORRECTING DEFECT 38 (vertices=54, convex hull=55, v0=43191) After retessellation of defect 38 (v0=43191), euler #=-121 (180864,538475,357490) : difference with theory (-114) = 7 CORRECTING DEFECT 39 (vertices=30, convex hull=78, v0=44638) After retessellation of defect 39 (v0=44638), euler #=-120 (180873,538530,357537) : difference with theory (-113) = 7 CORRECTING DEFECT 40 (vertices=98, convex hull=84, v0=45573) After retessellation of defect 40 (v0=45573), euler #=-119 (180906,538666,357641) : difference with theory (-112) = 7 CORRECTING DEFECT 41 (vertices=364, convex hull=62, v0=47530) After retessellation of defect 41 (v0=47530), euler #=-118 (180918,538724,357688) : difference with theory (-111) = 7 CORRECTING DEFECT 42 (vertices=64, convex hull=28, v0=47762) After retessellation of defect 42 (v0=47762), euler #=-117 (180924,538749,357708) : difference with theory (-110) = 7 CORRECTING DEFECT 43 (vertices=42, convex hull=43, v0=48711) After retessellation of defect 43 (v0=48711), euler #=-116 (180929,538779,357734) : difference with theory (-109) = 7 CORRECTING DEFECT 44 (vertices=92, convex hull=30, v0=49944) After retessellation of defect 44 (v0=49944), euler #=-115 (180938,538814,357761) : difference with theory (-108) = 7 CORRECTING DEFECT 45 (vertices=22, convex hull=69, v0=50581) After retessellation of defect 45 (v0=50581), euler #=-114 (180947,538866,357805) : difference with theory (-107) = 7 CORRECTING DEFECT 46 (vertices=8, convex hull=23, v0=50810) After retessellation of defect 46 (v0=50810), euler #=-113 (180948,538878,357817) : difference with theory (-106) = 7 CORRECTING DEFECT 47 (vertices=165, convex hull=45, v0=51234) After retessellation of defect 47 (v0=51234), euler #=-112 (180956,538915,357847) : difference with theory (-105) = 7 CORRECTING DEFECT 48 (vertices=33, convex hull=78, v0=52268) After retessellation of defect 48 (v0=52268), euler #=-111 (180973,539000,357916) : difference with theory (-104) = 7 CORRECTING DEFECT 49 (vertices=21, convex hull=49, v0=55652) After retessellation of defect 49 (v0=55652), euler #=-110 (180980,539037,357947) : difference with theory (-103) = 7 CORRECTING DEFECT 50 (vertices=46, convex hull=94, v0=59572) After retessellation of defect 50 (v0=59572), euler #=-109 (181012,539177,358056) : difference with theory (-102) = 7 CORRECTING DEFECT 51 (vertices=65, convex hull=74, v0=61175) After retessellation of defect 51 (v0=61175), euler #=-108 (181047,539316,358161) : difference with theory (-101) = 7 CORRECTING DEFECT 52 (vertices=129, convex hull=122, v0=61611) After retessellation of defect 52 (v0=61611), euler #=-107 (181094,539512,358311) : difference with theory (-100) = 7 CORRECTING DEFECT 53 (vertices=37, convex hull=72, v0=62524) After retessellation of defect 53 (v0=62524), euler #=-106 (181104,539569,358359) : difference with theory (-99) = 7 CORRECTING DEFECT 54 (vertices=61, convex hull=81, v0=63684) After retessellation of defect 54 (v0=63684), euler #=-105 (181127,539674,358442) : difference with theory (-98) = 7 CORRECTING DEFECT 55 (vertices=68, convex hull=91, v0=66557) After retessellation of defect 55 (v0=66557), euler #=-104 (181154,539790,358532) : difference with theory (-97) = 7 CORRECTING DEFECT 56 (vertices=48, convex hull=87, v0=67069) After retessellation of defect 56 (v0=67069), euler #=-103 (181185,539920,358632) : difference with theory (-96) = 7 CORRECTING DEFECT 57 (vertices=24, convex hull=34, v0=68447) After retessellation of defect 57 (v0=68447), euler #=-102 (181187,539935,358646) : difference with theory (-95) = 7 CORRECTING DEFECT 58 (vertices=25, convex hull=74, v0=69420) After retessellation of defect 58 (v0=69420), euler #=-101 (181198,539995,358696) : difference with theory (-94) = 7 CORRECTING DEFECT 59 (vertices=34, convex hull=65, v0=69541) After retessellation of defect 59 (v0=69541), euler #=-100 (181219,540084,358765) : difference with theory (-93) = 7 CORRECTING DEFECT 60 (vertices=43, convex hull=55, v0=71808) After retessellation of defect 60 (v0=71808), euler #=-99 (181233,540144,358812) : difference with theory (-92) = 7 CORRECTING DEFECT 61 (vertices=19, convex hull=27, v0=72259) After retessellation of defect 61 (v0=72259), euler #=-98 (181236,540161,358827) : difference with theory (-91) = 7 CORRECTING DEFECT 62 (vertices=40, convex hull=87, v0=73735) After retessellation of defect 62 (v0=73735), euler #=-97 (181254,540251,358900) : difference with theory (-90) = 7 CORRECTING DEFECT 63 (vertices=38, convex hull=57, v0=75133) After retessellation of defect 63 (v0=75133), euler #=-96 (181272,540327,358959) : difference with theory (-89) = 7 CORRECTING DEFECT 64 (vertices=100, convex hull=131, v0=76606) After retessellation of defect 64 (v0=76606), euler #=-95 (181308,540495,359092) : difference with theory (-88) = 7 CORRECTING DEFECT 65 (vertices=19, convex hull=24, v0=76650) After retessellation of defect 65 (v0=76650), euler #=-94 (181309,540507,359104) : difference with theory (-87) = 7 CORRECTING DEFECT 66 (vertices=134, convex hull=213, v0=77686) After retessellation of defect 66 (v0=77686), euler #=-93 (181325,540653,359235) : difference with theory (-86) = 7 CORRECTING DEFECT 67 (vertices=141, convex hull=125, v0=77919) After retessellation of defect 67 (v0=77919), euler #=-92 (181387,540890,359411) : difference with theory (-85) = 7 CORRECTING DEFECT 68 (vertices=210, convex hull=189, v0=80079) After retessellation of defect 68 (v0=80079), euler #=-91 (181461,541207,359655) : difference with theory (-84) = 7 CORRECTING DEFECT 69 (vertices=529, convex hull=531, v0=81442) L defect detected... After retessellation of defect 69 (v0=81442), euler #=-90 (181657,542074,360327) : difference with theory (-83) = 7 CORRECTING DEFECT 70 (vertices=78, convex hull=123, v0=81986) After retessellation of defect 70 (v0=81986), euler #=-89 (181697,542247,360461) : difference with theory (-82) = 7 CORRECTING DEFECT 71 (vertices=136, convex hull=39, v0=82580) After retessellation of defect 71 (v0=82580), euler #=-88 (181711,542301,360502) : difference with theory (-81) = 7 CORRECTING DEFECT 72 (vertices=50, convex hull=94, v0=82868) After retessellation of defect 72 (v0=82868), euler #=-87 (181738,542422,360597) : difference with theory (-80) = 7 CORRECTING DEFECT 73 (vertices=36, convex hull=65, v0=83251) After retessellation of defect 73 (v0=83251), euler #=-86 (181762,542522,360674) : difference with theory (-79) = 7 CORRECTING DEFECT 74 (vertices=135, convex hull=40, v0=86105) After retessellation of defect 74 (v0=86105), euler #=-85 (181772,542568,360711) : difference with theory (-78) = 7 CORRECTING DEFECT 75 (vertices=16, convex hull=26, v0=92717) After retessellation of defect 75 (v0=92717), euler #=-84 (181774,542586,360728) : difference with theory (-77) = 7 CORRECTING DEFECT 76 (vertices=78, convex hull=46, v0=93696) After retessellation of defect 76 (v0=93696), euler #=-82 (181781,542624,360761) : difference with theory (-76) = 6 CORRECTING DEFECT 77 (vertices=54, convex hull=93, v0=94241) After retessellation of defect 77 (v0=94241), euler #=-81 (181818,542773,360874) : difference with theory (-75) = 6 CORRECTING DEFECT 78 (vertices=10, convex hull=27, v0=96105) After retessellation of defect 78 (v0=96105), euler #=-80 (181820,542788,360888) : difference with theory (-74) = 6 CORRECTING DEFECT 79 (vertices=71, convex hull=105, v0=96678) After retessellation of defect 79 (v0=96678), euler #=-79 (181857,542939,361003) : difference with theory (-73) = 6 CORRECTING DEFECT 80 (vertices=65, convex hull=59, v0=103411) After retessellation of defect 80 (v0=103411), euler #=-78 (181883,543044,361083) : difference with theory (-72) = 6 CORRECTING DEFECT 81 (vertices=52, convex hull=31, v0=103527) After retessellation of defect 81 (v0=103527), euler #=-77 (181891,543077,361109) : difference with theory (-71) = 6 CORRECTING DEFECT 82 (vertices=467, convex hull=255, v0=104980) After retessellation of defect 82 (v0=104980), euler #=-76 (181945,543371,361350) : difference with theory (-70) = 6 CORRECTING DEFECT 83 (vertices=14, convex hull=25, v0=105856) After retessellation of defect 83 (v0=105856), euler #=-75 (181946,543383,361362) : difference with theory (-69) = 6 CORRECTING DEFECT 84 (vertices=34, convex hull=45, v0=107013) After retessellation of defect 84 (v0=107013), euler #=-74 (181953,543424,361397) : difference with theory (-68) = 6 CORRECTING DEFECT 85 (vertices=14, convex hull=19, v0=113852) After retessellation of defect 85 (v0=113852), euler #=-73 (181955,543435,361407) : difference with theory (-67) = 6 CORRECTING DEFECT 86 (vertices=101, convex hull=50, v0=114453) After retessellation of defect 86 (v0=114453), euler #=-72 (181969,543495,361454) : difference with theory (-66) = 6 CORRECTING DEFECT 87 (vertices=13, convex hull=21, v0=115076) After retessellation of defect 87 (v0=115076), euler #=-71 (181972,543509,361466) : difference with theory (-65) = 6 CORRECTING DEFECT 88 (vertices=30, convex hull=74, v0=116041) After retessellation of defect 88 (v0=116041), euler #=-70 (181990,543592,361532) : difference with theory (-64) = 6 CORRECTING DEFECT 89 (vertices=181, convex hull=131, v0=116257) After retessellation of defect 89 (v0=116257), euler #=-70 (182053,543849,361726) : difference with theory (-63) = 7 CORRECTING DEFECT 90 (vertices=54, convex hull=47, v0=117265) After retessellation of defect 90 (v0=117265), euler #=-69 (182063,543899,361767) : difference with theory (-62) = 7 CORRECTING DEFECT 91 (vertices=11, convex hull=22, v0=119222) After retessellation of defect 91 (v0=119222), euler #=-68 (182065,543912,361779) : difference with theory (-61) = 7 CORRECTING DEFECT 92 (vertices=138, convex hull=179, v0=119311) After retessellation of defect 92 (v0=119311), euler #=-66 (182117,544161,361978) : difference with theory (-60) = 6 CORRECTING DEFECT 93 (vertices=146, convex hull=47, v0=119547) After retessellation of defect 93 (v0=119547), euler #=-65 (182132,544226,362029) : difference with theory (-59) = 6 CORRECTING DEFECT 94 (vertices=33, convex hull=78, v0=121549) After retessellation of defect 94 (v0=121549), euler #=-64 (182148,544300,362088) : difference with theory (-58) = 6 CORRECTING DEFECT 95 (vertices=37, convex hull=50, v0=121570) After retessellation of defect 95 (v0=121570), euler #=-63 (182167,544376,362146) : difference with theory (-57) = 6 CORRECTING DEFECT 96 (vertices=129, convex hull=94, v0=121795) After retessellation of defect 96 (v0=121795), euler #=-62 (182201,544523,362260) : difference with theory (-56) = 6 CORRECTING DEFECT 97 (vertices=106, convex hull=131, v0=122387) After retessellation of defect 97 (v0=122387), euler #=-61 (182248,544723,362414) : difference with theory (-55) = 6 CORRECTING DEFECT 98 (vertices=22, convex hull=31, v0=122569) After retessellation of defect 98 (v0=122569), euler #=-60 (182250,544739,362429) : difference with theory (-54) = 6 CORRECTING DEFECT 99 (vertices=77, convex hull=110, v0=123852) After retessellation of defect 99 (v0=123852), euler #=-60 (182284,544908,362564) : difference with theory (-53) = 7 CORRECTING DEFECT 100 (vertices=36, convex hull=70, v0=126153) After retessellation of defect 100 (v0=126153), euler #=-59 (182308,545005,362638) : difference with theory (-52) = 7 CORRECTING DEFECT 101 (vertices=67, convex hull=96, v0=130623) After retessellation of defect 101 (v0=130623), euler #=-58 (182319,545081,362704) : difference with theory (-51) = 7 CORRECTING DEFECT 102 (vertices=351, convex hull=152, v0=130699) After retessellation of defect 102 (v0=130699), euler #=-57 (182370,545305,362878) : difference with theory (-50) = 7 CORRECTING DEFECT 103 (vertices=24, convex hull=30, v0=130764) After retessellation of defect 103 (v0=130764), euler #=-56 (182373,545323,362894) : difference with theory (-49) = 7 CORRECTING DEFECT 104 (vertices=140, convex hull=113, v0=130903) After retessellation of defect 104 (v0=130903), euler #=-54 (182405,545474,363015) : difference with theory (-48) = 6 CORRECTING DEFECT 105 (vertices=6, convex hull=15, v0=131293) After retessellation of defect 105 (v0=131293), euler #=-53 (182405,545478,363020) : difference with theory (-47) = 6 CORRECTING DEFECT 106 (vertices=968, convex hull=412, v0=131843) L defect detected... After retessellation of defect 106 (v0=131843), euler #=-52 (182645,546427,363730) : difference with theory (-46) = 6 CORRECTING DEFECT 107 (vertices=14, convex hull=30, v0=133165) After retessellation of defect 107 (v0=133165), euler #=-51 (182650,546453,363752) : difference with theory (-45) = 6 CORRECTING DEFECT 108 (vertices=381, convex hull=265, v0=134397) After retessellation of defect 108 (v0=134397), euler #=-48 (182703,546743,363992) : difference with theory (-44) = 4 CORRECTING DEFECT 109 (vertices=23, convex hull=76, v0=134538) After retessellation of defect 109 (v0=134538), euler #=-47 (182716,546811,364048) : difference with theory (-43) = 4 CORRECTING DEFECT 110 (vertices=149, convex hull=159, v0=134734) After retessellation of defect 110 (v0=134734), euler #=-45 (182778,547071,364248) : difference with theory (-42) = 3 CORRECTING DEFECT 111 (vertices=24, convex hull=51, v0=135554) After retessellation of defect 111 (v0=135554), euler #=-44 (182787,547117,364286) : difference with theory (-41) = 3 CORRECTING DEFECT 112 (vertices=15, convex hull=29, v0=135730) After retessellation of defect 112 (v0=135730), euler #=-43 (182793,547142,364306) : difference with theory (-40) = 3 CORRECTING DEFECT 113 (vertices=58, convex hull=40, v0=136113) After retessellation of defect 113 (v0=136113), euler #=-42 (182800,547180,364338) : difference with theory (-39) = 3 CORRECTING DEFECT 114 (vertices=31, convex hull=59, v0=137878) After retessellation of defect 114 (v0=137878), euler #=-41 (182810,547232,364381) : difference with theory (-38) = 3 CORRECTING DEFECT 115 (vertices=105, convex hull=123, v0=138399) After retessellation of defect 115 (v0=138399), euler #=-39 (182819,547309,364451) : difference with theory (-37) = 2 CORRECTING DEFECT 116 (vertices=225, convex hull=76, v0=141402) After retessellation of defect 116 (v0=141402), euler #=-38 (182833,547384,364513) : difference with theory (-36) = 2 CORRECTING DEFECT 117 (vertices=107, convex hull=70, v0=148634) After retessellation of defect 117 (v0=148634), euler #=-37 (182856,547487,364594) : difference with theory (-35) = 2 CORRECTING DEFECT 118 (vertices=17, convex hull=29, v0=149354) After retessellation of defect 118 (v0=149354), euler #=-36 (182859,547506,364611) : difference with theory (-34) = 2 CORRECTING DEFECT 119 (vertices=6, convex hull=32, v0=149645) After retessellation of defect 119 (v0=149645), euler #=-35 (182861,547519,364623) : difference with theory (-33) = 2 CORRECTING DEFECT 120 (vertices=6, convex hull=24, v0=149711) After retessellation of defect 120 (v0=149711), euler #=-34 (182863,547533,364636) : difference with theory (-32) = 2 CORRECTING DEFECT 121 (vertices=50, convex hull=81, v0=149881) After retessellation of defect 121 (v0=149881), euler #=-33 (182881,547619,364705) : difference with theory (-31) = 2 CORRECTING DEFECT 122 (vertices=94, convex hull=117, v0=151740) After retessellation of defect 122 (v0=151740), euler #=-32 (182924,547796,364840) : difference with theory (-30) = 2 CORRECTING DEFECT 123 (vertices=229, convex hull=184, v0=151881) After retessellation of defect 123 (v0=151881), euler #=-31 (182978,548039,365030) : difference with theory (-29) = 2 CORRECTING DEFECT 124 (vertices=28, convex hull=26, v0=151903) After retessellation of defect 124 (v0=151903), euler #=-30 (182981,548054,365043) : difference with theory (-28) = 2 CORRECTING DEFECT 125 (vertices=16, convex hull=56, v0=152776) After retessellation of defect 125 (v0=152776), euler #=-29 (182990,548104,365085) : difference with theory (-27) = 2 CORRECTING DEFECT 126 (vertices=21, convex hull=26, v0=154830) After retessellation of defect 126 (v0=154830), euler #=-28 (182993,548122,365101) : difference with theory (-26) = 2 CORRECTING DEFECT 127 (vertices=26, convex hull=54, v0=156488) After retessellation of defect 127 (v0=156488), euler #=-27 (183002,548167,365138) : difference with theory (-25) = 2 CORRECTING DEFECT 128 (vertices=27, convex hull=32, v0=157724) After retessellation of defect 128 (v0=157724), euler #=-26 (183006,548189,365157) : difference with theory (-24) = 2 CORRECTING DEFECT 129 (vertices=33, convex hull=58, v0=157997) After retessellation of defect 129 (v0=157997), euler #=-25 (183020,548255,365210) : difference with theory (-23) = 2 CORRECTING DEFECT 130 (vertices=72, convex hull=105, v0=158958) After retessellation of defect 130 (v0=158958), euler #=-23 (183048,548384,365313) : difference with theory (-22) = 1 CORRECTING DEFECT 131 (vertices=31, convex hull=61, v0=159011) After retessellation of defect 131 (v0=159011), euler #=-22 (183061,548449,365366) : difference with theory (-21) = 1 CORRECTING DEFECT 132 (vertices=35, convex hull=72, v0=159899) After retessellation of defect 132 (v0=159899), euler #=-21 (183070,548505,365414) : difference with theory (-20) = 1 CORRECTING DEFECT 133 (vertices=499, convex hull=182, v0=161855) After retessellation of defect 133 (v0=161855), euler #=-20 (183156,548850,365674) : difference with theory (-19) = 1 CORRECTING DEFECT 134 (vertices=235, convex hull=125, v0=162069) After retessellation of defect 134 (v0=162069), euler #=-19 (183204,549051,365828) : difference with theory (-18) = 1 CORRECTING DEFECT 135 (vertices=71, convex hull=46, v0=162125) After retessellation of defect 135 (v0=162125), euler #=-18 (183214,549098,365866) : difference with theory (-17) = 1 CORRECTING DEFECT 136 (vertices=38, convex hull=42, v0=162842) After retessellation of defect 136 (v0=162842), euler #=-16 (183214,549117,365887) : difference with theory (-16) = 0 CORRECTING DEFECT 137 (vertices=36, convex hull=62, v0=163372) After retessellation of defect 137 (v0=163372), euler #=-15 (183220,549161,365926) : difference with theory (-15) = 0 CORRECTING DEFECT 138 (vertices=34, convex hull=51, v0=163547) After retessellation of defect 138 (v0=163547), euler #=-14 (183235,549228,365979) : difference with theory (-14) = 0 CORRECTING DEFECT 139 (vertices=45, convex hull=74, v0=163995) After retessellation of defect 139 (v0=163995), euler #=-13 (183263,549342,366066) : difference with theory (-13) = 0 CORRECTING DEFECT 140 (vertices=29, convex hull=72, v0=167366) After retessellation of defect 140 (v0=167366), euler #=-12 (183283,549428,366133) : difference with theory (-12) = 0 CORRECTING DEFECT 141 (vertices=25, convex hull=77, v0=167498) After retessellation of defect 141 (v0=167498), euler #=-11 (183297,549498,366190) : difference with theory (-11) = 0 CORRECTING DEFECT 142 (vertices=41, convex hull=51, v0=168092) After retessellation of defect 142 (v0=168092), euler #=-10 (183311,549558,366237) : difference with theory (-10) = 0 CORRECTING DEFECT 143 (vertices=60, convex hull=86, v0=170942) After retessellation of defect 143 (v0=170942), euler #=-9 (183325,549636,366302) : difference with theory (-9) = 0 CORRECTING DEFECT 144 (vertices=47, convex hull=99, v0=172212) After retessellation of defect 144 (v0=172212), euler #=-8 (183351,549763,366404) : difference with theory (-8) = 0 CORRECTING DEFECT 145 (vertices=28, convex hull=56, v0=175518) After retessellation of defect 145 (v0=175518), euler #=-7 (183359,549813,366447) : difference with theory (-7) = 0 CORRECTING DEFECT 146 (vertices=39, convex hull=31, v0=180486) After retessellation of defect 146 (v0=180486), euler #=-6 (183362,549830,366462) : difference with theory (-6) = 0 CORRECTING DEFECT 147 (vertices=43, convex hull=76, v0=180752) After retessellation of defect 147 (v0=180752), euler #=-5 (183379,549913,366529) : difference with theory (-5) = 0 CORRECTING DEFECT 148 (vertices=36, convex hull=58, v0=187985) After retessellation of defect 148 (v0=187985), euler #=-4 (183390,549972,366578) : difference with theory (-4) = 0 CORRECTING DEFECT 149 (vertices=37, convex hull=50, v0=188420) After retessellation of defect 149 (v0=188420), euler #=-3 (183408,550042,366631) : difference with theory (-3) = 0 CORRECTING DEFECT 150 (vertices=111, convex hull=72, v0=188682) After retessellation of defect 150 (v0=188682), euler #=-2 (183418,550104,366684) : difference with theory (-2) = 0 CORRECTING DEFECT 151 (vertices=49, convex hull=67, v0=188868) After retessellation of defect 151 (v0=188868), euler #=-1 (183430,550168,366737) : difference with theory (-1) = 0 CORRECTING DEFECT 152 (vertices=154, convex hull=104, v0=188892) After retessellation of defect 152 (v0=188892), euler #=0 (183471,550346,366875) : difference with theory (0) = 0 CORRECTING DEFECT 153 (vertices=48, convex hull=68, v0=189695) After retessellation of defect 153 (v0=189695), euler #=1 (183490,550431,366942) : difference with theory (1) = 0 CORRECTING DEFECT 154 (vertices=45, convex hull=80, v0=190764) After retessellation of defect 154 (v0=190764), euler #=2 (183509,550521,367014) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.88 +- 0.27 (0.03-->10.73) (max @ vno 25792 --> 182251) face area 0.00 +- 0.00 (0.00-->0.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.88 +- 0.27 (0.03-->10.73) (max @ vno 25792 --> 182251) face area 0.00 +- 0.00 (0.00-->0.00) tessellation finished, orienting corrected surface... 517 mutations (34.4%), 988 crossovers (65.6%), 720 vertices were eliminated building final representation... 10377 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=183509, nf=367014, ne=550521, g=0) writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.orig... 0.000 % of the vertices (0 vertices) exhibit an orientation change topology fixing took 235.5 minutes 0 defective edges removing intersecting faces 000: 1038 intersecting 001: 88 intersecting 002: 25 intersecting 003: 13 intersecting mris_fix_topology utimesec 14134.089291 mris_fix_topology stimesec 0.916860 mris_fix_topology ru_maxrss 603524 mris_fix_topology ru_ixrss 0 mris_fix_topology ru_idrss 0 mris_fix_topology ru_isrss 0 mris_fix_topology ru_minflt 72256 mris_fix_topology ru_majflt 0 mris_fix_topology ru_nswap 0 mris_fix_topology ru_inblock 36696 mris_fix_topology ru_oublock 18720 mris_fix_topology ru_msgsnd 0 mris_fix_topology ru_msgrcv 0 mris_fix_topology ru_nsignals 0 mris_fix_topology ru_nvcsw 848 mris_fix_topology ru_nivcsw 50578 FSRUNTIME@ mris_fix_topology lh 3.9255 hours 1 threads mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050184 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=-540 (nv=190920, nf=382920, ne=574380, g=271) 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... 32522 ambiguous faces found in tessellation segmenting defects... 197 defects found, arbitrating ambiguous regions... analyzing neighboring defects... -merging segment 33 into 26 -merging segment 69 into 68 -merging segment 90 into 84 -merging segment 94 into 93 -merging segment 102 into 93 -merging segment 113 into 109 -merging segment 116 into 114 -merging segment 131 into 121 -merging segment 151 into 140 -merging segment 138 into 142 -merging segment 171 into 165 186 defects to be corrected 0 vertices coincident reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.qsphere.nofix... reading brain volume from brain... reading wm segmentation from wm... Computing Initial Surface Statistics -face loglikelihood: -9.8652 (-4.9326) -vertex loglikelihood: -6.6959 (-3.3480) -normal dot loglikelihood: -3.5870 (-3.5870) -quad curv loglikelihood: -6.3688 (-3.1844) Total Loglikelihood : -26.5170 CORRECTING DEFECT 0 (vertices=25, convex hull=55, v0=392) After retessellation of defect 0 (v0=392), euler #=-182 (171744,508417,336491) : difference with theory (-183) = -1 CORRECTING DEFECT 1 (vertices=50, convex hull=90, v0=469) After retessellation of defect 1 (v0=469), euler #=-181 (171752,508475,336542) : difference with theory (-182) = -1 CORRECTING DEFECT 2 (vertices=69, convex hull=116, v0=580) After retessellation of defect 2 (v0=580), euler #=-180 (171788,508635,336667) : difference with theory (-181) = -1 CORRECTING DEFECT 3 (vertices=43, convex hull=40, v0=1063) After retessellation of defect 3 (v0=1063), euler #=-179 (171792,508662,336691) : difference with theory (-180) = -1 CORRECTING DEFECT 4 (vertices=32, convex hull=63, v0=1371) After retessellation of defect 4 (v0=1371), euler #=-178 (171801,508715,336736) : difference with theory (-179) = -1 CORRECTING DEFECT 5 (vertices=72, convex hull=38, v0=7201) After retessellation of defect 5 (v0=7201), euler #=-177 (171805,508739,336757) : difference with theory (-178) = -1 CORRECTING DEFECT 6 (vertices=25, convex hull=38, v0=8184) After retessellation of defect 6 (v0=8184), euler #=-176 (171810,508769,336783) : difference with theory (-177) = -1 CORRECTING DEFECT 7 (vertices=19, convex hull=50, v0=8948) After retessellation of defect 7 (v0=8948), euler #=-175 (171819,508815,336821) : difference with theory (-176) = -1 CORRECTING DEFECT 8 (vertices=48, convex hull=54, v0=12599) After retessellation of defect 8 (v0=12599), euler #=-174 (171825,508851,336852) : difference with theory (-175) = -1 CORRECTING DEFECT 9 (vertices=967, convex hull=501, v0=13907) After retessellation of defect 9 (v0=13907), euler #=-173 (172022,509707,337512) : difference with theory (-174) = -1 CORRECTING DEFECT 10 (vertices=19, convex hull=32, v0=17254) After retessellation of defect 10 (v0=17254), euler #=-172 (172025,509722,337525) : difference with theory (-173) = -1 CORRECTING DEFECT 11 (vertices=15, convex hull=29, v0=18930) After retessellation of defect 11 (v0=18930), euler #=-171 (172027,509736,337538) : difference with theory (-172) = -1 CORRECTING DEFECT 12 (vertices=32, convex hull=62, v0=19625) After retessellation of defect 12 (v0=19625), euler #=-170 (172036,509790,337584) : difference with theory (-171) = -1 CORRECTING DEFECT 13 (vertices=71, convex hull=54, v0=20146) After retessellation of defect 13 (v0=20146), euler #=-169 (172043,509834,337622) : difference with theory (-170) = -1 CORRECTING DEFECT 14 (vertices=67, convex hull=67, v0=22290) After retessellation of defect 14 (v0=22290), euler #=-168 (172058,509904,337678) : difference with theory (-169) = -1 CORRECTING DEFECT 15 (vertices=11, convex hull=32, v0=23487) After retessellation of defect 15 (v0=23487), euler #=-167 (172061,509923,337695) : difference with theory (-168) = -1 CORRECTING DEFECT 16 (vertices=138, convex hull=84, v0=23529) After retessellation of defect 16 (v0=23529), euler #=-166 (172086,510029,337777) : difference with theory (-167) = -1 CORRECTING DEFECT 17 (vertices=61, convex hull=88, v0=24523) After retessellation of defect 17 (v0=24523), euler #=-165 (172125,510182,337892) : difference with theory (-166) = -1 CORRECTING DEFECT 18 (vertices=19, convex hull=18, v0=25151) After retessellation of defect 18 (v0=25151), euler #=-164 (172127,510192,337901) : difference with theory (-165) = -1 CORRECTING DEFECT 19 (vertices=23, convex hull=48, v0=36457) After retessellation of defect 19 (v0=36457), euler #=-163 (172137,510243,337943) : difference with theory (-164) = -1 CORRECTING DEFECT 20 (vertices=58, convex hull=72, v0=37921) After retessellation of defect 20 (v0=37921), euler #=-162 (172150,510310,337998) : difference with theory (-163) = -1 CORRECTING DEFECT 21 (vertices=280, convex hull=144, v0=38199) After retessellation of defect 21 (v0=38199), euler #=-161 (172193,510513,338159) : difference with theory (-162) = -1 CORRECTING DEFECT 22 (vertices=5, convex hull=26, v0=39495) After retessellation of defect 22 (v0=39495), euler #=-160 (172195,510526,338171) : difference with theory (-161) = -1 CORRECTING DEFECT 23 (vertices=98, convex hull=65, v0=39995) After retessellation of defect 23 (v0=39995), euler #=-159 (172217,510616,338240) : difference with theory (-160) = -1 CORRECTING DEFECT 24 (vertices=28, convex hull=53, v0=41357) After retessellation of defect 24 (v0=41357), euler #=-158 (172232,510682,338292) : difference with theory (-159) = -1 CORRECTING DEFECT 25 (vertices=23, convex hull=40, v0=42186) After retessellation of defect 25 (v0=42186), euler #=-157 (172237,510710,338316) : difference with theory (-158) = -1 CORRECTING DEFECT 26 (vertices=292, convex hull=181, v0=43684) After retessellation of defect 26 (v0=43684), euler #=-155 (172308,511017,338554) : difference with theory (-157) = -2 CORRECTING DEFECT 27 (vertices=24, convex hull=59, v0=43956) After retessellation of defect 27 (v0=43956), euler #=-154 (172317,511067,338596) : difference with theory (-156) = -2 CORRECTING DEFECT 28 (vertices=20, convex hull=50, v0=44193) After retessellation of defect 28 (v0=44193), euler #=-153 (172326,511110,338631) : difference with theory (-155) = -2 CORRECTING DEFECT 29 (vertices=11, convex hull=21, v0=45839) After retessellation of defect 29 (v0=45839), euler #=-152 (172328,511120,338640) : difference with theory (-154) = -2 CORRECTING DEFECT 30 (vertices=41, convex hull=77, v0=45900) After retessellation of defect 30 (v0=45900), euler #=-151 (172356,511231,338724) : difference with theory (-153) = -2 CORRECTING DEFECT 31 (vertices=31, convex hull=60, v0=46117) After retessellation of defect 31 (v0=46117), euler #=-150 (172374,511309,338785) : difference with theory (-152) = -2 CORRECTING DEFECT 32 (vertices=24, convex hull=40, v0=47855) After retessellation of defect 32 (v0=47855), euler #=-149 (172377,511334,338808) : difference with theory (-151) = -2 CORRECTING DEFECT 33 (vertices=30, convex hull=64, v0=48922) After retessellation of defect 33 (v0=48922), euler #=-148 (172392,511405,338865) : difference with theory (-150) = -2 CORRECTING DEFECT 34 (vertices=28, convex hull=59, v0=49089) After retessellation of defect 34 (v0=49089), euler #=-147 (172401,511454,338906) : difference with theory (-149) = -2 CORRECTING DEFECT 35 (vertices=39, convex hull=82, v0=50150) After retessellation of defect 35 (v0=50150), euler #=-146 (172410,511513,338957) : difference with theory (-148) = -2 CORRECTING DEFECT 36 (vertices=132, convex hull=82, v0=50178) After retessellation of defect 36 (v0=50178), euler #=-145 (172430,511606,339031) : difference with theory (-147) = -2 CORRECTING DEFECT 37 (vertices=89, convex hull=69, v0=51079) After retessellation of defect 37 (v0=51079), euler #=-144 (172443,511669,339082) : difference with theory (-146) = -2 CORRECTING DEFECT 38 (vertices=31, convex hull=51, v0=51569) After retessellation of defect 38 (v0=51569), euler #=-143 (172453,511717,339121) : difference with theory (-145) = -2 CORRECTING DEFECT 39 (vertices=181, convex hull=157, v0=52321) After retessellation of defect 39 (v0=52321), euler #=-142 (172496,511917,339279) : difference with theory (-144) = -2 CORRECTING DEFECT 40 (vertices=68, convex hull=82, v0=53372) After retessellation of defect 40 (v0=53372), euler #=-141 (172535,512070,339394) : difference with theory (-143) = -2 CORRECTING DEFECT 41 (vertices=6, convex hull=20, v0=55817) After retessellation of defect 41 (v0=55817), euler #=-140 (172536,512078,339402) : difference with theory (-142) = -2 CORRECTING DEFECT 42 (vertices=29, convex hull=83, v0=57435) After retessellation of defect 42 (v0=57435), euler #=-139 (172545,512140,339456) : difference with theory (-141) = -2 CORRECTING DEFECT 43 (vertices=75, convex hull=111, v0=58437) After retessellation of defect 43 (v0=58437), euler #=-138 (172587,512317,339592) : difference with theory (-140) = -2 CORRECTING DEFECT 44 (vertices=7, convex hull=32, v0=60990) After retessellation of defect 44 (v0=60990), euler #=-137 (172588,512330,339605) : difference with theory (-139) = -2 CORRECTING DEFECT 45 (vertices=16, convex hull=52, v0=63764) After retessellation of defect 45 (v0=63764), euler #=-136 (172595,512369,339638) : difference with theory (-138) = -2 CORRECTING DEFECT 46 (vertices=18, convex hull=53, v0=65389) After retessellation of defect 46 (v0=65389), euler #=-135 (172604,512415,339676) : difference with theory (-137) = -2 CORRECTING DEFECT 47 (vertices=75, convex hull=66, v0=65395) After retessellation of defect 47 (v0=65395), euler #=-134 (172614,512467,339719) : difference with theory (-136) = -2 CORRECTING DEFECT 48 (vertices=40, convex hull=60, v0=66768) After retessellation of defect 48 (v0=66768), euler #=-133 (172633,512548,339782) : difference with theory (-135) = -2 CORRECTING DEFECT 49 (vertices=46, convex hull=56, v0=69746) After retessellation of defect 49 (v0=69746), euler #=-132 (172651,512629,339846) : difference with theory (-134) = -2 CORRECTING DEFECT 50 (vertices=83, convex hull=79, v0=69854) After retessellation of defect 50 (v0=69854), euler #=-131 (172694,512797,339972) : difference with theory (-133) = -2 CORRECTING DEFECT 51 (vertices=40, convex hull=60, v0=69987) After retessellation of defect 51 (v0=69987), euler #=-130 (172717,512889,340042) : difference with theory (-132) = -2 CORRECTING DEFECT 52 (vertices=16, convex hull=33, v0=71252) After retessellation of defect 52 (v0=71252), euler #=-129 (172718,512903,340056) : difference with theory (-131) = -2 CORRECTING DEFECT 53 (vertices=28, convex hull=23, v0=71270) After retessellation of defect 53 (v0=71270), euler #=-128 (172720,512916,340068) : difference with theory (-130) = -2 CORRECTING DEFECT 54 (vertices=113, convex hull=92, v0=72713) After retessellation of defect 54 (v0=72713), euler #=-127 (172750,513046,340169) : difference with theory (-129) = -2 CORRECTING DEFECT 55 (vertices=30, convex hull=48, v0=72867) After retessellation of defect 55 (v0=72867), euler #=-126 (172766,513114,340222) : difference with theory (-128) = -2 CORRECTING DEFECT 56 (vertices=26, convex hull=23, v0=73143) After retessellation of defect 56 (v0=73143), euler #=-125 (172770,513132,340237) : difference with theory (-127) = -2 CORRECTING DEFECT 57 (vertices=77, convex hull=61, v0=73316) After retessellation of defect 57 (v0=73316), euler #=-124 (172798,513242,340320) : difference with theory (-126) = -2 CORRECTING DEFECT 58 (vertices=29, convex hull=51, v0=73380) After retessellation of defect 58 (v0=73380), euler #=-123 (172810,513296,340363) : difference with theory (-125) = -2 CORRECTING DEFECT 59 (vertices=12, convex hull=21, v0=75688) After retessellation of defect 59 (v0=75688), euler #=-122 (172813,513311,340376) : difference with theory (-124) = -2 CORRECTING DEFECT 60 (vertices=232, convex hull=215, v0=77238) After retessellation of defect 60 (v0=77238), euler #=-121 (172903,513683,340659) : difference with theory (-123) = -2 CORRECTING DEFECT 61 (vertices=76, convex hull=68, v0=77694) After retessellation of defect 61 (v0=77694), euler #=-120 (172928,513787,340739) : difference with theory (-122) = -2 CORRECTING DEFECT 62 (vertices=46, convex hull=102, v0=78492) After retessellation of defect 62 (v0=78492), euler #=-119 (172955,513915,340841) : difference with theory (-121) = -2 CORRECTING DEFECT 63 (vertices=167, convex hull=72, v0=79168) After retessellation of defect 63 (v0=79168), euler #=-118 (172978,514015,340919) : difference with theory (-120) = -2 CORRECTING DEFECT 64 (vertices=137, convex hull=113, v0=80976) After retessellation of defect 64 (v0=80976), euler #=-117 (173026,514209,341066) : difference with theory (-119) = -2 CORRECTING DEFECT 65 (vertices=12, convex hull=26, v0=82237) After retessellation of defect 65 (v0=82237), euler #=-116 (173028,514225,341081) : difference with theory (-118) = -2 CORRECTING DEFECT 66 (vertices=7, convex hull=29, v0=83691) After retessellation of defect 66 (v0=83691), euler #=-115 (173029,514237,341093) : difference with theory (-117) = -2 CORRECTING DEFECT 67 (vertices=78, convex hull=117, v0=84672) After retessellation of defect 67 (v0=84672), euler #=-113 (173062,514397,341222) : difference with theory (-116) = -3 CORRECTING DEFECT 68 (vertices=26, convex hull=52, v0=88693) After retessellation of defect 68 (v0=88693), euler #=-112 (173070,514442,341260) : difference with theory (-115) = -3 CORRECTING DEFECT 69 (vertices=25, convex hull=30, v0=89014) After retessellation of defect 69 (v0=89014), euler #=-111 (173074,514462,341277) : difference with theory (-114) = -3 CORRECTING DEFECT 70 (vertices=191, convex hull=219, v0=89720) After retessellation of defect 70 (v0=89720), euler #=-110 (173163,514832,341559) : difference with theory (-113) = -3 CORRECTING DEFECT 71 (vertices=56, convex hull=95, v0=92694) After retessellation of defect 71 (v0=92694), euler #=-109 (173190,514950,341651) : difference with theory (-112) = -3 CORRECTING DEFECT 72 (vertices=25, convex hull=48, v0=93672) After retessellation of defect 72 (v0=93672), euler #=-108 (173199,514996,341689) : difference with theory (-111) = -3 CORRECTING DEFECT 73 (vertices=45, convex hull=79, v0=95204) After retessellation of defect 73 (v0=95204), euler #=-107 (173220,515088,341761) : difference with theory (-110) = -3 CORRECTING DEFECT 74 (vertices=119, convex hull=57, v0=96130) After retessellation of defect 74 (v0=96130), euler #=-106 (173243,515191,341842) : difference with theory (-109) = -3 CORRECTING DEFECT 75 (vertices=21, convex hull=47, v0=96620) After retessellation of defect 75 (v0=96620), euler #=-105 (173252,515235,341878) : difference with theory (-108) = -3 CORRECTING DEFECT 76 (vertices=43, convex hull=63, v0=97512) After retessellation of defect 76 (v0=97512), euler #=-104 (173274,515331,341953) : difference with theory (-107) = -3 CORRECTING DEFECT 77 (vertices=45, convex hull=37, v0=97683) After retessellation of defect 77 (v0=97683), euler #=-103 (173279,515357,341975) : difference with theory (-106) = -3 CORRECTING DEFECT 78 (vertices=44, convex hull=77, v0=97891) After retessellation of defect 78 (v0=97891), euler #=-102 (173293,515430,342035) : difference with theory (-105) = -3 CORRECTING DEFECT 79 (vertices=29, convex hull=55, v0=99208) After retessellation of defect 79 (v0=99208), euler #=-101 (173303,515481,342077) : difference with theory (-104) = -3 CORRECTING DEFECT 80 (vertices=29, convex hull=49, v0=100280) After retessellation of defect 80 (v0=100280), euler #=-100 (173312,515523,342111) : difference with theory (-103) = -3 CORRECTING DEFECT 81 (vertices=36, convex hull=71, v0=103430) After retessellation of defect 81 (v0=103430), euler #=-99 (173321,515580,342160) : difference with theory (-102) = -3 CORRECTING DEFECT 82 (vertices=231, convex hull=155, v0=104418) After retessellation of defect 82 (v0=104418), euler #=-97 (173339,515706,342270) : difference with theory (-101) = -4 CORRECTING DEFECT 83 (vertices=47, convex hull=87, v0=107468) After retessellation of defect 83 (v0=107468), euler #=-96 (173370,515833,342367) : difference with theory (-100) = -4 CORRECTING DEFECT 84 (vertices=70, convex hull=98, v0=107847) After retessellation of defect 84 (v0=107847), euler #=-95 (173405,515980,342480) : difference with theory (-99) = -4 CORRECTING DEFECT 85 (vertices=95, convex hull=111, v0=108751) After retessellation of defect 85 (v0=108751), euler #=-94 (173448,516154,342612) : difference with theory (-98) = -4 CORRECTING DEFECT 86 (vertices=39, convex hull=71, v0=109526) After retessellation of defect 86 (v0=109526), euler #=-93 (173469,516245,342683) : difference with theory (-97) = -4 CORRECTING DEFECT 87 (vertices=432, convex hull=228, v0=109948) After retessellation of defect 87 (v0=109948), euler #=-92 (173605,516771,343074) : difference with theory (-96) = -4 CORRECTING DEFECT 88 (vertices=15, convex hull=38, v0=110055) After retessellation of defect 88 (v0=110055), euler #=-91 (173607,516793,343095) : difference with theory (-95) = -4 CORRECTING DEFECT 89 (vertices=25, convex hull=23, v0=110800) After retessellation of defect 89 (v0=110800), euler #=-90 (173610,516807,343107) : difference with theory (-94) = -4 CORRECTING DEFECT 90 (vertices=133, convex hull=235, v0=112278) After retessellation of defect 90 (v0=112278), euler #=-87 (173698,517176,343391) : difference with theory (-93) = -6 CORRECTING DEFECT 91 (vertices=30, convex hull=43, v0=113115) After retessellation of defect 91 (v0=113115), euler #=-86 (173715,517242,343441) : difference with theory (-92) = -6 CORRECTING DEFECT 92 (vertices=15, convex hull=29, v0=113902) After retessellation of defect 92 (v0=113902), euler #=-85 (173718,517257,343454) : difference with theory (-91) = -6 CORRECTING DEFECT 93 (vertices=101, convex hull=171, v0=113972) After retessellation of defect 93 (v0=113972), euler #=-84 (173788,517549,343677) : difference with theory (-90) = -6 CORRECTING DEFECT 94 (vertices=28, convex hull=61, v0=114196) After retessellation of defect 94 (v0=114196), euler #=-83 (173802,517619,343734) : difference with theory (-89) = -6 CORRECTING DEFECT 95 (vertices=1325, convex hull=277, v0=115201) L defect detected... After retessellation of defect 95 (v0=115201), euler #=-82 (173944,518193,344167) : difference with theory (-88) = -6 CORRECTING DEFECT 96 (vertices=8, convex hull=23, v0=116417) After retessellation of defect 96 (v0=116417), euler #=-81 (173946,518206,344179) : difference with theory (-87) = -6 CORRECTING DEFECT 97 (vertices=84, convex hull=116, v0=116461) After retessellation of defect 97 (v0=116461), euler #=-80 (173955,518281,344246) : difference with theory (-86) = -6 CORRECTING DEFECT 98 (vertices=94, convex hull=136, v0=116940) After retessellation of defect 98 (v0=116940), euler #=-79 (173996,518463,344388) : difference with theory (-85) = -6 CORRECTING DEFECT 99 (vertices=30, convex hull=34, v0=118063) After retessellation of defect 99 (v0=118063), euler #=-78 (174002,518491,344411) : difference with theory (-84) = -6 CORRECTING DEFECT 100 (vertices=43, convex hull=34, v0=118187) After retessellation of defect 100 (v0=118187), euler #=-77 (174010,518525,344438) : difference with theory (-83) = -6 CORRECTING DEFECT 101 (vertices=6, convex hull=36, v0=119162) After retessellation of defect 101 (v0=119162), euler #=-76 (174013,518546,344457) : difference with theory (-82) = -6 CORRECTING DEFECT 102 (vertices=28, convex hull=52, v0=119287) After retessellation of defect 102 (v0=119287), euler #=-75 (174024,518598,344499) : difference with theory (-81) = -6 CORRECTING DEFECT 103 (vertices=24, convex hull=37, v0=119347) After retessellation of defect 103 (v0=119347), euler #=-74 (174028,518624,344522) : difference with theory (-80) = -6 CORRECTING DEFECT 104 (vertices=153, convex hull=147, v0=119477) After retessellation of defect 104 (v0=119477), euler #=-72 (174079,518847,344696) : difference with theory (-79) = -7 CORRECTING DEFECT 105 (vertices=61, convex hull=67, v0=119592) After retessellation of defect 105 (v0=119592), euler #=-71 (174095,518924,344758) : difference with theory (-78) = -7 CORRECTING DEFECT 106 (vertices=42, convex hull=58, v0=120022) After retessellation of defect 106 (v0=120022), euler #=-70 (174123,519035,344842) : difference with theory (-77) = -7 CORRECTING DEFECT 107 (vertices=37, convex hull=60, v0=120342) After retessellation of defect 107 (v0=120342), euler #=-69 (174146,519128,344913) : difference with theory (-76) = -7 CORRECTING DEFECT 108 (vertices=5565, convex hull=1314, v0=121031) XL defect detected... After retessellation of defect 108 (v0=121031), euler #=-76 (175064,522694,347554) : difference with theory (-75) = 1 CORRECTING DEFECT 109 (vertices=5, convex hull=14, v0=121046) After retessellation of defect 109 (v0=121046), euler #=-75 (175066,522703,347562) : difference with theory (-74) = 1 CORRECTING DEFECT 110 (vertices=72, convex hull=104, v0=126844) After retessellation of defect 110 (v0=126844), euler #=-74 (175076,522779,347629) : difference with theory (-73) = 1 CORRECTING DEFECT 111 (vertices=47, convex hull=70, v0=127132) After retessellation of defect 111 (v0=127132), euler #=-73 (175094,522861,347694) : difference with theory (-72) = 1 CORRECTING DEFECT 112 (vertices=39, convex hull=75, v0=127580) After retessellation of defect 112 (v0=127580), euler #=-72 (175106,522926,347748) : difference with theory (-71) = 1 CORRECTING DEFECT 113 (vertices=8, convex hull=19, v0=128413) After retessellation of defect 113 (v0=128413), euler #=-71 (175107,522934,347756) : difference with theory (-70) = 1 CORRECTING DEFECT 114 (vertices=137, convex hull=123, v0=128560) After retessellation of defect 114 (v0=128560), euler #=-69 (175141,523094,347884) : difference with theory (-69) = 0 CORRECTING DEFECT 115 (vertices=88, convex hull=136, v0=128732) After retessellation of defect 115 (v0=128732), euler #=-68 (175156,523202,347978) : difference with theory (-68) = 0 CORRECTING DEFECT 116 (vertices=144, convex hull=199, v0=129119) After retessellation of defect 116 (v0=129119), euler #=-67 (175242,523569,348260) : difference with theory (-67) = 0 CORRECTING DEFECT 117 (vertices=47, convex hull=72, v0=129332) After retessellation of defect 117 (v0=129332), euler #=-66 (175259,523649,348324) : difference with theory (-66) = 0 CORRECTING DEFECT 118 (vertices=19, convex hull=43, v0=129359) After retessellation of defect 118 (v0=129359), euler #=-65 (175271,523702,348366) : difference with theory (-65) = 0 CORRECTING DEFECT 119 (vertices=32, convex hull=55, v0=129428) After retessellation of defect 119 (v0=129428), euler #=-64 (175280,523754,348410) : difference with theory (-64) = 0 CORRECTING DEFECT 120 (vertices=77, convex hull=90, v0=129819) After retessellation of defect 120 (v0=129819), euler #=-63 (175315,523905,348527) : difference with theory (-63) = 0 CORRECTING DEFECT 121 (vertices=65, convex hull=63, v0=130101) After retessellation of defect 121 (v0=130101), euler #=-62 (175334,523987,348591) : difference with theory (-62) = 0 CORRECTING DEFECT 122 (vertices=34, convex hull=67, v0=130195) After retessellation of defect 122 (v0=130195), euler #=-61 (175356,524079,348662) : difference with theory (-61) = 0 CORRECTING DEFECT 123 (vertices=56, convex hull=72, v0=130371) After retessellation of defect 123 (v0=130371), euler #=-60 (175384,524194,348750) : difference with theory (-60) = 0 CORRECTING DEFECT 124 (vertices=34, convex hull=46, v0=132976) After retessellation of defect 124 (v0=132976), euler #=-59 (175404,524272,348809) : difference with theory (-59) = 0 CORRECTING DEFECT 125 (vertices=13, convex hull=30, v0=134122) After retessellation of defect 125 (v0=134122), euler #=-58 (175406,524286,348822) : difference with theory (-58) = 0 CORRECTING DEFECT 126 (vertices=35, convex hull=83, v0=134529) After retessellation of defect 126 (v0=134529), euler #=-57 (175417,524351,348877) : difference with theory (-57) = 0 CORRECTING DEFECT 127 (vertices=44, convex hull=55, v0=134582) After retessellation of defect 127 (v0=134582), euler #=-56 (175427,524403,348920) : difference with theory (-56) = 0 CORRECTING DEFECT 128 (vertices=22, convex hull=27, v0=135203) After retessellation of defect 128 (v0=135203), euler #=-55 (175431,524423,348937) : difference with theory (-55) = 0 CORRECTING DEFECT 129 (vertices=327, convex hull=78, v0=136988) After retessellation of defect 129 (v0=136988), euler #=-54 (175453,524523,349016) : difference with theory (-54) = 0 CORRECTING DEFECT 130 (vertices=11, convex hull=30, v0=141703) After retessellation of defect 130 (v0=141703), euler #=-53 (175455,524541,349033) : difference with theory (-53) = 0 CORRECTING DEFECT 131 (vertices=601, convex hull=322, v0=142420) After retessellation of defect 131 (v0=142420), euler #=-51 (175564,525041,349426) : difference with theory (-52) = -1 CORRECTING DEFECT 132 (vertices=42, convex hull=67, v0=142962) After retessellation of defect 132 (v0=142962), euler #=-50 (175587,525137,349500) : difference with theory (-51) = -1 CORRECTING DEFECT 133 (vertices=97, convex hull=134, v0=143328) After retessellation of defect 133 (v0=143328), euler #=-49 (175631,525341,349661) : difference with theory (-50) = -1 CORRECTING DEFECT 134 (vertices=86, convex hull=101, v0=144152) After retessellation of defect 134 (v0=144152), euler #=-48 (175675,525519,349796) : difference with theory (-49) = -1 CORRECTING DEFECT 135 (vertices=42, convex hull=102, v0=148378) After retessellation of defect 135 (v0=148378), euler #=-47 (175701,525636,349888) : difference with theory (-48) = -1 CORRECTING DEFECT 136 (vertices=7, convex hull=38, v0=149717) After retessellation of defect 136 (v0=149717), euler #=-46 (175702,525652,349904) : difference with theory (-47) = -1 CORRECTING DEFECT 137 (vertices=197, convex hull=169, v0=149899) After retessellation of defect 137 (v0=149899), euler #=-45 (175726,525804,350033) : difference with theory (-46) = -1 CORRECTING DEFECT 138 (vertices=57, convex hull=61, v0=150908) After retessellation of defect 138 (v0=150908), euler #=-44 (175750,525897,350103) : difference with theory (-45) = -1 CORRECTING DEFECT 139 (vertices=43, convex hull=81, v0=151820) After retessellation of defect 139 (v0=151820), euler #=-43 (175773,526001,350185) : difference with theory (-44) = -1 CORRECTING DEFECT 140 (vertices=32, convex hull=44, v0=154468) After retessellation of defect 140 (v0=154468), euler #=-42 (175780,526041,350219) : difference with theory (-43) = -1 CORRECTING DEFECT 141 (vertices=38, convex hull=25, v0=154535) After retessellation of defect 141 (v0=154535), euler #=-41 (175787,526070,350242) : difference with theory (-42) = -1 CORRECTING DEFECT 142 (vertices=46, convex hull=60, v0=155001) After retessellation of defect 142 (v0=155001), euler #=-40 (175805,526152,350307) : difference with theory (-41) = -1 CORRECTING DEFECT 143 (vertices=16, convex hull=24, v0=156825) After retessellation of defect 143 (v0=156825), euler #=-39 (175805,526161,350317) : difference with theory (-40) = -1 CORRECTING DEFECT 144 (vertices=30, convex hull=85, v0=156829) After retessellation of defect 144 (v0=156829), euler #=-38 (175813,526220,350369) : difference with theory (-39) = -1 CORRECTING DEFECT 145 (vertices=23, convex hull=29, v0=157476) After retessellation of defect 145 (v0=157476), euler #=-37 (175815,526237,350385) : difference with theory (-38) = -1 CORRECTING DEFECT 146 (vertices=21, convex hull=43, v0=158332) After retessellation of defect 146 (v0=158332), euler #=-36 (175827,526288,350425) : difference with theory (-37) = -1 CORRECTING DEFECT 147 (vertices=10, convex hull=12, v0=159254) After retessellation of defect 147 (v0=159254), euler #=-35 (175828,526295,350432) : difference with theory (-36) = -1 CORRECTING DEFECT 148 (vertices=43, convex hull=52, v0=159285) After retessellation of defect 148 (v0=159285), euler #=-34 (175841,526355,350480) : difference with theory (-35) = -1 CORRECTING DEFECT 149 (vertices=20, convex hull=30, v0=159623) After retessellation of defect 149 (v0=159623), euler #=-33 (175845,526374,350496) : difference with theory (-34) = -1 CORRECTING DEFECT 150 (vertices=17, convex hull=26, v0=159921) After retessellation of defect 150 (v0=159921), euler #=-32 (175847,526386,350507) : difference with theory (-33) = -1 CORRECTING DEFECT 151 (vertices=380, convex hull=178, v0=160896) After retessellation of defect 151 (v0=160896), euler #=-32 (175941,526762,350789) : difference with theory (-32) = 0 CORRECTING DEFECT 152 (vertices=53, convex hull=91, v0=161713) After retessellation of defect 152 (v0=161713), euler #=-31 (175964,526877,350882) : difference with theory (-31) = 0 CORRECTING DEFECT 153 (vertices=38, convex hull=82, v0=162211) After retessellation of defect 153 (v0=162211), euler #=-30 (175976,526947,350941) : difference with theory (-30) = 0 CORRECTING DEFECT 154 (vertices=31, convex hull=80, v0=163239) After retessellation of defect 154 (v0=163239), euler #=-29 (175996,527039,351014) : difference with theory (-29) = 0 CORRECTING DEFECT 155 (vertices=105, convex hull=142, v0=163681) After retessellation of defect 155 (v0=163681), euler #=-27 (176033,527226,351166) : difference with theory (-28) = -1 CORRECTING DEFECT 156 (vertices=73, convex hull=125, v0=165371) After retessellation of defect 156 (v0=165371), euler #=-26 (176076,527410,351308) : difference with theory (-27) = -1 CORRECTING DEFECT 157 (vertices=24, convex hull=63, v0=165700) After retessellation of defect 157 (v0=165700), euler #=-25 (176085,527459,351349) : difference with theory (-26) = -1 CORRECTING DEFECT 158 (vertices=37, convex hull=59, v0=167982) After retessellation of defect 158 (v0=167982), euler #=-24 (176103,527536,351409) : difference with theory (-25) = -1 CORRECTING DEFECT 159 (vertices=42, convex hull=76, v0=168776) After retessellation of defect 159 (v0=168776), euler #=-23 (176115,527600,351462) : difference with theory (-24) = -1 CORRECTING DEFECT 160 (vertices=33, convex hull=91, v0=168989) After retessellation of defect 160 (v0=168989), euler #=-22 (176131,527681,351528) : difference with theory (-23) = -1 CORRECTING DEFECT 161 (vertices=38, convex hull=76, v0=170685) After retessellation of defect 161 (v0=170685), euler #=-21 (176142,527747,351584) : difference with theory (-22) = -1 CORRECTING DEFECT 162 (vertices=101, convex hull=100, v0=171555) After retessellation of defect 162 (v0=171555), euler #=-20 (176170,527873,351683) : difference with theory (-21) = -1 CORRECTING DEFECT 163 (vertices=28, convex hull=34, v0=174099) After retessellation of defect 163 (v0=174099), euler #=-19 (176172,527889,351698) : difference with theory (-20) = -1 CORRECTING DEFECT 164 (vertices=64, convex hull=117, v0=175011) After retessellation of defect 164 (v0=175011), euler #=-18 (176205,528043,351820) : difference with theory (-19) = -1 CORRECTING DEFECT 165 (vertices=100, convex hull=129, v0=175636) After retessellation of defect 165 (v0=175636), euler #=-18 (176261,528281,352002) : difference with theory (-18) = 0 CORRECTING DEFECT 166 (vertices=32, convex hull=39, v0=176297) After retessellation of defect 166 (v0=176297), euler #=-17 (176266,528309,352026) : difference with theory (-17) = 0 CORRECTING DEFECT 167 (vertices=46, convex hull=68, v0=177354) After retessellation of defect 167 (v0=177354), euler #=-16 (176286,528396,352094) : difference with theory (-16) = 0 CORRECTING DEFECT 168 (vertices=30, convex hull=65, v0=178297) After retessellation of defect 168 (v0=178297), euler #=-15 (176304,528473,352154) : difference with theory (-15) = 0 CORRECTING DEFECT 169 (vertices=28, convex hull=55, v0=178927) After retessellation of defect 169 (v0=178927), euler #=-14 (176318,528540,352208) : difference with theory (-14) = 0 CORRECTING DEFECT 170 (vertices=83, convex hull=100, v0=179333) After retessellation of defect 170 (v0=179333), euler #=-13 (176362,528714,352339) : difference with theory (-13) = 0 CORRECTING DEFECT 171 (vertices=105, convex hull=111, v0=179591) After retessellation of defect 171 (v0=179591), euler #=-12 (176379,528812,352421) : difference with theory (-12) = 0 CORRECTING DEFECT 172 (vertices=49, convex hull=96, v0=179839) After retessellation of defect 172 (v0=179839), euler #=-11 (176402,528920,352507) : difference with theory (-11) = 0 CORRECTING DEFECT 173 (vertices=96, convex hull=88, v0=181860) After retessellation of defect 173 (v0=181860), euler #=-10 (176432,529051,352609) : difference with theory (-10) = 0 CORRECTING DEFECT 174 (vertices=25, convex hull=67, v0=182548) After retessellation of defect 174 (v0=182548), euler #=-9 (176440,529107,352658) : difference with theory (-9) = 0 CORRECTING DEFECT 175 (vertices=58, convex hull=71, v0=182599) After retessellation of defect 175 (v0=182599), euler #=-8 (176468,529220,352744) : difference with theory (-8) = 0 CORRECTING DEFECT 176 (vertices=38, convex hull=30, v0=185294) After retessellation of defect 176 (v0=185294), euler #=-7 (176470,529237,352760) : difference with theory (-7) = 0 CORRECTING DEFECT 177 (vertices=29, convex hull=49, v0=185999) After retessellation of defect 177 (v0=185999), euler #=-6 (176486,529308,352816) : difference with theory (-6) = 0 CORRECTING DEFECT 178 (vertices=11, convex hull=25, v0=186356) After retessellation of defect 178 (v0=186356), euler #=-5 (176487,529319,352827) : difference with theory (-5) = 0 CORRECTING DEFECT 179 (vertices=43, convex hull=73, v0=186978) After retessellation of defect 179 (v0=186978), euler #=-4 (176509,529414,352901) : difference with theory (-4) = 0 CORRECTING DEFECT 180 (vertices=39, convex hull=49, v0=187355) After retessellation of defect 180 (v0=187355), euler #=-3 (176520,529464,352941) : difference with theory (-3) = 0 CORRECTING DEFECT 181 (vertices=29, convex hull=61, v0=187543) After retessellation of defect 181 (v0=187543), euler #=-2 (176529,529514,352983) : difference with theory (-2) = 0 CORRECTING DEFECT 182 (vertices=6, convex hull=29, v0=188957) After retessellation of defect 182 (v0=188957), euler #=-1 (176530,529525,352994) : difference with theory (-1) = 0 CORRECTING DEFECT 183 (vertices=49, convex hull=75, v0=189015) After retessellation of defect 183 (v0=189015), euler #=0 (176552,529622,353070) : difference with theory (0) = 0 CORRECTING DEFECT 184 (vertices=31, convex hull=49, v0=189033) After retessellation of defect 184 (v0=189033), euler #=1 (176561,529666,353106) : difference with theory (1) = 0 CORRECTING DEFECT 185 (vertices=11, convex hull=29, v0=190116) After retessellation of defect 185 (v0=190116), euler #=2 (176561,529677,353118) : difference with theory (2) = 0 computing original vertex metric properties... storing new metric properties... computing tessellation statistics... vertex spacing 0.88 +- 0.31 (0.04-->34.56) (max @ vno 116784 --> 143449) face area 0.00 +- 0.00 (0.00-->0.00) performing soap bubble on retessellated vertices for 0 iterations... vertex spacing 0.88 +- 0.31 (0.04-->34.56) (max @ vno 116784 --> 143449) face area 0.00 +- 0.00 (0.00-->0.00) tessellation finished, orienting corrected surface... 585 mutations (33.8%), 1147 crossovers (66.2%), 1369 vertices were eliminated building final representation... 14359 vertices and 0 faces have been removed from triangulation after topology correction, eno=2 (nv=176561, nf=353118, ne=529677, g=0) writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.orig... 0.000 % of the vertices (0 vertices) exhibit an orientation change topology fixing took 310.6 minutes 0 defective edges removing intersecting faces 000: 1589 intersecting 001: 159 intersecting 002: 43 intersecting 003: 10 intersecting 004: 7 intersecting mris_fix_topology utimesec 18647.105209 mris_fix_topology stimesec 0.568913 mris_fix_topology ru_maxrss 666376 mris_fix_topology ru_ixrss 0 mris_fix_topology ru_idrss 0 mris_fix_topology ru_isrss 0 mris_fix_topology ru_minflt 77567 mris_fix_topology ru_majflt 0 mris_fix_topology ru_nswap 0 mris_fix_topology ru_inblock 23040 mris_fix_topology ru_oublock 18376 mris_fix_topology ru_msgsnd 0 mris_fix_topology ru_msgrcv 0 mris_fix_topology ru_nsignals 0 mris_fix_topology ru_nvcsw 831 mris_fix_topology ru_nivcsw 37305 FSRUNTIME@ mris_fix_topology rh 5.1765 hours 1 threads PIDs (17666 17669) completed and logs appended. mris_euler_number ../surf/lh.orig euler # = v-e+f = 2g-2: 183509 - 550521 + 367014 = 2 --> 0 holes F =2V-4: 367014 = 367018-4 (0) 2E=3F: 1101042 = 1101042 (0) total defect index = 0 mris_euler_number ../surf/rh.orig euler # = v-e+f = 2g-2: 176561 - 529677 + 353118 = 2 --> 0 holes F =2V-4: 353118 = 353122-4 (0) 2E=3F: 1059354 = 1059354 (0) total defect index = 0 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_remove_intersection ../surf/lh.orig ../surf/lh.orig intersection removal took 0.00 hours removing intersecting faces 000: 176 intersecting 001: 25 intersecting 002: 17 intersecting 003: 13 intersecting writing corrected surface to ../surf/lh.orig rm ../surf/lh.inflated /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_remove_intersection ../surf/rh.orig ../surf/rh.orig intersection removal took 0.00 hours removing intersecting faces 000: 459 intersecting 001: 73 intersecting 002: 33 intersecting 003: 10 intersecting 004: 4 intersecting writing corrected surface to ../surf/rh.orig rm ../surf/rh.inflated #-------------------------------------------- #@# Make White Surf lh Sun Oct 8 05:27:38 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050184 lh #-------------------------------------------- #@# Make White Surf rh Sun Oct 8 05:27:38 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050184 rh Waiting for PID 30491 of (30491 30494) to complete... Waiting for PID 30494 of (30491 30494) to complete... mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050184 lh using white.preaparc as white matter name... only generating white matter surface using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline not using aparc to prevent surfaces crossing the midline INFO: assuming MGZ format for volumes. using brain.finalsurfs as T1 volume... $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/filled.mgz... reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/brain.finalsurfs.mgz... reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/../mri/aseg.presurf.mgz... reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... 36246 bright wm thresholded. 330 bright non-wm voxels segmented. reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.orig... computing class statistics... border white: 349830 voxels (2.09%) border gray 408403 voxels (2.43%) WM (94.0): 94.8 +- 9.5 [70.0 --> 110.0] GM (66.0) : 65.5 +- 10.9 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 52.1 (was 70) setting MAX_BORDER_WHITE to 109.5 (was 105) setting MIN_BORDER_WHITE to 63.0 (was 85) setting MAX_CSF to 41.2 (was 40) setting MAX_GRAY to 90.5 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 52.1 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 30.3 (was 40) repositioning cortical surface to gray/white boundary smoothing T1 volume with sigma = 2.000 vertex spacing 0.81 +- 0.24 (0.02-->7.91) (max @ vno 25792 --> 180570) face area 0.27 +- 0.14 (0.00-->8.61) mean absolute distance = 0.67 +- 0.82 5306 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=100+-8.7, GM=63+-7.8 mean inside = 90.3, mean outside = 69.6 smoothing surface for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 4 vertex label from ripped group removing 3 vertex label from ripped group mean border=75.3, 162 (162) missing vertices, mean dist 0.3 [0.6 (%36.6)->0.7 (%63.4))] %72 local maxima, %24 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 smoothing T1 volume with sigma = 1.000 vertex spacing 0.91 +- 0.27 (0.10-->7.62) (max @ vno 25792 --> 180570) face area 0.27 +- 0.14 (0.00-->8.89) mean absolute distance = 0.35 +- 0.55 4780 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4883690.0, rms=10.737 001: dt: 0.5000, sse=2740268.8, rms=7.563 (29.556%) 002: dt: 0.5000, sse=1928599.0, rms=5.868 (22.412%) 003: dt: 0.5000, sse=1577935.9, rms=4.961 (15.459%) 004: dt: 0.5000, sse=1417887.4, rms=4.479 (9.728%) 005: dt: 0.5000, sse=1350464.9, rms=4.265 (4.761%) 006: dt: 0.5000, sse=1315471.1, rms=4.142 (2.889%) rms = 4.10, time step reduction 1 of 3 to 0.250... 007: dt: 0.5000, sse=1302143.4, rms=4.097 (1.080%) 008: dt: 0.2500, sse=1056540.2, rms=2.948 (28.048%) 009: dt: 0.2500, sse=964883.5, rms=2.584 (12.352%) 010: dt: 0.2500, sse=950335.1, rms=2.494 (3.494%) 011: dt: 0.2500, sse=937060.3, rms=2.425 (2.755%) rms = 2.39, time step reduction 2 of 3 to 0.125... 012: dt: 0.2500, sse=932069.6, rms=2.394 (1.263%) 013: dt: 0.1250, sse=914060.8, rms=2.286 (4.507%) rms = 2.27, time step reduction 3 of 3 to 0.062... 014: dt: 0.1250, sse=911775.4, rms=2.272 (0.642%) positioning took 2.6 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 1 vertex label from ripped group removing 3 vertex label from ripped group removing 4 vertex label from ripped group mean border=79.2, 160 (31) missing vertices, mean dist -0.2 [0.4 (%75.2)->0.3 (%24.8))] %83 local maxima, %13 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.500 vertex spacing 0.89 +- 0.26 (0.06-->7.49) (max @ vno 25792 --> 180570) face area 0.34 +- 0.18 (0.00-->11.52) mean absolute distance = 0.24 +- 0.37 4223 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1887080.6, rms=5.252 015: dt: 0.5000, sse=1381064.6, rms=3.614 (31.177%) rms = 3.91, time step reduction 1 of 3 to 0.250... 016: dt: 0.2500, sse=1180979.5, rms=2.734 (24.351%) 017: dt: 0.2500, sse=1108079.0, rms=2.262 (17.287%) 018: dt: 0.2500, sse=1073784.4, rms=2.053 (9.227%) 019: dt: 0.2500, sse=1065298.0, rms=1.993 (2.897%) rms = 1.95, time step reduction 2 of 3 to 0.125... 020: dt: 0.2500, sse=1051639.0, rms=1.950 (2.163%) 021: dt: 0.1250, sse=1049312.4, rms=1.855 (4.881%) rms = 1.85, time step reduction 3 of 3 to 0.062... 022: dt: 0.1250, sse=1040475.1, rms=1.849 (0.337%) positioning took 1.5 minutes inhibiting deformation at non-cortical midline structures... removing 4 vertex label from ripped group removing 2 vertex label from ripped group removing 3 vertex label from ripped group removing 1 vertex label from ripped group removing 4 vertex label from ripped group mean border=81.2, 179 (19) missing vertices, mean dist -0.1 [0.3 (%65.3)->0.2 (%34.7))] %88 local maxima, % 8 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.250 vertex spacing 0.89 +- 0.26 (0.07-->7.36) (max @ vno 25792 --> 180570) face area 0.33 +- 0.17 (0.00-->11.40) mean absolute distance = 0.22 +- 0.32 3653 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1229280.0, rms=3.080 rms = 3.33, time step reduction 1 of 3 to 0.250... 023: dt: 0.2500, sse=1078592.6, rms=2.290 (25.648%) 024: dt: 0.2500, sse=1020461.7, rms=1.847 (19.359%) 025: dt: 0.2500, sse=1008114.3, rms=1.781 (3.581%) rms = 1.76, time step reduction 2 of 3 to 0.125... 026: dt: 0.2500, sse=1004132.1, rms=1.757 (1.323%) 027: dt: 0.1250, sse=991354.2, rms=1.663 (5.378%) rms = 1.66, time step reduction 3 of 3 to 0.062... 028: dt: 0.1250, sse=993013.6, rms=1.656 (0.376%) positioning took 1.1 minutes inhibiting deformation at non-cortical midline structures... removing 1 vertex label from ripped group removing 1 vertex label from ripped group removing 4 vertex label from ripped group removing 1 vertex label from ripped group removing 3 vertex label from ripped group removing 1 vertex label from ripped group removing 4 vertex label from ripped group mean border=81.9, 247 (15) missing vertices, mean dist -0.0 [0.2 (%53.3)->0.2 (%46.7))] %90 local maxima, % 6 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white.preaparc... writing smoothed curvature to lh.curv 000: dt: 0.0000, sse=1013832.8, rms=1.866 rms = 2.15, time step reduction 1 of 3 to 0.250... 029: dt: 0.2500, sse=959294.9, rms=1.444 (22.608%) 030: dt: 0.2500, sse=951509.7, rms=1.270 (12.020%) rms = 1.26, time step reduction 2 of 3 to 0.125... 031: dt: 0.2500, sse=940758.5, rms=1.263 (0.568%) rms = 1.24, time step reduction 3 of 3 to 0.062... 032: dt: 0.1250, sse=944924.6, rms=1.239 (1.890%) positioning took 0.8 minutes generating cortex label... 8 non-cortical segments detected only using segment with 7977 vertices erasing segment 0 (vno[0] = 49850) erasing segment 2 (vno[0] = 125421) erasing segment 3 (vno[0] = 126562) erasing segment 4 (vno[0] = 131568) erasing segment 5 (vno[0] = 137625) erasing segment 6 (vno[0] = 138788) erasing segment 7 (vno[0] = 142878) writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label... writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.curv writing smoothed area to lh.area writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.area vertex spacing 0.89 +- 0.26 (0.02-->7.30) (max @ vno 25792 --> 180570) face area 0.33 +- 0.17 (0.00-->10.85) refinement took 8.6 minutes mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/filled.mgz... reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/brain.finalsurfs.mgz... reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/../mri/aseg.presurf.mgz... reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... 36246 bright wm thresholded. 330 bright non-wm voxels segmented. reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.orig... computing class statistics... border white: 349830 voxels (2.09%) border gray 408403 voxels (2.43%) WM (94.0): 94.8 +- 9.5 [70.0 --> 110.0] GM (66.0) : 65.5 +- 10.9 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 51.1 (was 70) setting MAX_BORDER_WHITE to 108.5 (was 105) setting MIN_BORDER_WHITE to 62.0 (was 85) setting MAX_CSF to 40.2 (was 40) setting MAX_GRAY to 89.5 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 51.1 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 29.3 (was 40) repositioning cortical surface to gray/white boundary smoothing T1 volume with sigma = 2.000 vertex spacing 0.80 +- 0.25 (0.02-->6.51) (max @ vno 36471 --> 56935) face area 0.27 +- 0.14 (0.00-->8.36) mean absolute distance = 0.71 +- 0.89 4610 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=99+-11.3, GM=62+-8.7 mean inside = 89.2, mean outside = 68.9 smoothing surface for 5 iterations... inhibiting deformation at non-cortical midline structures... removing 2 vertex label from ripped group mean border=74.8, 192 (192) missing vertices, mean dist 0.3 [0.6 (%35.9)->0.8 (%64.1))] %69 local maxima, %27 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, 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 0.90 +- 0.29 (0.07-->6.43) (max @ vno 36471 --> 56935) face area 0.27 +- 0.15 (0.00-->8.02) mean absolute distance = 0.37 +- 0.60 4980 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=4728224.0, rms=10.756 001: dt: 0.5000, sse=2674845.5, rms=7.649 (28.887%) 002: dt: 0.5000, sse=1900496.8, rms=5.987 (21.727%) 003: dt: 0.5000, sse=1558638.2, rms=5.103 (14.773%) 004: dt: 0.5000, sse=1404404.1, rms=4.639 (9.078%) 005: dt: 0.5000, sse=1339883.2, rms=4.401 (5.143%) 006: dt: 0.5000, sse=1301146.2, rms=4.279 (2.763%) 007: dt: 0.5000, sse=1282188.8, rms=4.210 (1.619%) rms = 4.17, time step reduction 1 of 3 to 0.250... 008: dt: 0.5000, sse=1291438.6, rms=4.169 (0.963%) 009: dt: 0.2500, sse=1015125.8, rms=3.069 (26.390%) 010: dt: 0.2500, sse=943827.2, rms=2.711 (11.675%) 011: dt: 0.2500, sse=937804.9, rms=2.639 (2.636%) 012: dt: 0.2500, sse=922805.0, rms=2.575 (2.428%) rms = 2.55, time step reduction 2 of 3 to 0.125... 013: dt: 0.2500, sse=923152.8, rms=2.554 (0.817%) 014: dt: 0.1250, sse=899167.4, rms=2.438 (4.563%) rms = 2.42, time step reduction 3 of 3 to 0.062... 015: dt: 0.1250, sse=898328.4, rms=2.423 (0.590%) positioning took 2.7 minutes inhibiting deformation at non-cortical midline structures... removing 3 vertex label from ripped group mean border=78.2, 318 (49) missing vertices, mean dist -0.2 [0.4 (%70.9)->0.3 (%29.1))] %78 local maxima, %17 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.500 vertex spacing 0.90 +- 0.28 (0.10-->6.32) (max @ vno 36471 --> 56935) face area 0.34 +- 0.19 (0.00-->10.16) mean absolute distance = 0.27 +- 0.42 4876 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1698169.0, rms=4.900 016: dt: 0.5000, sse=1341758.5, rms=3.586 (26.820%) rms = 3.88, time step reduction 1 of 3 to 0.250... 017: dt: 0.2500, sse=1143038.2, rms=2.718 (24.211%) 018: dt: 0.2500, sse=1070333.6, rms=2.301 (15.336%) 019: dt: 0.2500, sse=1082750.9, rms=2.139 (7.037%) rms = 2.11, time step reduction 2 of 3 to 0.125... 020: dt: 0.2500, sse=1042627.1, rms=2.106 (1.553%) 021: dt: 0.1250, sse=1026222.4, rms=1.992 (5.405%) rms = 1.98, time step reduction 3 of 3 to 0.062... 022: dt: 0.1250, sse=1024595.6, rms=1.981 (0.551%) positioning took 1.3 minutes inhibiting deformation at non-cortical midline structures... removing 3 vertex label from ripped group mean border=80.2, 346 (26) missing vertices, mean dist -0.1 [0.3 (%63.4)->0.2 (%36.6))] %84 local maxima, %11 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.250 vertex spacing 0.89 +- 0.28 (0.07-->6.30) (max @ vno 36471 --> 56935) face area 0.34 +- 0.18 (0.00-->9.92) mean absolute distance = 0.25 +- 0.36 4069 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1212246.1, rms=3.158 rms = 3.39, time step reduction 1 of 3 to 0.250... 023: dt: 0.2500, sse=1083525.1, rms=2.427 (23.149%) 024: dt: 0.2500, sse=1014602.1, rms=1.981 (18.364%) 025: dt: 0.2500, sse=997778.1, rms=1.923 (2.938%) rms = 1.89, time step reduction 2 of 3 to 0.125... 026: dt: 0.2500, sse=990531.2, rms=1.892 (1.595%) 027: dt: 0.1250, sse=977592.4, rms=1.786 (5.636%) rms = 1.78, time step reduction 3 of 3 to 0.062... 028: dt: 0.1250, sse=979218.5, rms=1.784 (0.115%) positioning took 1.1 minutes inhibiting deformation at non-cortical midline structures... removing 3 vertex label from ripped group removing 4 vertex label from ripped group mean border=80.9, 450 (25) missing vertices, mean dist -0.0 [0.3 (%53.1)->0.2 (%46.9))] %87 local maxima, % 9 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white.preaparc... writing smoothed curvature to rh.curv 000: dt: 0.0000, sse=1001979.1, rms=2.002 rms = 2.28, time step reduction 1 of 3 to 0.250... 029: dt: 0.2500, sse=945632.9, rms=1.547 (22.700%) 030: dt: 0.2500, sse=928873.8, rms=1.342 (13.246%) rms = 1.34, time step reduction 2 of 3 to 0.125... 031: dt: 0.2500, sse=925509.5, rms=1.338 (0.297%) rms = 1.31, time step reduction 3 of 3 to 0.062... 032: dt: 0.1250, sse=936991.9, rms=1.313 (1.917%) positioning took 0.8 minutes generating cortex label... 13 non-cortical segments detected only using segment with 7813 vertices erasing segment 0 (vno[0] = 61637) erasing segment 2 (vno[0] = 75008) erasing segment 3 (vno[0] = 83186) erasing segment 4 (vno[0] = 124891) erasing segment 5 (vno[0] = 124948) erasing segment 6 (vno[0] = 125978) erasing segment 7 (vno[0] = 126092) erasing segment 8 (vno[0] = 129404) erasing segment 9 (vno[0] = 130339) erasing segment 10 (vno[0] = 131308) erasing segment 11 (vno[0] = 134799) erasing segment 12 (vno[0] = 136515) writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label... writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.curv writing smoothed area to rh.area writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.area vertex spacing 0.89 +- 0.28 (0.02-->6.36) (max @ vno 36471 --> 56935) face area 0.33 +- 0.18 (0.00-->9.78) refinement took 8.4 minutes PIDs (30491 30494) completed and logs appended. #-------------------------------------------- #@# Smooth2 lh Sun Oct 8 05:36:14 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm #-------------------------------------------- #@# Smooth2 rh Sun Oct 8 05:36:14 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm Waiting for PID 30935 of (30935 30938) to complete... Waiting for PID 30938 of (30935 30938) to complete... mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm smoothing for 3 iterations setting seed for random number generator to 1234 smoothing surface tessellation for 3 iterations... smoothing complete - recomputing first and second fundamental forms... 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... PIDs (30935 30938) completed and logs appended. #-------------------------------------------- #@# Inflation2 lh Sun Oct 8 05:36:25 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated #-------------------------------------------- #@# Inflation2 rh Sun Oct 8 05:36:25 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated Waiting for PID 30987 of (30987 30990) to complete... Waiting for PID 30990 of (30987 30990) to complete... mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated Reading ../surf/lh.smoothwm avg radius = 50.4 mm, total surface area = 108365 mm^2 writing inflated surface to ../surf/lh.inflated writing sulcal depths to ../surf/lh.sulc step 000: RMS=0.188 (target=0.015) step 005: RMS=0.130 (target=0.015) step 010: RMS=0.100 (target=0.015) step 015: RMS=0.083 (target=0.015) step 020: RMS=0.070 (target=0.015) step 025: RMS=0.058 (target=0.015) step 030: RMS=0.049 (target=0.015) step 035: RMS=0.043 (target=0.015) step 040: RMS=0.037 (target=0.015) step 045: RMS=0.033 (target=0.015) step 050: RMS=0.029 (target=0.015) step 055: RMS=0.027 (target=0.015) step 060: RMS=0.025 (target=0.015) inflation complete. inflation took 2.1 minutes mris_inflate utimesec 126.664744 mris_inflate stimesec 0.193970 mris_inflate ru_maxrss 268744 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 38634 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 14368 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 2235 mris_inflate ru_nivcsw 9788 mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated Reading ../surf/rh.smoothwm avg radius = 49.6 mm, total surface area = 104273 mm^2 writing inflated surface to ../surf/rh.inflated writing sulcal depths to ../surf/rh.sulc step 000: RMS=0.194 (target=0.015) step 005: RMS=0.136 (target=0.015) step 010: RMS=0.107 (target=0.015) step 015: RMS=0.090 (target=0.015) step 020: RMS=0.075 (target=0.015) step 025: RMS=0.064 (target=0.015) step 030: RMS=0.056 (target=0.015) step 035: RMS=0.048 (target=0.015) step 040: RMS=0.042 (target=0.015) step 045: RMS=0.038 (target=0.015) step 050: RMS=0.035 (target=0.015) step 055: RMS=0.032 (target=0.015) step 060: RMS=0.030 (target=0.015) inflation complete. inflation took 2.2 minutes mris_inflate utimesec 136.118306 mris_inflate stimesec 0.216967 mris_inflate ru_maxrss 259664 mris_inflate ru_ixrss 0 mris_inflate ru_idrss 0 mris_inflate ru_isrss 0 mris_inflate ru_minflt 37896 mris_inflate ru_majflt 0 mris_inflate ru_nswap 0 mris_inflate ru_inblock 0 mris_inflate ru_oublock 13824 mris_inflate ru_msgsnd 0 mris_inflate ru_msgrcv 0 mris_inflate ru_nsignals 0 mris_inflate ru_nvcsw 2194 mris_inflate ru_nivcsw 10066 PIDs (30987 30990) completed and logs appended. #-------------------------------------------- #@# Curv .H and .K lh Sun Oct 8 05:38:39 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf mris_curvature -w lh.white.preaparc rm -f lh.white.H ln -s lh.white.preaparc.H lh.white.H rm -f lh.white.K ln -s lh.white.preaparc.K lh.white.K mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated #-------------------------------------------- #@# Curv .H and .K rh Sun Oct 8 05:38:39 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf mris_curvature -w rh.white.preaparc 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 cd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts/recon-all.log mris_curvature_white_lh.cmd rm_curvature_white_lh.H.cmd ln_curvature_white_lh.H.cmd rm_curvature_white_lh.K.cmd ln_curvature_white_lh.K.cmd mris_curvature_inflated_lh.cmd mris_curvature_white_rh.cmd rm_curvature_white_rh.H.cmd ln_curvature_white_rh.H.cmd rm_curvature_white_rh.K.cmd ln_curvature_white_rh.K.cmd mris_curvature_inflated_rh.cmd Waiting for PID 31120 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete... Waiting for PID 31123 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete... Waiting for PID 31126 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete... Waiting for PID 31129 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete... Waiting for PID 31132 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete... Waiting for PID 31135 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete... Waiting for PID 31138 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete... Waiting for PID 31141 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete... Waiting for PID 31144 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete... Waiting for PID 31147 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete... Waiting for PID 31150 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete... Waiting for PID 31153 of (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) to complete... mris_curvature -w lh.white.preaparc total integrated curvature = 9.594*4pi (120.565) --> -9 handles ICI = 303.8, FI = 2813.7, variation=45515.944 writing Gaussian curvature to ./lh.white.preaparc.K...done. writing mean curvature to ./lh.white.preaparc.H...done. rm -f lh.white.H ln -s lh.white.preaparc.H lh.white.H rm -f lh.white.K ln -s lh.white.preaparc.K lh.white.K mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated normalizing curvature values. averaging curvature patterns 5 times. sampling 10 neighbors out to a distance of 10 mm 295 vertices thresholded to be in k1 ~ [-0.37 0.24], k2 ~ [-0.17 0.10] total integrated curvature = 0.235*4pi (2.952) --> 1 handles ICI = 1.7, FI = 13.6, variation=228.444 196 vertices thresholded to be in [-0.02 0.02] writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 165 vertices thresholded to be in [-0.14 0.12] done. writing mean curvature to ./lh.inflated.H...curvature mean = -0.015, std = 0.024 done. mris_curvature -w rh.white.preaparc total integrated curvature = 16.249*4pi (204.194) --> -15 handles ICI = 330.5, FI = 2909.9, variation=47649.717 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 241 vertices thresholded to be in k1 ~ [-0.40 0.38], k2 ~ [-0.14 0.10] total integrated curvature = 0.230*4pi (2.885) --> 1 handles ICI = 1.5, FI = 14.1, variation=226.206 192 vertices thresholded to be in [-0.02 0.02] writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level curvature mean = 0.000, std = 0.001 177 vertices thresholded to be in [-0.18 0.17] done. writing mean curvature to ./rh.inflated.H...curvature mean = -0.015, std = 0.025 done. PIDs (31120 31123 31126 31129 31132 31135 31138 31141 31144 31147 31150 31153) completed and logs appended. #----------------------------------------- #@# Curvature Stats lh Sun Oct 8 05:40:45 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0050184 lh curv sulc Toggling save flag on curvature files [ ok ] Outputting results using filestem [ ../stats/lh.curv.stats ] Toggling save flag on curvature files [ ok ] Setting surface [ 0050184/lh.smoothwm ] Reading surface... [ ok ] Setting texture [ curv ] Reading texture... [ ok ] Setting texture [ sulc ] Reading texture...Gb_filter = 0 [ ok ] Calculating Discrete Principal Curvatures... Determining geometric order for vertex faces... [####################] [ ok ] Determining KH curvatures... [####################] [ ok ] Determining k1k2 curvatures... [####################] [ ok ] deltaViolations [ 355 ] Gb_filter = 0 WARN: S lookup min: -0.382513 WARN: S explicit min: 0.000000 vertex = 252 #----------------------------------------- #@# Curvature Stats rh Sun Oct 8 05:40:52 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0050184 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 [ 0050184/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 [ 321 ] Gb_filter = 0 WARN: S lookup min: -0.385682 WARN: S explicit min: 0.000000 vertex = 23 #-------------------------------------------- #@# Sphere lh Sun Oct 8 05:40:59 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere #-------------------------------------------- #@# Sphere rh Sun Oct 8 05:40:59 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere Waiting for PID 31334 of (31334 31337) to complete... Waiting for PID 31337 of (31334 31337) to complete... mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere setting seed for random number genererator to 1234 $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading original vertex positions... unfolding cortex into spherical form... surface projected - minimizing metric distortion... == Number of threads available to mris_sphere for OpenMP = 2 == scaling brain by 0.257... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 1234 -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %20.71 pass 1: epoch 2 of 3 starting distance error %20.56 unfolding complete - removing small folds... starting distance error %20.48 removing remaining folds... final distance error %20.50 MRISunfold() return, current seed 1234 -01: dt=0.0000, 445 negative triangles 214: dt=0.9900, 445 negative triangles 215: dt=0.9900, 198 negative triangles 216: dt=0.9900, 142 negative triangles 217: dt=0.9900, 132 negative triangles 218: dt=0.9900, 119 negative triangles 219: dt=0.9900, 110 negative triangles 220: dt=0.9900, 110 negative triangles 221: dt=0.9900, 94 negative triangles 222: dt=0.9900, 93 negative triangles 223: dt=0.9900, 97 negative triangles 224: dt=0.9900, 79 negative triangles 225: dt=0.9900, 94 negative triangles 226: dt=0.9900, 95 negative triangles 227: dt=0.9900, 96 negative triangles 228: dt=0.9900, 98 negative triangles 229: dt=0.9900, 78 negative triangles 230: dt=0.9900, 101 negative triangles 231: dt=0.9900, 95 negative triangles 232: dt=0.9900, 105 negative triangles 233: dt=0.9900, 94 negative triangles 234: dt=0.9900, 105 negative triangles 235: dt=0.9900, 92 negative triangles 236: dt=0.9900, 97 negative triangles 237: dt=0.9900, 108 negative triangles 238: dt=0.9900, 102 negative triangles 239: dt=0.9405, 104 negative triangles 240: dt=0.9405, 97 negative triangles 241: dt=0.9405, 100 negative triangles 242: dt=0.9405, 100 negative triangles 243: dt=0.9405, 102 negative triangles 244: dt=0.9405, 90 negative triangles 245: dt=0.9405, 98 negative triangles 246: dt=0.9405, 95 negative triangles 247: dt=0.9405, 88 negative triangles 248: dt=0.9405, 90 negative triangles 249: dt=0.8935, 91 negative triangles 250: dt=0.8935, 89 negative triangles 251: dt=0.8935, 92 negative triangles 252: dt=0.8935, 89 negative triangles 253: dt=0.8935, 84 negative triangles 254: dt=0.8935, 83 negative triangles 255: dt=0.8935, 79 negative triangles 256: dt=0.8935, 79 negative triangles 257: dt=0.8935, 77 negative triangles 258: dt=0.8935, 76 negative triangles 259: dt=0.8935, 76 negative triangles 260: dt=0.8935, 81 negative triangles 261: dt=0.8935, 79 negative triangles 262: dt=0.8935, 77 negative triangles 263: dt=0.8935, 81 negative triangles 264: dt=0.8935, 70 negative triangles 265: dt=0.8935, 73 negative triangles 266: dt=0.8935, 73 negative triangles 267: dt=0.8935, 71 negative triangles 268: dt=0.8935, 72 negative triangles 269: dt=0.8935, 74 negative triangles 270: dt=0.8935, 76 negative triangles 271: dt=0.8935, 69 negative triangles 272: dt=0.8935, 70 negative triangles 273: dt=0.8935, 69 negative triangles 274: dt=0.8935, 70 negative triangles 275: dt=0.8935, 69 negative triangles 276: dt=0.8935, 72 negative triangles 277: dt=0.8935, 68 negative triangles 278: dt=0.8935, 71 negative triangles 279: dt=0.8935, 72 negative triangles 280: dt=0.8935, 68 negative triangles 281: dt=0.8935, 73 negative triangles 282: dt=0.8935, 68 negative triangles 283: dt=0.8935, 61 negative triangles 284: dt=0.8935, 58 negative triangles 285: dt=0.8935, 67 negative triangles 286: dt=0.8935, 63 negative triangles 287: dt=0.8935, 59 negative triangles 288: dt=0.8935, 62 negative triangles 289: dt=0.8935, 60 negative triangles 290: dt=0.8935, 64 negative triangles 291: dt=0.8935, 59 negative triangles 292: dt=0.8935, 63 negative triangles 293: dt=0.8935, 67 negative triangles 294: dt=0.8488, 60 negative triangles 295: dt=0.8488, 54 negative triangles 296: dt=0.8488, 53 negative triangles 297: dt=0.8488, 55 negative triangles 298: dt=0.8488, 56 negative triangles 299: dt=0.8488, 53 negative triangles 300: dt=0.8488, 51 negative triangles 301: dt=0.8488, 53 negative triangles 302: dt=0.8488, 51 negative triangles 303: dt=0.8488, 53 negative triangles 304: dt=0.8488, 51 negative triangles 305: dt=0.8488, 49 negative triangles 306: dt=0.8488, 51 negative triangles 307: dt=0.8488, 50 negative triangles 308: dt=0.8488, 49 negative triangles 309: dt=0.8488, 51 negative triangles 310: dt=0.8488, 53 negative triangles 311: dt=0.8488, 45 negative triangles 312: dt=0.8488, 46 negative triangles 313: dt=0.8488, 43 negative triangles 314: dt=0.8488, 45 negative triangles 315: dt=0.8488, 42 negative triangles 316: dt=0.8488, 42 negative triangles 317: dt=0.8488, 41 negative triangles 318: dt=0.8488, 38 negative triangles 319: dt=0.8488, 40 negative triangles 320: dt=0.8488, 38 negative triangles 321: dt=0.8488, 37 negative triangles 322: dt=0.8488, 38 negative triangles 323: dt=0.8488, 31 negative triangles 324: dt=0.8488, 32 negative triangles 325: dt=0.8488, 34 negative triangles 326: dt=0.8488, 34 negative triangles 327: dt=0.8488, 31 negative triangles 328: dt=0.8488, 34 negative triangles 329: dt=0.8488, 32 negative triangles 330: dt=0.8488, 31 negative triangles 331: dt=0.8488, 31 negative triangles 332: dt=0.8488, 29 negative triangles 333: dt=0.8488, 32 negative triangles 334: dt=0.8488, 33 negative triangles 335: dt=0.8488, 32 negative triangles 336: dt=0.8488, 27 negative triangles 337: dt=0.8488, 28 negative triangles 338: dt=0.8488, 26 negative triangles 339: dt=0.8488, 30 negative triangles 340: dt=0.8488, 25 negative triangles 341: dt=0.8488, 26 negative triangles 342: dt=0.8488, 27 negative triangles 343: dt=0.8488, 29 negative triangles 344: dt=0.8488, 29 negative triangles 345: dt=0.8488, 29 negative triangles 346: dt=0.8488, 27 negative triangles 347: dt=0.8488, 24 negative triangles 348: dt=0.8488, 25 negative triangles 349: dt=0.8488, 26 negative triangles 350: dt=0.8488, 26 negative triangles 351: dt=0.8488, 25 negative triangles 352: dt=0.8488, 30 negative triangles 353: dt=0.8488, 26 negative triangles 354: dt=0.8488, 24 negative triangles 355: dt=0.8488, 25 negative triangles 356: dt=0.8488, 20 negative triangles 357: dt=0.8488, 23 negative triangles 358: dt=0.8488, 18 negative triangles 359: dt=0.8488, 20 negative triangles 360: dt=0.8488, 18 negative triangles 361: dt=0.8488, 20 negative triangles 362: dt=0.8488, 19 negative triangles 363: dt=0.8488, 22 negative triangles 364: dt=0.8488, 21 negative triangles 365: dt=0.8488, 16 negative triangles 366: dt=0.8488, 16 negative triangles 367: dt=0.8488, 13 negative triangles 368: dt=0.8488, 15 negative triangles 369: dt=0.8488, 14 negative triangles 370: dt=0.8488, 17 negative triangles 371: dt=0.8488, 18 negative triangles 372: dt=0.8488, 14 negative triangles 373: dt=0.8488, 14 negative triangles 374: dt=0.8488, 10 negative triangles 375: dt=0.8488, 12 negative triangles 376: dt=0.8488, 7 negative triangles 377: dt=0.8488, 10 negative triangles 378: dt=0.8488, 7 negative triangles 379: dt=0.8488, 8 negative triangles 380: dt=0.8488, 8 negative triangles 381: dt=0.8488, 6 negative triangles 382: dt=0.8488, 3 negative triangles 383: dt=0.8488, 4 negative triangles 384: dt=0.8488, 2 negative triangles 385: dt=0.8488, 1 negative triangles 386: dt=0.8488, 2 negative triangles writing spherical brain to ../surf/lh.sphere spherical transformation took 2.16 hours mris_sphere utimesec 7790.269698 mris_sphere stimesec 1.445780 mris_sphere ru_maxrss 376312 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 65670 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 13112 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 136433 mris_sphere ru_nivcsw 650897 FSRUNTIME@ mris_sphere 2.1603 hours 1 threads mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 = 2 == scaling brain by 0.256... MRISunfold() max_passes = 1 ------- tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 1.000000 desired_rms_height -1.000000 momentum 0.900000 nbhd_size 7 max_nbrs 8 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 1 randomSeed 1234 -------------------- mrisRemoveNegativeArea() pass 1: epoch 1 of 3 starting distance error %21.60 pass 1: epoch 2 of 3 starting distance error %21.56 unfolding complete - removing small folds... starting distance error %21.45 removing remaining folds... final distance error %21.48 MRISunfold() return, current seed 1234 -01: dt=0.0000, 674 negative triangles 218: dt=0.9900, 674 negative triangles 219: dt=0.9900, 345 negative triangles 220: dt=0.9900, 277 negative triangles 221: dt=0.9900, 245 negative triangles 222: dt=0.9900, 208 negative triangles 223: dt=0.9900, 198 negative triangles 224: dt=0.9900, 179 negative triangles 225: dt=0.9900, 157 negative triangles 226: dt=0.9900, 144 negative triangles 227: dt=0.9900, 147 negative triangles 228: dt=0.9900, 132 negative triangles 229: dt=0.9900, 132 negative triangles 230: dt=0.9900, 129 negative triangles 231: dt=0.9900, 109 negative triangles 232: dt=0.9900, 111 negative triangles 233: dt=0.9900, 107 negative triangles 234: dt=0.9900, 110 negative triangles 235: dt=0.9900, 95 negative triangles 236: dt=0.9900, 95 negative triangles 237: dt=0.9900, 88 negative triangles 238: dt=0.9900, 97 negative triangles 239: dt=0.9900, 76 negative triangles 240: dt=0.9900, 82 negative triangles 241: dt=0.9900, 78 negative triangles 242: dt=0.9900, 75 negative triangles 243: dt=0.9900, 76 negative triangles 244: dt=0.9900, 62 negative triangles 245: dt=0.9900, 75 negative triangles 246: dt=0.9900, 64 negative triangles 247: dt=0.9900, 56 negative triangles 248: dt=0.9900, 66 negative triangles 249: dt=0.9900, 60 negative triangles 250: dt=0.9900, 61 negative triangles 251: dt=0.9900, 54 negative triangles 252: dt=0.9900, 56 negative triangles 253: dt=0.9900, 56 negative triangles 254: dt=0.9900, 47 negative triangles 255: dt=0.9900, 45 negative triangles 256: dt=0.9900, 44 negative triangles 257: dt=0.9900, 39 negative triangles 258: dt=0.9900, 44 negative triangles 259: dt=0.9900, 40 negative triangles 260: dt=0.9900, 44 negative triangles 261: dt=0.9900, 42 negative triangles 262: dt=0.9900, 42 negative triangles 263: dt=0.9900, 41 negative triangles 264: dt=0.9900, 41 negative triangles 265: dt=0.9900, 37 negative triangles 266: dt=0.9900, 38 negative triangles 267: dt=0.9900, 45 negative triangles 268: dt=0.9900, 41 negative triangles 269: dt=0.9900, 35 negative triangles 270: dt=0.9900, 47 negative triangles 271: dt=0.9900, 39 negative triangles 272: dt=0.9900, 39 negative triangles 273: dt=0.9900, 43 negative triangles 274: dt=0.9900, 35 negative triangles 275: dt=0.9900, 30 negative triangles 276: dt=0.9900, 34 negative triangles 277: dt=0.9900, 27 negative triangles 278: dt=0.9900, 27 negative triangles 279: dt=0.9900, 30 negative triangles 280: dt=0.9900, 29 negative triangles 281: dt=0.9900, 25 negative triangles 282: dt=0.9900, 22 negative triangles 283: dt=0.9900, 24 negative triangles 284: dt=0.9900, 25 negative triangles 285: dt=0.9900, 24 negative triangles 286: dt=0.9900, 18 negative triangles 287: dt=0.9900, 14 negative triangles 288: dt=0.9900, 11 negative triangles 289: dt=0.9900, 20 negative triangles 290: dt=0.9900, 12 negative triangles 291: dt=0.9900, 9 negative triangles 292: dt=0.9900, 7 negative triangles 293: dt=0.9900, 3 negative triangles 294: dt=0.9900, 5 negative triangles 295: dt=0.9900, 8 negative triangles 296: dt=0.9900, 8 negative triangles 297: dt=0.9900, 4 negative triangles 298: dt=0.9900, 2 negative triangles writing spherical brain to ../surf/rh.sphere spherical transformation took 2.29 hours mris_sphere utimesec 8602.633200 mris_sphere stimesec 1.229813 mris_sphere ru_maxrss 362228 mris_sphere ru_ixrss 0 mris_sphere ru_idrss 0 mris_sphere ru_isrss 0 mris_sphere ru_minflt 63680 mris_sphere ru_majflt 0 mris_sphere ru_nswap 0 mris_sphere ru_inblock 0 mris_sphere ru_oublock 12496 mris_sphere ru_msgsnd 0 mris_sphere ru_msgrcv 0 mris_sphere ru_nsignals 0 mris_sphere ru_nvcsw 140103 mris_sphere ru_nivcsw 689438 FSRUNTIME@ mris_sphere 2.2949 hours 1 threads PIDs (31334 31337) completed and logs appended. #-------------------------------------------- #@# Surf Reg lh Sun Oct 8 07:58:41 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg #-------------------------------------------- #@# Surf Reg rh Sun Oct 8 07:58:41 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg Waiting for PID 8578 of (8578 8581) to complete... Waiting for PID 8581 of (8578 8581) to complete... mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg using smoothwm curvature for final alignment cwd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg 0 inflated.H 1 sulc 2 smoothwm (computed) $Id: mris_register.c,v 1.63 2016/01/20 23:43:04 greve Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading surface from ../surf/lh.sphere... reading template parameterization from /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... MRISregister() ------- max_passes = 4 min_degrees = 0.500000 max_degrees = 64.000000 nangles = 8 tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height -1.000000 momentum 0.950000 nbhd_size -10 max_nbrs 10 niterations 25 nsurfaces 0 SURFACES 3 flags 16 (10) use curv 16 no sulc 0 no rigid align 0 mris->nsize 1 mris->hemisphere 0 randomSeed 0 tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=1.000, l_dist=5.000 using quadratic fit line minimization -------------------- 1 Reading lh.sulc curvature mean = -0.000, std = 5.585 curvature mean = 0.029, std = 0.818 curvature mean = 0.022, std = 0.841 Starting MRISrigidBodyAlignGlobal() d=64.00 min @ (0.00, -16.00, 0.00) sse = 368316.8, tmin=1.4002 d=32.00 min @ (8.00, 8.00, 0.00) sse = 319782.4, tmin=2.8256 d=16.00 min @ (-4.00, -4.00, 0.00) sse = 290221.4, tmin=4.2696 d=8.00 min @ (2.00, 2.00, -2.00) sse = 283143.7, tmin=5.7386 d=4.00 min @ (-1.00, 0.00, 1.00) sse = 278174.7, tmin=7.2263 d=1.00 min @ (0.00, -0.25, 0.00) sse = 278003.5, tmin=10.2035 d=0.50 min @ (0.12, 0.12, 0.00) sse = 277947.5, tmin=11.6873 tol=1.0e+00, sigma=0.5, host=tars-, 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 11.69 min curvature mean = -0.006, std = 0.821 curvature mean = 0.009, std = 0.935 curvature mean = -0.014, std = 0.826 curvature mean = 0.003, std = 0.972 curvature mean = -0.017, std = 0.826 curvature mean = 0.001, std = 0.988 2 Reading smoothwm curvature mean = -0.031, std = 0.362 curvature mean = 0.036, std = 0.246 curvature mean = 0.074, std = 0.246 curvature mean = 0.031, std = 0.301 curvature mean = 0.049, std = 0.398 curvature mean = 0.030, std = 0.328 curvature mean = 0.030, std = 0.528 curvature mean = 0.030, std = 0.339 curvature mean = 0.012, std = 0.646 MRISregister() return, current seed 0 -01: dt=0.0000, 173 negative triangles 143: dt=0.9900, 173 negative triangles expanding nbhd size to 1 144: dt=0.9900, 186 negative triangles 145: dt=0.9900, 157 negative triangles 146: dt=0.9900, 148 negative triangles 147: dt=0.9900, 130 negative triangles 148: dt=0.9900, 121 negative triangles 149: dt=0.9900, 111 negative triangles 150: dt=0.9900, 117 negative triangles 151: dt=0.9900, 106 negative triangles 152: dt=0.9900, 104 negative triangles 153: dt=0.9900, 102 negative triangles 154: dt=0.9900, 100 negative triangles 155: dt=0.9900, 92 negative triangles 156: dt=0.9900, 87 negative triangles 157: dt=0.9900, 76 negative triangles 158: dt=0.9900, 67 negative triangles 159: dt=0.9900, 62 negative triangles 160: dt=0.9900, 59 negative triangles 161: dt=0.9900, 56 negative triangles 162: dt=0.9900, 61 negative triangles 163: dt=0.9900, 55 negative triangles 164: dt=0.9900, 49 negative triangles 165: dt=0.9900, 50 negative triangles 166: dt=0.9900, 47 negative triangles 167: dt=0.9900, 45 negative triangles 168: dt=0.9900, 43 negative triangles 169: dt=0.9900, 41 negative triangles 170: dt=0.9900, 37 negative triangles 171: dt=0.9900, 37 negative triangles 172: dt=0.9900, 37 negative triangles 173: dt=0.9900, 39 negative triangles 174: dt=0.9900, 37 negative triangles 175: dt=0.9900, 36 negative triangles 176: dt=0.9900, 36 negative triangles 177: dt=0.9900, 38 negative triangles 178: dt=0.9900, 38 negative triangles 179: dt=0.9900, 35 negative triangles 180: dt=0.9900, 32 negative triangles 181: dt=0.9900, 32 negative triangles 182: dt=0.9900, 31 negative triangles 183: dt=0.9900, 31 negative triangles 184: dt=0.9900, 31 negative triangles 185: dt=0.9900, 30 negative triangles 186: dt=0.9900, 29 negative triangles 187: dt=0.9900, 30 negative triangles 188: dt=0.9900, 32 negative triangles 189: dt=0.9900, 31 negative triangles 190: dt=0.9900, 31 negative triangles 191: dt=0.9900, 28 negative triangles 192: dt=0.9900, 28 negative triangles 193: dt=0.9900, 27 negative triangles 194: dt=0.9900, 27 negative triangles 195: dt=0.9900, 28 negative triangles 196: dt=0.9900, 27 negative triangles 197: dt=0.9900, 27 negative triangles 198: dt=0.9900, 28 negative triangles 199: dt=0.9900, 27 negative triangles 200: dt=0.9900, 26 negative triangles 201: dt=0.9900, 24 negative triangles 202: dt=0.9900, 24 negative triangles 203: dt=0.9900, 24 negative triangles 204: dt=0.9900, 25 negative triangles 205: dt=0.9900, 25 negative triangles 206: dt=0.9900, 23 negative triangles 207: dt=0.9900, 23 negative triangles 208: dt=0.9900, 23 negative triangles 209: dt=0.9900, 25 negative triangles 210: dt=0.9900, 24 negative triangles 211: dt=0.9900, 24 negative triangles 212: dt=0.9900, 22 negative triangles 213: dt=0.9900, 22 negative triangles 214: dt=0.9900, 21 negative triangles 215: dt=0.9900, 21 negative triangles 216: dt=0.9900, 20 negative triangles 217: dt=0.9900, 20 negative triangles 218: dt=0.9900, 19 negative triangles 219: dt=0.9900, 18 negative triangles 220: dt=0.9900, 18 negative triangles 221: dt=0.9900, 20 negative triangles 222: dt=0.9900, 21 negative triangles 223: dt=0.9900, 20 negative triangles 224: dt=0.9900, 17 negative triangles 225: dt=0.9900, 16 negative triangles 226: dt=0.9900, 16 negative triangles 227: dt=0.9900, 16 negative triangles 228: dt=0.9900, 16 negative triangles 229: dt=0.9900, 16 negative triangles 230: dt=0.9900, 16 negative triangles 231: dt=0.9900, 16 negative triangles 232: dt=0.9900, 16 negative triangles 233: dt=0.9900, 16 negative triangles 234: dt=0.9900, 17 negative triangles 235: dt=0.9405, 16 negative triangles 236: dt=0.9405, 15 negative triangles 237: dt=0.9405, 15 negative triangles 238: dt=0.9405, 12 negative triangles 239: dt=0.9405, 9 negative triangles 240: dt=0.9405, 9 negative triangles 241: dt=0.9405, 9 negative triangles 242: dt=0.9405, 9 negative triangles 243: dt=0.9405, 8 negative triangles 244: dt=0.9405, 8 negative triangles 245: dt=0.9405, 8 negative triangles 246: dt=0.9405, 8 negative triangles 247: dt=0.9405, 8 negative triangles 248: dt=0.9405, 7 negative triangles 249: dt=0.9405, 8 negative triangles 250: dt=0.9405, 7 negative triangles 251: dt=0.9405, 6 negative triangles 252: dt=0.9405, 4 negative triangles 253: dt=0.9405, 3 negative triangles 254: dt=0.9405, 2 negative triangles 255: dt=0.9405, 1 negative triangles 256: dt=0.9405, 1 negative triangles 257: dt=0.9405, 1 negative triangles 258: dt=0.9405, 1 negative triangles 259: dt=0.9405, 1 negative triangles 260: dt=0.9405, 1 negative triangles writing registered surface to ../surf/lh.sphere.reg... registration took 2.09 hours mris_register utimesec 7517.165217 mris_register stimesec 2.787576 mris_register ru_maxrss 323272 mris_register ru_ixrss 0 mris_register ru_idrss 0 mris_register ru_isrss 0 mris_register ru_minflt 44168 mris_register ru_majflt 0 mris_register ru_nswap 0 mris_register ru_inblock 12912 mris_register ru_oublock 13032 mris_register ru_msgsnd 0 mris_register ru_msgrcv 0 mris_register ru_nsignals 0 mris_register ru_nvcsw 359158 mris_register ru_nivcsw 458257 FSRUNTIME@ mris_register 2.0896 hours 1 threads mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/rh.sphere.reg using smoothwm curvature for final alignment cwd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/touch/rusage.mris_register.rh.dat ../surf/rh.sphere /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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=tars-, 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=tars-, 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 = 5.631 curvature mean = 0.021, std = 0.808 curvature mean = 0.018, std = 0.845 Starting MRISrigidBodyAlignGlobal() d=64.00 min @ (16.00, 0.00, 0.00) sse = 468431.8, tmin=1.3673 d=32.00 min @ (-8.00, 0.00, 8.00) sse = 359939.8, tmin=2.7616 d=16.00 min @ (-4.00, -4.00, -4.00) sse = 328283.5, tmin=4.1754 d=8.00 min @ (2.00, 0.00, 0.00) sse = 321827.3, tmin=5.6408 d=4.00 min @ (0.00, 0.00, 1.00) sse = 320140.9, tmin=7.1153 d=2.00 min @ (0.00, 0.50, 0.00) sse = 319816.8, tmin=8.5951 d=1.00 min @ (-0.25, -0.25, 0.00) sse = 319762.2, tmin=10.0628 d=0.50 min @ (0.12, 0.00, -0.12) sse = 319737.6, tmin=11.5173 tol=1.0e+00, sigma=0.5, host=tars-, 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 11.52 min curvature mean = -0.002, std = 0.815 curvature mean = 0.007, std = 0.937 curvature mean = -0.008, std = 0.822 curvature mean = 0.003, std = 0.973 curvature mean = -0.011, std = 0.821 curvature mean = 0.001, std = 0.989 2 Reading smoothwm curvature mean = -0.034, std = 0.462 curvature mean = 0.032, std = 0.238 curvature mean = 0.064, std = 0.194 curvature mean = 0.027, std = 0.293 curvature mean = 0.046, std = 0.312 curvature mean = 0.027, std = 0.318 curvature mean = 0.030, std = 0.419 curvature mean = 0.026, std = 0.329 curvature mean = 0.013, std = 0.523 MRISregister() return, current seed 0 -01: dt=0.0000, 159 negative triangles 145: dt=0.9900, 159 negative triangles expanding nbhd size to 1 146: dt=0.9900, 192 negative triangles 147: dt=0.9900, 163 negative triangles 148: dt=0.9900, 150 negative triangles 149: dt=0.9900, 146 negative triangles 150: dt=0.9900, 143 negative triangles 151: dt=0.9900, 140 negative triangles 152: dt=0.9900, 131 negative triangles 153: dt=0.9900, 133 negative triangles 154: dt=0.9900, 112 negative triangles 155: dt=0.9900, 117 negative triangles 156: dt=0.9900, 102 negative triangles 157: dt=0.9900, 95 negative triangles 158: dt=0.9900, 85 negative triangles 159: dt=0.9900, 74 negative triangles 160: dt=0.9900, 60 negative triangles 161: dt=0.9900, 63 negative triangles 162: dt=0.9900, 58 negative triangles 163: dt=0.9900, 61 negative triangles 164: dt=0.9900, 56 negative triangles 165: dt=0.9900, 55 negative triangles 166: dt=0.9900, 53 negative triangles 167: dt=0.9900, 45 negative triangles 168: dt=0.9900, 42 negative triangles 169: dt=0.9900, 41 negative triangles 170: dt=0.9900, 35 negative triangles 171: dt=0.9900, 37 negative triangles 172: dt=0.9900, 32 negative triangles 173: dt=0.9900, 36 negative triangles 174: dt=0.9900, 31 negative triangles 175: dt=0.9900, 31 negative triangles 176: dt=0.9900, 28 negative triangles 177: dt=0.9900, 26 negative triangles 178: dt=0.9900, 28 negative triangles 179: dt=0.9900, 27 negative triangles 180: dt=0.9900, 25 negative triangles 181: dt=0.9900, 25 negative triangles 182: dt=0.9900, 26 negative triangles 183: dt=0.9900, 25 negative triangles 184: dt=0.9900, 24 negative triangles 185: dt=0.9900, 19 negative triangles 186: dt=0.9900, 18 negative triangles 187: dt=0.9900, 17 negative triangles 188: dt=0.9900, 15 negative triangles 189: dt=0.9900, 14 negative triangles 190: dt=0.9900, 15 negative triangles 191: dt=0.9900, 12 negative triangles 192: dt=0.9900, 12 negative triangles 193: dt=0.9900, 12 negative triangles 194: dt=0.9900, 11 negative triangles 195: dt=0.9900, 9 negative triangles 196: dt=0.9900, 10 negative triangles 197: dt=0.9900, 7 negative triangles 198: dt=0.9900, 3 negative triangles 199: dt=0.9900, 4 negative triangles 200: dt=0.9900, 2 negative triangles 201: dt=0.9900, 4 negative triangles 202: dt=0.9900, 1 negative triangles writing registered surface to ../surf/rh.sphere.reg... registration took 2.32 hours mris_register utimesec 8876.796521 mris_register stimesec 2.799574 mris_register ru_maxrss 316824 mris_register ru_ixrss 0 mris_register ru_idrss 0 mris_register ru_isrss 0 mris_register ru_minflt 44056 mris_register ru_majflt 0 mris_register ru_nswap 0 mris_register ru_inblock 12424 mris_register ru_oublock 12528 mris_register ru_msgsnd 0 mris_register ru_msgrcv 0 mris_register ru_nsignals 0 mris_register ru_nvcsw 414492 mris_register ru_nivcsw 449973 FSRUNTIME@ mris_register 2.3230 hours 1 threads PIDs (8578 8581) completed and logs appended. #-------------------------------------------- #@# Jacobian white lh Sun Oct 8 10:18:04 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white #-------------------------------------------- #@# Jacobian white rh Sun Oct 8 10:18:04 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white Waiting for PID 16431 of (16431 16434) to complete... Waiting for PID 16434 of (16431 16434) to complete... mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white reading surface from ../surf/lh.white.preaparc... writing curvature file ../surf/lh.jacobian_white 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 PIDs (16431 16434) completed and logs appended. #-------------------------------------------- #@# AvgCurv lh Sun Oct 8 10:18:07 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mrisp_paint -a 5 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv #-------------------------------------------- #@# AvgCurv rh Sun Oct 8 10:18:07 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mrisp_paint -a 5 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/rh.sphere.reg ../surf/rh.avg_curv Waiting for PID 16475 of (16475 16478) to complete... Waiting for PID 16478 of (16475 16478) to complete... mrisp_paint -a 5 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv averaging curvature patterns 5 times... reading surface from ../surf/lh.sphere.reg... reading template parameterization from /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/lh.avg_curv... mrisp_paint -a 5 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/rh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif... writing curvature file to ../surf/rh.avg_curv... PIDs (16475 16478) completed and logs appended. #----------------------------------------- #@# Cortical Parc lh Sun Oct 8 10:18:09 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot #----------------------------------------- #@# Cortical Parc rh Sun Oct 8 10:18:09 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 rh ../surf/rh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/rh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.annot Waiting for PID 16521 of (16521 16524) to complete... Waiting for PID 16524 of (16521 16524) to complete... mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading atlas from /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 0.8 using min determinant for regularization = 0.006 0 singular and 342 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1678 labels changed using aseg relabeling using gibbs priors... 000: 4037 changed, 183509 examined... 001: 993 changed, 16858 examined... 002: 251 changed, 5357 examined... 003: 87 changed, 1454 examined... 004: 33 changed, 490 examined... 005: 8 changed, 193 examined... 006: 4 changed, 50 examined... 007: 4 changed, 26 examined... 008: 3 changed, 21 examined... 009: 3 changed, 20 examined... 010: 1 changed, 13 examined... 011: 1 changed, 9 examined... 012: 0 changed, 5 examined... 330 labels changed using aseg 000: 161 total segments, 117 labels (618 vertices) changed 001: 44 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... 2311 vertices marked for relabeling... 2311 labels changed in reclassification. writing output to ../label/lh.aparc.annot... classification took 0 minutes and 21 seconds. mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 rh ../surf/rh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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... 1342 labels changed using aseg relabeling using gibbs priors... 000: 3419 changed, 176561 examined... 001: 866 changed, 14613 examined... 002: 224 changed, 4763 examined... 003: 78 changed, 1355 examined... 004: 26 changed, 466 examined... 005: 16 changed, 161 examined... 006: 7 changed, 96 examined... 007: 6 changed, 52 examined... 008: 3 changed, 41 examined... 009: 1 changed, 17 examined... 010: 2 changed, 5 examined... 011: 3 changed, 13 examined... 012: 2 changed, 12 examined... 013: 3 changed, 13 examined... 014: 1 changed, 11 examined... 015: 0 changed, 8 examined... 180 labels changed using aseg 000: 136 total segments, 99 labels (502 vertices) changed 001: 40 total segments, 3 labels (6 vertices) changed 002: 37 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... 2112 vertices marked for relabeling... 2112 labels changed in reclassification. writing output to ../label/rh.aparc.annot... classification took 0 minutes and 20 seconds. PIDs (16521 16524) completed and logs appended. #-------------------------------------------- #@# Make Pial Surf lh Sun Oct 8 10:18:31 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050184 lh #-------------------------------------------- #@# Make Pial Surf rh Sun Oct 8 10:18:31 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050184 rh Waiting for PID 16586 of (16586 16589) to complete... Waiting for PID 16589 of (16586 16589) to complete... mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050184 lh using white.preaparc starting white location... using white.preaparc starting pial locations... using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline INFO: assuming MGZ format for volumes. using brain.finalsurfs as T1 volume... $Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/filled.mgz... reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/brain.finalsurfs.mgz... reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/../mri/aseg.presurf.mgz... reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... 36246 bright wm thresholded. 330 bright non-wm voxels segmented. reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.orig... computing class statistics... border white: 349830 voxels (2.09%) border gray 408403 voxels (2.43%) WM (94.0): 94.8 +- 9.5 [70.0 --> 110.0] GM (66.0) : 65.5 +- 10.9 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 52.1 (was 70) setting MAX_BORDER_WHITE to 109.5 (was 105) setting MIN_BORDER_WHITE to 63.0 (was 85) setting MAX_CSF to 41.2 (was 40) setting MAX_GRAY to 90.5 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 52.1 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 30.3 (was 40) using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=100+-8.7, GM=63+-7.8 mean inside = 90.3, mean outside = 69.6 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 0.89 +- 0.26 (0.02-->7.30) (max @ vno 25792 --> 180570) face area 0.33 +- 0.17 (0.00-->10.82) mean absolute distance = 0.58 +- 0.77 4812 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... inhibiting deformation at non-cortical midline structures... deleting segment 0 with 79 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 1 with 1 points - only 0.00% unknown deleting segment 2 with 5 points - only 0.00% unknown deleting segment 5 with 332 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 6 with 4 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 7 with 2 points - only 0.00% unknown deleting segment 8 with 13 points - only 0.00% unknown deleting segment 9 with 5 points - only 0.00% unknown deleting segment 10 with 9 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 11 with 1 points - only 0.00% unknown deleting segment 12 with 6 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 13 with 1 points - only 0.00% unknown deleting segment 14 with 13 points - only 0.00% unknown deleting segment 15 with 38 points - only 0.00% unknown deleting segment 16 with 47 points - only 0.00% unknown deleting segment 17 with 19 points - only 0.00% unknown mean border=75.1, 185 (185) missing vertices, mean dist 0.4 [0.8 (%12.8)->0.6 (%87.2))] %70 local maxima, %26 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 complete_dist_mat 0 rms 0 smooth_averages 0 remove_neg 0 ico_order 0 which_surface 0 target_radius 0.000000 nfields 0 scale 0.000000 desired_rms_height 0.000000 momentum 0.000000 nbhd_size 0 max_nbrs 0 niterations 25 nsurfaces 0 SURFACES 3 flags 0 (0) use curv 0 no sulc 0 no rigid align 0 mris->nsize 2 mris->hemisphere 0 randomSeed 0 smoothing T1 volume with sigma = 1.000 vertex spacing 0.91 +- 0.27 (0.07-->7.09) (max @ vno 25792 --> 180570) face area 0.33 +- 0.17 (0.00-->10.24) mean absolute distance = 0.35 +- 0.54 4652 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=3277457.2, rms=8.210 001: dt: 0.5000, sse=1752693.2, rms=4.930 (39.950%) 002: dt: 0.5000, sse=1457970.8, rms=4.065 (17.543%) rms = 4.07, time step reduction 1 of 3 to 0.250... 003: dt: 0.2500, sse=1238656.9, rms=3.195 (21.401%) 004: dt: 0.2500, sse=1148451.4, rms=2.757 (13.707%) 005: dt: 0.2500, sse=1108743.4, rms=2.536 (8.035%) 006: dt: 0.2500, sse=1094112.6, rms=2.449 (3.429%) 007: dt: 0.2500, sse=1086918.1, rms=2.381 (2.769%) rms = 2.34, time step reduction 2 of 3 to 0.125... 008: dt: 0.2500, sse=1077636.9, rms=2.339 (1.740%) 009: dt: 0.1250, sse=1064326.0, rms=2.258 (3.502%) rms = 2.24, time step reduction 3 of 3 to 0.062... 010: dt: 0.1250, sse=1062095.5, rms=2.242 (0.676%) positioning took 1.6 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 85 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 1 with 3 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 4 with 249 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 5 with 2 points - only 0.00% unknown deleting segment 6 with 8 points - only 0.00% unknown deleting segment 7 with 28 points - only 42.86% unknown removing 2 vertex label from ripped group deleting segment 8 with 2 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 9 with 1 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 10 with 2 points - only 0.00% unknown deleting segment 11 with 32 points - only 0.00% unknown deleting segment 12 with 41 points - only 0.00% unknown deleting segment 13 with 16 points - only 0.00% unknown mean border=79.1, 161 (47) missing vertices, mean dist -0.2 [0.4 (%76.2)->0.3 (%23.8))] %83 local maxima, %13 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.500 vertex spacing 0.90 +- 0.27 (0.04-->7.04) (max @ vno 25792 --> 180570) face area 0.35 +- 0.18 (0.00-->11.41) mean absolute distance = 0.24 +- 0.37 4065 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1865344.1, rms=5.149 011: dt: 0.5000, sse=1374545.9, rms=3.507 (31.898%) rms = 3.79, time step reduction 1 of 3 to 0.250... 012: dt: 0.2500, sse=1172296.1, rms=2.607 (25.656%) 013: dt: 0.2500, sse=1103252.5, rms=2.110 (19.059%) 014: dt: 0.2500, sse=1063528.6, rms=1.900 (9.955%) rms = 1.86, time step reduction 2 of 3 to 0.125... 015: dt: 0.2500, sse=1055818.6, rms=1.857 (2.298%) 016: dt: 0.1250, sse=1046119.8, rms=1.748 (5.825%) rms = 1.74, time step reduction 3 of 3 to 0.062... 017: dt: 0.1250, sse=1042403.4, rms=1.741 (0.436%) positioning took 1.1 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 86 points - only 0.00% unknown deleting segment 1 with 5 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 3 with 263 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 4 with 2 points - only 0.00% unknown deleting segment 5 with 9 points - only 0.00% unknown deleting segment 6 with 28 points - only 42.86% unknown removing 3 vertex label from ripped group deleting segment 7 with 3 points - only 0.00% unknown deleting segment 8 with 24 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 32 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 11 with 3 points - only 0.00% unknown deleting segment 12 with 42 points - only 0.00% unknown deleting segment 13 with 17 points - only 0.00% unknown mean border=81.1, 199 (29) missing vertices, mean dist -0.1 [0.3 (%65.6)->0.2 (%34.4))] %88 local maxima, % 8 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.250 vertex spacing 0.89 +- 0.27 (0.08-->7.02) (max @ vno 25792 --> 180570) face area 0.34 +- 0.18 (0.00-->11.37) mean absolute distance = 0.22 +- 0.32 3551 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1234805.2, rms=3.051 rms = 3.29, time step reduction 1 of 3 to 0.250... 018: dt: 0.2500, sse=1082518.9, rms=2.243 (26.494%) 019: dt: 0.2500, sse=1026138.4, rms=1.772 (21.000%) 020: dt: 0.2500, sse=1014089.7, rms=1.707 (3.648%) rms = 1.69, time step reduction 2 of 3 to 0.125... 021: dt: 0.2500, sse=1023752.2, rms=1.693 (0.833%) 022: dt: 0.1250, sse=994267.9, rms=1.591 (6.003%) rms = 1.59, time step reduction 3 of 3 to 0.062... 023: dt: 0.1250, sse=993950.4, rms=1.591 (0.047%) positioning took 1.0 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 89 points - only 0.00% unknown deleting segment 1 with 5 points - only 0.00% unknown deleting segment 2 with 263 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 3 with 2 points - only 0.00% unknown deleting segment 4 with 9 points - only 0.00% unknown deleting segment 5 with 28 points - only 42.86% unknown removing 2 vertex label from ripped group deleting segment 6 with 2 points - only 0.00% unknown deleting segment 7 with 24 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 8 with 4 points - only 0.00% unknown deleting segment 9 with 14 points - only 0.00% unknown deleting segment 10 with 36 points - only 0.00% unknown deleting segment 11 with 41 points - only 0.00% unknown deleting segment 12 with 17 points - only 0.00% unknown mean border=81.8, 239 (21) missing vertices, mean dist -0.0 [0.2 (%53.6)->0.2 (%46.4))] %90 local maxima, % 6 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white... writing smoothed curvature to lh.curv 000: dt: 0.0000, sse=1015217.2, rms=1.821 rms = 2.13, time step reduction 1 of 3 to 0.250... 024: dt: 0.2500, sse=965899.8, rms=1.387 (23.818%) 025: dt: 0.2500, sse=958940.8, rms=1.217 (12.296%) rms = 1.22, time step reduction 2 of 3 to 0.125... rms = 1.21, time step reduction 3 of 3 to 0.062... 026: dt: 0.1250, sse=949324.4, rms=1.211 (0.462%) positioning took 0.6 minutes generating cortex label... 10 non-cortical segments detected only using segment with 7963 vertices erasing segment 0 (vno[0] = 49850) erasing segment 2 (vno[0] = 115349) erasing segment 3 (vno[0] = 124284) erasing segment 4 (vno[0] = 126561) erasing segment 5 (vno[0] = 127686) erasing segment 6 (vno[0] = 131568) erasing segment 7 (vno[0] = 137625) erasing segment 8 (vno[0] = 138788) erasing segment 9 (vno[0] = 142878) writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label... writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.curv writing smoothed area to lh.area writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.area vertex spacing 0.89 +- 0.27 (0.02-->7.02) (max @ vno 25792 --> 180570) face area 0.33 +- 0.18 (0.00-->11.08) 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 80 points - only 0.00% unknown smoothing surface for 5 iterations... reading initial pial vertex positions from white.preaparc... mean border=50.2, 194 (194) missing vertices, mean dist 1.7 [1.0 (%0.0)->3.0 (%100.0))] %13 local maxima, %42 large gradients and %41 min vals, 345 gradients ignored perforing initial smooth deformation to move away from white surface tol=1.0e-04, sigma=2.0, host=tars-, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=37523964.0, rms=32.164 001: dt: 0.0500, sse=32750904.0, rms=29.996 (6.742%) 002: dt: 0.0500, sse=29352106.0, rms=28.351 (5.485%) 003: dt: 0.0500, sse=26778886.0, rms=27.038 (4.629%) 004: dt: 0.0500, sse=24732406.0, rms=25.947 (4.036%) 005: dt: 0.0500, sse=23043042.0, rms=25.010 (3.610%) 006: dt: 0.0500, sse=21610630.0, rms=24.188 (3.289%) 007: dt: 0.0500, sse=20369108.0, rms=23.451 (3.045%) 008: dt: 0.0500, sse=19277732.0, rms=22.784 (2.845%) 009: dt: 0.0500, sse=18306400.0, rms=22.173 (2.680%) 010: dt: 0.0500, sse=17434068.0, rms=21.610 (2.540%) positioning took 1.4 minutes mean border=50.1, 153 (80) missing vertices, mean dist 1.5 [0.2 (%0.0)->2.5 (%100.0))] %14 local maxima, %43 large gradients and %40 min vals, 287 gradients ignored tol=1.0e-04, sigma=2.0, host=tars-, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=18356804.0, rms=22.210 011: dt: 0.0500, sse=17562144.0, rms=21.699 (2.302%) 012: dt: 0.0500, sse=16839564.0, rms=21.223 (2.192%) 013: dt: 0.0500, sse=16179745.0, rms=20.779 (2.092%) 014: dt: 0.0500, sse=15574832.0, rms=20.364 (2.000%) 015: dt: 0.0500, sse=15019690.0, rms=19.974 (1.911%) 016: dt: 0.0500, sse=14509670.0, rms=19.610 (1.824%) 017: dt: 0.0500, sse=14040043.0, rms=19.269 (1.742%) 018: dt: 0.0500, sse=13606610.0, rms=18.948 (1.665%) 019: dt: 0.0500, sse=13205855.0, rms=18.646 (1.592%) 020: dt: 0.0500, sse=12834933.0, rms=18.362 (1.521%) positioning took 1.4 minutes mean border=50.0, 164 (58) missing vertices, mean dist 1.3 [0.1 (%0.8)->2.2 (%99.2))] %14 local maxima, %43 large gradients and %40 min vals, 318 gradients ignored tol=1.0e-04, sigma=2.0, host=tars-, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=12969981.0, rms=18.474 021: dt: 0.0500, sse=12620668.0, rms=18.204 (1.459%) 022: dt: 0.0500, sse=12295680.0, rms=17.950 (1.398%) 023: dt: 0.0500, sse=11990694.0, rms=17.708 (1.350%) 024: dt: 0.0500, sse=11705478.0, rms=17.478 (1.297%) 025: dt: 0.0500, sse=11437735.0, rms=17.260 (1.250%) 026: dt: 0.0500, sse=11184870.0, rms=17.051 (1.211%) 027: dt: 0.0500, sse=10944684.0, rms=16.850 (1.179%) 028: dt: 0.0500, sse=10714367.0, rms=16.655 (1.157%) 029: dt: 0.0500, sse=10492507.0, rms=16.465 (1.142%) 030: dt: 0.0500, sse=10278372.0, rms=16.279 (1.128%) positioning took 1.4 minutes mean border=49.9, 208 (50) missing vertices, mean dist 1.1 [0.1 (%5.0)->2.0 (%95.0))] %15 local maxima, %43 large gradients and %39 min vals, 273 gradients ignored tol=1.0e-04, sigma=2.0, host=tars-, nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, 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=10379889.0, rms=16.369 031: dt: 0.5000, sse=8815548.0, rms=14.952 (8.654%) 032: dt: 0.5000, sse=7635135.5, rms=13.781 (7.830%) 033: dt: 0.5000, sse=6666168.0, rms=12.741 (7.551%) 034: dt: 0.5000, sse=5846171.0, rms=11.784 (7.506%) 035: dt: 0.5000, sse=5156048.0, rms=10.915 (7.374%) 036: dt: 0.5000, sse=4549852.0, rms=10.089 (7.567%) 037: dt: 0.5000, sse=4014957.5, rms=9.303 (7.798%) 038: dt: 0.5000, sse=3540822.0, rms=8.545 (8.146%) 039: dt: 0.5000, sse=3159368.8, rms=7.884 (7.736%) 040: dt: 0.5000, sse=2862780.5, rms=7.328 (7.052%) 041: dt: 0.5000, sse=2651805.8, rms=6.906 (5.763%) 042: dt: 0.5000, sse=2502363.8, rms=6.589 (4.589%) 043: dt: 0.5000, sse=2405315.0, rms=6.375 (3.238%) 044: dt: 0.5000, sse=2335222.8, rms=6.215 (2.518%) 045: dt: 0.5000, sse=2292568.0, rms=6.116 (1.590%) 046: dt: 0.5000, sse=2253611.5, rms=6.022 (1.539%) 047: dt: 0.5000, sse=2230905.2, rms=5.968 (0.889%) rms = 5.92, time step reduction 1 of 3 to 0.250... 048: dt: 0.5000, sse=2211638.5, rms=5.920 (0.812%) 049: dt: 0.2500, sse=2007869.1, rms=5.363 (9.401%) 050: dt: 0.2500, sse=1940237.4, rms=5.182 (3.376%) rms = 5.19, time step reduction 2 of 3 to 0.125... 051: dt: 0.1250, sse=1915897.9, rms=5.111 (1.370%) 052: dt: 0.1250, sse=1883743.8, rms=5.015 (1.889%) rms = 5.00, time step reduction 3 of 3 to 0.062... 053: dt: 0.1250, sse=1879654.5, rms=5.001 (0.271%) positioning took 4.4 minutes mean border=48.8, 3157 (19) missing vertices, mean dist 0.1 [0.2 (%47.0)->0.6 (%53.0))] %28 local maxima, %31 large gradients and %35 min vals, 152 gradients ignored tol=1.0e-04, sigma=1.0, host=tars-, nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, 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=2254072.2, rms=5.218 rms = 5.39, time step reduction 1 of 3 to 0.250... 054: dt: 0.2500, sse=2096254.8, rms=4.752 (8.934%) 055: dt: 0.2500, sse=2019991.0, rms=4.506 (5.176%) 056: dt: 0.2500, sse=1997980.5, rms=4.447 (1.321%) rms = 4.40, time step reduction 2 of 3 to 0.125... 057: dt: 0.2500, sse=1981395.6, rms=4.399 (1.073%) 058: dt: 0.1250, sse=1907172.2, rms=4.139 (5.902%) 059: dt: 0.1250, sse=1888726.6, rms=4.078 (1.488%) rms = 4.06, time step reduction 3 of 3 to 0.062... 060: dt: 0.1250, sse=1883355.6, rms=4.061 (0.423%) positioning took 1.7 minutes mean border=48.2, 3489 (19) missing vertices, mean dist 0.1 [0.1 (%48.7)->0.4 (%51.3))] %40 local maxima, %20 large gradients and %35 min vals, 158 gradients ignored tol=1.0e-04, sigma=0.5, host=tars-, nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, 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=1948085.1, rms=4.282 rms = 4.95, time step reduction 1 of 3 to 0.250... 061: dt: 0.2500, sse=1897676.6, rms=4.107 (4.073%) rms = 4.10, time step reduction 2 of 3 to 0.125... 062: dt: 0.2500, sse=1892594.5, rms=4.100 (0.163%) 063: dt: 0.1250, sse=1867299.1, rms=4.007 (2.275%) rms = 3.98, time step reduction 3 of 3 to 0.062... 064: dt: 0.1250, sse=1857372.5, rms=3.976 (0.780%) positioning took 1.1 minutes mean border=47.6, 6888 (17) missing vertices, mean dist 0.1 [0.1 (%49.1)->0.3 (%50.9))] %42 local maxima, %17 large gradients and %34 min vals, 186 gradients ignored tol=1.0e-04, sigma=0.2, host=tars-, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 writing pial surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial... writing smoothed curvature to lh.curv.pial 000: dt: 0.0000, sse=1891630.9, rms=4.082 rms = 4.57, time step reduction 1 of 3 to 0.250... 065: dt: 0.2500, sse=1862445.8, rms=3.979 (2.526%) rms = 3.93, time step reduction 2 of 3 to 0.125... 066: dt: 0.2500, sse=1842974.5, rms=3.932 (1.168%) 067: dt: 0.1250, sse=1819643.8, rms=3.842 (2.287%) rms = 3.80, time step reduction 3 of 3 to 0.062... 068: dt: 0.1250, sse=1806828.0, rms=3.801 (1.084%) positioning took 1.1 minutes writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.curv.pial writing smoothed area to lh.area.pial writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.area.pial vertex spacing 1.03 +- 0.48 (0.02-->6.88) (max @ vno 25792 --> 180570) face area 0.41 +- 0.36 (0.00-->8.95) measuring cortical thickness... writing cortical thickness estimate to 'thickness' file. 0 of 183509 vertices processed 25000 of 183509 vertices processed 50000 of 183509 vertices processed 75000 of 183509 vertices processed 100000 of 183509 vertices processed 125000 of 183509 vertices processed 150000 of 183509 vertices processed 175000 of 183509 vertices processed 0 of 183509 vertices processed 25000 of 183509 vertices processed 50000 of 183509 vertices processed 75000 of 183509 vertices processed 100000 of 183509 vertices processed 125000 of 183509 vertices processed 150000 of 183509 vertices processed 175000 of 183509 vertices processed thickness calculation complete, 737:1769 truncations. 32156 vertices at 0 distance 112536 vertices at 1 distance 120083 vertices at 2 distance 59485 vertices at 3 distance 20287 vertices at 4 distance 6230 vertices at 5 distance 2064 vertices at 6 distance 780 vertices at 7 distance 312 vertices at 8 distance 142 vertices at 9 distance 92 vertices at 10 distance 73 vertices at 11 distance 51 vertices at 12 distance 33 vertices at 13 distance 42 vertices at 14 distance 36 vertices at 15 distance 38 vertices at 16 distance 30 vertices at 17 distance 23 vertices at 18 distance 25 vertices at 19 distance 24 vertices at 20 distance writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.thickness positioning took 21.7 minutes mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/filled.mgz... reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/brain.finalsurfs.mgz... reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/../mri/aseg.presurf.mgz... reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... 36246 bright wm thresholded. 330 bright non-wm voxels segmented. reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.orig... computing class statistics... border white: 349830 voxels (2.09%) border gray 408403 voxels (2.43%) WM (94.0): 94.8 +- 9.5 [70.0 --> 110.0] GM (66.0) : 65.5 +- 10.9 [30.0 --> 110.0] setting MIN_GRAY_AT_WHITE_BORDER to 51.1 (was 70) setting MAX_BORDER_WHITE to 108.5 (was 105) setting MIN_BORDER_WHITE to 62.0 (was 85) setting MAX_CSF to 40.2 (was 40) setting MAX_GRAY to 89.5 (was 95) setting MAX_GRAY_AT_CSF_BORDER to 51.1 (was 75) setting MIN_GRAY_AT_CSF_BORDER to 29.3 (was 40) using class modes intead of means, discounting robust sigmas.... intensity peaks found at WM=99+-11.3, GM=62+-8.7 mean inside = 89.2, mean outside = 68.9 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 0.89 +- 0.28 (0.02-->6.36) (max @ vno 36471 --> 56935) face area 0.33 +- 0.18 (0.00-->9.78) mean absolute distance = 0.61 +- 0.85 4070 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... inhibiting deformation at non-cortical midline structures... deleting segment 0 with 24 points - only 0.00% unknown deleting segment 1 with 91 points - only 0.00% unknown deleting segment 2 with 6 points - only 0.00% unknown deleting segment 5 with 5 points - only 0.00% unknown deleting segment 6 with 851 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 7 with 3 points - only 0.00% unknown deleting segment 8 with 6 points - only 0.00% unknown mean border=74.5, 334 (333) missing vertices, mean dist 0.3 [0.9 (%15.0)->0.6 (%85.0))] %67 local maxima, %30 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, 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 0.91 +- 0.29 (0.04-->6.06) (max @ vno 36471 --> 56935) face area 0.33 +- 0.18 (0.00-->8.83) mean absolute distance = 0.37 +- 0.60 4552 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=2956386.5, rms=7.803 001: dt: 0.5000, sse=1678541.6, rms=4.876 (37.507%) 002: dt: 0.5000, sse=1445057.4, rms=4.159 (14.714%) rms = 4.17, time step reduction 1 of 3 to 0.250... 003: dt: 0.2500, sse=1231101.2, rms=3.308 (20.463%) 004: dt: 0.2500, sse=1169655.4, rms=2.912 (11.976%) 005: dt: 0.2500, sse=1125942.5, rms=2.712 (6.871%) 006: dt: 0.2500, sse=1120952.5, rms=2.636 (2.777%) 007: dt: 0.2500, sse=1103432.9, rms=2.579 (2.176%) rms = 2.54, time step reduction 2 of 3 to 0.125... 008: dt: 0.2500, sse=1088773.6, rms=2.543 (1.383%) 009: dt: 0.1250, sse=1081356.0, rms=2.453 (3.560%) rms = 2.44, time step reduction 3 of 3 to 0.062... 010: dt: 0.1250, sse=1077140.4, rms=2.437 (0.649%) positioning took 1.5 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 23 points - only 0.00% unknown deleting segment 1 with 84 points - only 0.00% unknown deleting segment 2 with 11 points - only 0.00% unknown removing 3 vertex label from ripped group removing 3 vertex label from ripped group deleting segment 4 with 3 points - only 0.00% unknown deleting segment 5 with 201 points - only 0.00% unknown deleting segment 6 with 5 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 7 with 2 points - only 0.00% unknown deleting segment 8 with 5 points - only 0.00% unknown deleting segment 9 with 27 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 10 with 4 points - only 0.00% unknown deleting segment 11 with 6 points - only 0.00% unknown deleting segment 12 with 5 points - only 0.00% unknown mean border=78.1, 315 (97) missing vertices, mean dist -0.2 [0.4 (%71.5)->0.3 (%28.5))] %79 local maxima, %18 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.500 vertex spacing 0.90 +- 0.29 (0.06-->6.01) (max @ vno 36471 --> 56935) face area 0.35 +- 0.19 (0.00-->9.39) mean absolute distance = 0.27 +- 0.42 4837 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1670372.6, rms=4.729 011: dt: 0.5000, sse=1319476.6, rms=3.484 (26.330%) rms = 3.80, time step reduction 1 of 3 to 0.250... 012: dt: 0.2500, sse=1134146.4, rms=2.610 (25.070%) 013: dt: 0.2500, sse=1078487.4, rms=2.203 (15.622%) 014: dt: 0.2500, sse=1049395.9, rms=2.064 (6.294%) rms = 2.04, time step reduction 2 of 3 to 0.125... 015: dt: 0.2500, sse=1060412.9, rms=2.044 (0.979%) 016: dt: 0.1250, sse=1034343.6, rms=1.937 (5.246%) rms = 1.93, time step reduction 3 of 3 to 0.062... 017: dt: 0.1250, sse=1039814.4, rms=1.930 (0.332%) positioning took 1.1 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 23 points - only 0.00% unknown deleting segment 1 with 84 points - only 0.00% unknown deleting segment 2 with 15 points - only 0.00% unknown removing 3 vertex label from ripped group removing 3 vertex label from ripped group deleting segment 4 with 3 points - only 0.00% unknown removing 2 vertex label from ripped group deleting segment 5 with 2 points - only 0.00% unknown deleting segment 6 with 251 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 7 with 1 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 8 with 4 points - only 0.00% unknown deleting segment 9 with 5 points - only 0.00% unknown deleting segment 10 with 24 points - only 0.00% unknown deleting segment 11 with 16 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 12 with 1 points - only 0.00% unknown deleting segment 13 with 5 points - only 0.00% unknown mean border=80.1, 385 (70) missing vertices, mean dist -0.1 [0.3 (%63.6)->0.2 (%36.4))] %85 local maxima, %11 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 smoothing T1 volume with sigma = 0.250 vertex spacing 0.89 +- 0.28 (0.06-->6.02) (max @ vno 36471 --> 56935) face area 0.34 +- 0.19 (0.00-->9.26) mean absolute distance = 0.25 +- 0.36 3953 vertices more than 2 sigmas from mean. averaging target values for 5 iterations... 000: dt: 0.0000, sse=1227175.6, rms=3.141 rms = 3.35, time step reduction 1 of 3 to 0.250... 018: dt: 0.2500, sse=1080331.8, rms=2.407 (23.390%) 019: dt: 0.2500, sse=1013980.6, rms=1.954 (18.795%) 020: dt: 0.2500, sse=1010983.6, rms=1.894 (3.087%) rms = 1.87, time step reduction 2 of 3 to 0.125... 021: dt: 0.2500, sse=1001831.4, rms=1.870 (1.242%) 022: dt: 0.1250, sse=993117.6, rms=1.761 (5.873%) rms = 1.76, time step reduction 3 of 3 to 0.062... 023: dt: 0.1250, sse=985587.2, rms=1.756 (0.247%) positioning took 0.9 minutes inhibiting deformation at non-cortical midline structures... deleting segment 0 with 24 points - only 0.00% unknown deleting segment 1 with 84 points - only 0.00% unknown deleting segment 2 with 19 points - only 0.00% unknown removing 3 vertex label from ripped group deleting segment 3 with 3 points - only 0.00% unknown deleting segment 4 with 291 points - only 0.00% unknown removing 4 vertex label from ripped group deleting segment 5 with 4 points - only 0.00% unknown deleting segment 6 with 5 points - only 0.00% unknown deleting segment 7 with 27 points - only 0.00% unknown deleting segment 8 with 26 points - only 0.00% unknown removing 1 vertex label from ripped group deleting segment 9 with 1 points - only 0.00% unknown deleting segment 10 with 5 points - only 0.00% unknown mean border=80.8, 493 (60) missing vertices, mean dist -0.0 [0.3 (%53.2)->0.2 (%46.8))] %87 local maxima, % 9 large gradients and % 0 min vals, 0 gradients ignored tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white... writing smoothed curvature to rh.curv 000: dt: 0.0000, sse=1008865.1, rms=1.984 rms = 2.27, time step reduction 1 of 3 to 0.250... 024: dt: 0.2500, sse=955329.9, rms=1.532 (22.783%) 025: dt: 0.2500, sse=951188.0, rms=1.332 (13.099%) rms = 1.33, time step reduction 2 of 3 to 0.125... 026: dt: 0.2500, sse=971612.4, rms=1.328 (0.255%) rms = 1.30, time step reduction 3 of 3 to 0.062... 027: dt: 0.1250, sse=928651.9, rms=1.302 (1.979%) positioning took 0.7 minutes generating cortex label... 16 non-cortical segments detected only using segment with 7657 vertices erasing segment 0 (vno[0] = 60028) erasing segment 2 (vno[0] = 75008) erasing segment 3 (vno[0] = 81824) erasing segment 4 (vno[0] = 114157) erasing segment 5 (vno[0] = 120465) erasing segment 6 (vno[0] = 123792) erasing segment 7 (vno[0] = 124853) erasing segment 8 (vno[0] = 124937) erasing segment 9 (vno[0] = 124948) erasing segment 10 (vno[0] = 126092) erasing segment 11 (vno[0] = 129404) erasing segment 12 (vno[0] = 130339) erasing segment 13 (vno[0] = 131308) erasing segment 14 (vno[0] = 134799) erasing segment 15 (vno[0] = 136515) writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label... writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.curv writing smoothed area to rh.area writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.area vertex spacing 0.89 +- 0.28 (0.02-->6.09) (max @ vno 36471 --> 56935) face area 0.34 +- 0.18 (0.00-->9.28) 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... removing 4 vertex label from ripped group deleting segment 0 with 4 points - only 0.00% unknown deleting segment 1 with 16 points - only 0.00% unknown deleting segment 3 with 11 points - only 0.00% unknown smoothing surface for 5 iterations... reading initial pial vertex positions from white.preaparc... mean border=49.7, 332 (332) missing vertices, mean dist 1.7 [2.4 (%0.0)->3.0 (%100.0))] %12 local maxima, %43 large gradients and %41 min vals, 412 gradients ignored perforing initial smooth deformation to move away from white surface tol=1.0e-04, sigma=2.0, host=tars-, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=35259072.0, rms=31.781 001: dt: 0.0500, sse=30849556.0, rms=29.674 (6.631%) 002: dt: 0.0500, sse=27678854.0, rms=28.060 (5.437%) 003: dt: 0.0500, sse=25262388.0, rms=26.765 (4.615%) 004: dt: 0.0500, sse=23330044.0, rms=25.683 (4.045%) 005: dt: 0.0500, sse=21730312.0, rms=24.751 (3.630%) 006: dt: 0.0500, sse=20371042.0, rms=23.930 (3.316%) 007: dt: 0.0500, sse=19189644.0, rms=23.193 (3.079%) 008: dt: 0.0500, sse=18149256.0, rms=22.524 (2.884%) 009: dt: 0.0500, sse=17221696.0, rms=21.910 (2.725%) 010: dt: 0.0500, sse=16388212.0, rms=21.344 (2.586%) positioning took 1.3 minutes mean border=49.5, 280 (173) missing vertices, mean dist 1.4 [0.2 (%0.1)->2.5 (%99.9))] %13 local maxima, %43 large gradients and %40 min vals, 432 gradients ignored tol=1.0e-04, sigma=2.0, host=tars-, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=17314748.0, rms=21.978 011: dt: 0.0500, sse=16553182.0, rms=21.463 (2.343%) 012: dt: 0.0500, sse=15860190.0, rms=20.983 (2.235%) 013: dt: 0.0500, sse=15227786.0, rms=20.536 (2.133%) 014: dt: 0.0500, sse=14648925.0, rms=20.117 (2.038%) 015: dt: 0.0500, sse=14118204.0, rms=19.726 (1.946%) 016: dt: 0.0500, sse=13630256.0, rms=19.358 (1.861%) 017: dt: 0.0500, sse=13181345.0, rms=19.014 (1.777%) 018: dt: 0.0500, sse=12767335.0, rms=18.691 (1.698%) 019: dt: 0.0500, sse=12384426.0, rms=18.388 (1.625%) 020: dt: 0.0500, sse=12029436.0, rms=18.101 (1.557%) positioning took 1.3 minutes mean border=49.4, 296 (120) missing vertices, mean dist 1.3 [0.1 (%1.5)->2.2 (%98.5))] %13 local maxima, %43 large gradients and %40 min vals, 397 gradients ignored tol=1.0e-04, sigma=2.0, host=tars-, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.05 000: dt: 0.0000, sse=12146508.0, rms=18.204 021: dt: 0.0500, sse=11810697.0, rms=17.930 (1.502%) 022: dt: 0.0500, sse=11498233.0, rms=17.672 (1.441%) 023: dt: 0.0500, sse=11205426.0, rms=17.426 (1.390%) 024: dt: 0.0500, sse=10931897.0, rms=17.194 (1.335%) 025: dt: 0.0500, sse=10675125.0, rms=16.972 (1.287%) 026: dt: 0.0500, sse=10432571.0, rms=16.760 (1.248%) 027: dt: 0.0500, sse=10201776.0, rms=16.556 (1.218%) 028: dt: 0.0500, sse=9980169.0, rms=16.358 (1.199%) 029: dt: 0.0500, sse=9767576.0, rms=16.165 (1.179%) 030: dt: 0.0500, sse=9562601.0, rms=15.977 (1.164%) positioning took 1.3 minutes mean border=49.4, 366 (102) missing vertices, mean dist 1.1 [0.1 (%7.0)->2.0 (%93.0))] %14 local maxima, %43 large gradients and %39 min vals, 355 gradients ignored tol=1.0e-04, sigma=2.0, host=tars-, nav=16, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, 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=9668821.0, rms=16.075 031: dt: 0.5000, sse=8154796.0, rms=14.624 (9.029%) 032: dt: 0.5000, sse=7055631.0, rms=13.465 (7.923%) 033: dt: 0.5000, sse=6164668.0, rms=12.448 (7.553%) 034: dt: 0.5000, sse=5429533.5, rms=11.536 (7.328%) 035: dt: 0.5000, sse=4824626.0, rms=10.729 (6.993%) 036: dt: 0.5000, sse=4300407.0, rms=9.975 (7.028%) 037: dt: 0.5000, sse=3849700.0, rms=9.282 (6.952%) 038: dt: 0.5000, sse=3469699.0, rms=8.652 (6.786%) 039: dt: 0.5000, sse=3155332.5, rms=8.095 (6.432%) 040: dt: 0.5000, sse=2901731.2, rms=7.616 (5.928%) 041: dt: 0.5000, sse=2721480.2, rms=7.257 (4.714%) 042: dt: 0.5000, sse=2591570.0, rms=6.985 (3.738%) 043: dt: 0.5000, sse=2512007.5, rms=6.813 (2.466%) 044: dt: 0.5000, sse=2437071.0, rms=6.646 (2.448%) 045: dt: 0.5000, sse=2394655.8, rms=6.550 (1.452%) 046: dt: 0.5000, sse=2347354.5, rms=6.441 (1.657%) rms = 6.40, time step reduction 1 of 3 to 0.250... 047: dt: 0.5000, sse=2329838.2, rms=6.399 (0.650%) 048: dt: 0.2500, sse=2152143.5, rms=5.937 (7.232%) 049: dt: 0.2500, sse=2092282.5, rms=5.786 (2.533%) rms = 5.78, time step reduction 2 of 3 to 0.125... 050: dt: 0.2500, sse=2093112.4, rms=5.784 (0.040%) 051: dt: 0.1250, sse=2042206.9, rms=5.646 (2.385%) rms = 5.62, time step reduction 3 of 3 to 0.062... 052: dt: 0.1250, sse=2032710.9, rms=5.621 (0.448%) positioning took 3.9 minutes mean border=48.3, 3517 (38) missing vertices, mean dist 0.2 [0.2 (%45.7)->0.7 (%54.3))] %26 local maxima, %32 large gradients and %36 min vals, 209 gradients ignored tol=1.0e-04, sigma=1.0, host=tars-, nav=8, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, 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=2386672.5, rms=5.757 rms = 5.75, time step reduction 1 of 3 to 0.250... 053: dt: 0.5000, sse=2374491.0, rms=5.747 (0.169%) 054: dt: 0.2500, sse=2129681.8, rms=5.047 (12.177%) 055: dt: 0.2500, sse=2069985.9, rms=4.873 (3.445%) rms = 4.86, time step reduction 2 of 3 to 0.125... 056: dt: 0.2500, sse=2064205.2, rms=4.856 (0.347%) 057: dt: 0.1250, sse=1991294.2, rms=4.618 (4.910%) 058: dt: 0.1250, sse=1974917.2, rms=4.566 (1.120%) rms = 4.55, time step reduction 3 of 3 to 0.062... 059: dt: 0.1250, sse=1968548.0, rms=4.546 (0.442%) positioning took 1.5 minutes mean border=47.6, 3778 (33) missing vertices, mean dist 0.1 [0.2 (%46.8)->0.5 (%53.2))] %39 local maxima, %20 large gradients and %36 min vals, 214 gradients ignored tol=1.0e-04, sigma=0.5, host=tars-, nav=4, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, 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=2039115.6, rms=4.739 rms = 5.22, time step reduction 1 of 3 to 0.250... 060: dt: 0.2500, sse=1990370.2, rms=4.581 (3.332%) rms = 4.55, time step reduction 2 of 3 to 0.125... 061: dt: 0.2500, sse=1978396.5, rms=4.550 (0.669%) 062: dt: 0.1250, sse=1953654.2, rms=4.464 (1.880%) rms = 4.42, time step reduction 3 of 3 to 0.062... 063: dt: 0.1250, sse=1940411.8, rms=4.424 (0.901%) positioning took 1.1 minutes mean border=47.0, 7464 (32) missing vertices, mean dist 0.1 [0.2 (%47.6)->0.4 (%52.4))] %41 local maxima, %17 large gradients and %34 min vals, 225 gradients ignored tol=1.0e-04, sigma=0.2, host=tars-, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000 mom=0.00, dt=0.50 writing pial surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial... writing smoothed curvature to rh.curv.pial 000: dt: 0.0000, sse=1971041.8, rms=4.509 rms = 4.86, time step reduction 1 of 3 to 0.250... 064: dt: 0.2500, sse=1938642.8, rms=4.403 (2.356%) 065: dt: 0.2500, sse=1909194.6, rms=4.327 (1.725%) rms = 4.31, time step reduction 2 of 3 to 0.125... 066: dt: 0.2500, sse=1900609.4, rms=4.310 (0.394%) 067: dt: 0.1250, sse=1856591.0, rms=4.152 (3.654%) rms = 4.11, time step reduction 3 of 3 to 0.062... 068: dt: 0.1250, sse=1843206.6, rms=4.109 (1.033%) positioning took 1.3 minutes writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.curv.pial writing smoothed area to rh.area.pial writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.area.pial vertex spacing 1.03 +- 0.50 (0.05-->7.76) (max @ vno 128494 --> 174907) face area 0.42 +- 0.38 (0.00-->13.11) measuring cortical thickness... writing cortical thickness estimate to 'thickness' file. 0 of 176561 vertices processed 25000 of 176561 vertices processed 50000 of 176561 vertices processed 75000 of 176561 vertices processed 100000 of 176561 vertices processed 125000 of 176561 vertices processed 150000 of 176561 vertices processed 175000 of 176561 vertices processed 0 of 176561 vertices processed 25000 of 176561 vertices processed 50000 of 176561 vertices processed 75000 of 176561 vertices processed 100000 of 176561 vertices processed 125000 of 176561 vertices processed 150000 of 176561 vertices processed 175000 of 176561 vertices processed thickness calculation complete, 381:1683 truncations. 29700 vertices at 0 distance 104822 vertices at 1 distance 114774 vertices at 2 distance 60185 vertices at 3 distance 21161 vertices at 4 distance 6673 vertices at 5 distance 2175 vertices at 6 distance 748 vertices at 7 distance 291 vertices at 8 distance 167 vertices at 9 distance 123 vertices at 10 distance 75 vertices at 11 distance 51 vertices at 12 distance 37 vertices at 13 distance 47 vertices at 14 distance 34 vertices at 15 distance 23 vertices at 16 distance 33 vertices at 17 distance 19 vertices at 18 distance 36 vertices at 19 distance 30 vertices at 20 distance writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.thickness positioning took 20.9 minutes PIDs (16586 16589) completed and logs appended. #-------------------------------------------- #@# Surf Volume lh Sun Oct 8 10:40:12 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf mris_calc -o lh.area.mid lh.area add lh.area.pial Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_calc -o lh.area.mid lh.area.mid div 2 Saving result to 'lh.area.mid' (type = MRI_CURV_FILE) [ ok ] mris_convert --volume 0050184 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.volume masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label Total face volume 363569 Total vertex volume 359012 (mask=0) #@# 0050184 lh 359012 vertexvol Done #-------------------------------------------- #@# Surf Volume rh Sun Oct 8 10:40:16 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.volume masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label Total face volume 345861 Total vertex volume 341473 (mask=0) #@# 0050184 rh 341473 vertexvol Done #-------------------------------------------- #@# Cortical ribbon mask Sun Oct 8 10:40:21 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mris_volmask --aseg_name aseg.presurf --label_left_white 2 --label_left_ribbon 3 --label_right_white 41 --label_right_ribbon 42 --save_ribbon 0050184 SUBJECTS_DIR is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 loading input data... computing distance to left white surface computing distance to left pial surface computing distance to right white surface computing distance to right pial surface hemi masks overlap voxels = 81 writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/ribbon.mgz mris_volmask took 30.85 minutes writing ribbon files #----------------------------------------- #@# Parcellation Stats lh Sun Oct 8 11:11:12 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 0050184 lh white mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 0050184 lh pial #----------------------------------------- #@# Parcellation Stats rh Sun Oct 8 11:11:12 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 rh white 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 0050184 rh pial Waiting for PID 18508 of (18508 18511 18514 18518) to complete... Waiting for PID 18511 of (18508 18511 18514 18518) to complete... Waiting for PID 18514 of (18508 18511 18514 18518) to complete... Waiting for PID 18518 of (18508 18511 18514 18518) to complete... mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 0050184 lh white computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white... reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial... reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 363569 Total vertex volume 359012 (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) = 1936761 mm^3 (det: 1.005857 ) lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 1572 1129 2906 2.679 0.376 0.102 0.018 9 1.2 bankssts 1354 899 2529 2.578 0.734 0.119 0.023 17 1.4 caudalanteriorcingulate 4398 2911 9074 2.793 0.518 0.122 0.038 53 5.6 caudalmiddlefrontal 3161 2046 5348 2.298 0.599 0.151 0.044 62 5.5 cuneus 755 511 2634 3.465 0.712 0.138 0.051 12 1.6 entorhinal 6018 4094 13549 2.811 0.674 0.123 0.034 81 8.8 fusiform 9772 6467 19276 2.687 0.558 0.130 0.036 138 13.5 inferiorparietal 6603 4607 17469 3.022 0.744 0.143 0.045 104 12.2 inferiortemporal 1800 1146 3094 2.370 0.858 0.118 0.037 25 2.2 isthmuscingulate 11605 7247 18305 2.265 0.579 0.139 0.046 188 20.8 lateraloccipital 5394 3592 11546 2.894 0.735 0.137 0.044 86 9.4 lateralorbitofrontal 5482 4071 11270 2.456 0.676 0.149 0.039 77 8.8 lingual 4023 2834 9299 2.919 0.712 0.126 0.034 67 5.1 medialorbitofrontal 6500 4548 17463 2.933 0.744 0.140 0.047 129 12.1 middletemporal 1188 829 2642 2.750 0.622 0.091 0.019 7 0.9 parahippocampal 3307 1993 5091 2.451 0.598 0.121 0.039 45 5.1 paracentral 3344 2272 7679 2.939 0.560 0.126 0.036 43 4.9 parsopercularis 1392 897 3585 2.962 0.787 0.132 0.042 19 2.2 parsorbitalis 2364 1569 5009 2.762 0.572 0.136 0.036 36 3.1 parstriangularis 2749 2004 3890 2.034 0.523 0.150 0.041 37 4.7 pericalcarine 10925 6679 17318 2.262 0.697 0.137 0.052 192 23.9 postcentral 2621 1824 5587 2.765 0.788 0.154 0.041 49 4.3 posteriorcingulate 10323 6317 19264 2.675 0.631 0.123 0.048 166 20.4 precentral 7482 5147 14303 2.586 0.526 0.130 0.034 101 10.4 precuneus 2000 1382 4864 2.934 0.757 0.137 0.046 35 4.3 rostralanteriorcingulate 10580 7269 22647 2.589 0.646 0.142 0.042 183 17.7 rostralmiddlefrontal 15883 10685 36650 2.893 0.625 0.127 0.037 204 22.4 superiorfrontal 10503 6662 18598 2.414 0.549 0.131 0.036 145 14.8 superiorparietal 6413 4498 14633 2.806 0.649 0.124 0.033 74 8.6 superiortemporal 9268 6284 19137 2.740 0.554 0.135 0.038 136 13.1 supramarginal 482 315 1307 2.874 0.462 0.162 0.052 13 0.8 frontalpole 725 518 2857 3.436 0.751 0.149 0.056 13 1.4 temporalpole 754 476 1380 2.477 0.512 0.134 0.030 10 0.9 transversetemporal 4083 2774 8799 3.271 0.750 0.122 0.033 40 5.5 insula mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 0050184 lh pial computing statistics for each annotation in ../label/lh.aparc.annot. reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial... reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial... reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 363569 Total vertex volume 359012 (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) = 1936761 mm^3 (det: 1.005857 ) lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 1572 1056 2906 2.679 0.376 0.139 0.038 30 2.4 bankssts 1354 1071 2529 2.578 0.734 0.165 0.045 47 2.6 caudalanteriorcingulate 4398 3432 9074 2.793 0.518 0.137 0.034 66 6.5 caudalmiddlefrontal 3161 2630 5348 2.298 0.599 0.155 0.036 47 5.2 cuneus 755 998 2634 3.465 0.712 0.203 0.040 12 1.5 entorhinal 6018 5502 13549 2.811 0.674 0.175 0.045 119 12.8 fusiform 9772 7839 19276 2.687 0.558 0.150 0.039 173 17.1 inferiorparietal 6603 6599 17469 3.022 0.744 0.184 0.050 143 15.0 inferiortemporal 1800 1446 3094 2.370 0.858 0.159 0.044 38 3.2 isthmuscingulate 11605 8829 18305 2.265 0.579 0.138 0.035 175 18.1 lateraloccipital 5394 4251 11546 2.894 0.735 0.150 0.041 103 9.5 lateralorbitofrontal 5482 5192 11270 2.456 0.676 0.172 0.043 90 10.9 lingual 4023 3521 9299 2.919 0.712 0.162 0.039 65 7.0 medialorbitofrontal 6500 6989 17463 2.933 0.744 0.187 0.046 129 13.5 middletemporal 1188 1133 2642 2.750 0.622 0.157 0.037 12 2.1 parahippocampal 3307 2211 5091 2.451 0.598 0.124 0.051 53 8.9 paracentral 3344 2944 7679 2.939 0.560 0.159 0.038 55 6.0 parsopercularis 1392 1367 3585 2.962 0.787 0.161 0.040 23 2.4 parsorbitalis 2364 1985 5009 2.762 0.572 0.158 0.040 38 4.0 parstriangularis 2749 1843 3890 2.034 0.523 0.142 0.037 53 4.7 pericalcarine 10925 8270 17318 2.262 0.697 0.138 0.039 157 19.2 postcentral 2621 2137 5587 2.765 0.788 0.157 0.043 41 4.9 posteriorcingulate 10323 7563 19264 2.675 0.631 0.126 0.041 170 17.6 precentral 7482 5774 14303 2.586 0.526 0.147 0.040 128 12.5 precuneus 2000 1951 4864 2.934 0.757 0.177 0.044 32 3.8 rostralanteriorcingulate 10580 9756 22647 2.589 0.646 0.173 0.044 175 21.5 rostralmiddlefrontal 15883 13732 36650 2.893 0.625 0.153 0.039 252 28.3 superiorfrontal 10503 8288 18598 2.414 0.549 0.142 0.034 150 15.8 superiorparietal 6413 5689 14633 2.806 0.649 0.156 0.038 100 11.2 superiortemporal 9268 7542 19137 2.740 0.554 0.150 0.041 151 15.7 supramarginal 482 557 1307 2.874 0.462 0.198 0.033 7 0.7 frontalpole 725 1095 2857 3.436 0.751 0.249 0.054 14 2.0 temporalpole 754 674 1380 2.477 0.512 0.152 0.033 14 1.1 transversetemporal 4083 2465 8799 3.271 0.750 0.127 0.038 78 6.3 insula 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 0050184 rh white computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white... reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial... reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 345861 Total vertex volume 341473 (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) = 1936761 mm^3 (det: 1.005857 ) lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 1017 712 1895 2.700 0.414 0.104 0.023 5 1.1 bankssts 1176 764 2247 2.540 0.670 0.118 0.033 15 1.5 caudalanteriorcingulate 4254 2847 8358 2.470 0.630 0.140 0.056 79 10.0 caudalmiddlefrontal 2562 1703 4053 2.177 0.572 0.157 0.045 43 4.8 cuneus 569 371 1614 2.885 0.908 0.146 0.058 9 1.6 entorhinal 5402 3771 12225 2.779 0.665 0.140 0.043 87 9.6 fusiform 10857 7291 23663 2.786 0.573 0.137 0.038 183 16.9 inferiorparietal 4540 3107 9032 2.491 0.662 0.139 0.048 73 9.2 inferiortemporal 1718 1147 3234 2.366 0.994 0.123 0.037 25 2.2 isthmuscingulate 10511 6757 18989 2.452 0.641 0.143 0.042 195 18.0 lateraloccipital 5100 3463 11507 2.783 0.744 0.145 0.054 96 11.8 lateralorbitofrontal 6688 4634 11752 2.316 0.697 0.159 0.055 116 14.7 lingual 3523 2466 7697 2.600 0.750 0.127 0.038 60 6.0 medialorbitofrontal 4936 3418 12857 2.815 0.744 0.142 0.050 106 10.9 middletemporal 951 691 2205 2.745 0.633 0.120 0.037 11 1.4 parahippocampal 3604 2288 6363 2.577 0.512 0.122 0.035 39 5.2 paracentral 2571 1727 5793 2.767 0.696 0.132 0.047 37 4.8 parsopercularis 1348 957 3798 2.676 0.739 0.161 0.056 33 3.1 parsorbitalis 2775 1947 5953 2.464 0.595 0.139 0.042 44 4.9 parstriangularis 2748 1894 3588 2.044 0.504 0.142 0.040 37 4.7 pericalcarine 10533 6592 16737 2.215 0.649 0.144 0.064 221 29.4 postcentral 2144 1493 4567 2.662 0.805 0.130 0.031 30 2.7 posteriorcingulate 11308 7270 20508 2.484 0.627 0.134 0.053 167 24.4 precentral 8368 5673 15912 2.677 0.495 0.127 0.032 106 10.7 precuneus 1246 796 2845 3.048 0.902 0.149 0.060 29 3.1 rostralanteriorcingulate 11290 7739 24175 2.464 0.689 0.152 0.053 246 25.9 rostralmiddlefrontal 15065 10357 36292 2.855 0.682 0.140 0.049 241 29.9 superiorfrontal 11312 7277 20266 2.476 0.496 0.127 0.033 155 13.8 superiorparietal 6429 4461 13986 2.664 0.658 0.140 0.042 105 11.0 superiortemporal 8456 5592 16813 2.675 0.565 0.136 0.044 129 14.6 supramarginal 569 373 1537 2.785 0.557 0.171 0.057 15 1.1 frontalpole 448 343 907 2.060 0.778 0.165 0.057 9 1.0 temporalpole 653 449 1125 2.290 0.448 0.150 0.046 9 1.0 transversetemporal 3478 2446 8330 3.201 0.819 0.141 0.052 58 7.6 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 0050184 rh pial computing statistics for each annotation in ../label/rh.aparc.annot. reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial... reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial... reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 345861 Total vertex volume 341473 (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) = 1936761 mm^3 (det: 1.005857 ) lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 1017 695 1895 2.700 0.414 0.138 0.042 14 1.9 bankssts 1176 954 2247 2.540 0.670 0.182 0.065 28 2.8 caudalanteriorcingulate 4254 3700 8358 2.470 0.630 0.171 0.053 78 10.1 caudalmiddlefrontal 2562 2071 4053 2.177 0.572 0.142 0.034 32 3.8 cuneus 569 709 1614 2.885 0.908 0.215 0.055 7 1.6 entorhinal 5402 4996 12225 2.779 0.665 0.176 0.048 102 11.6 fusiform 10857 9377 23663 2.786 0.573 0.159 0.042 319 20.4 inferiorparietal 4540 4171 9032 2.491 0.662 0.181 0.051 103 10.7 inferiortemporal 1718 1508 3234 2.366 0.994 0.169 0.048 42 3.6 isthmuscingulate 10511 8513 18989 2.452 0.641 0.144 0.036 176 17.1 lateraloccipital 5100 4619 11507 2.783 0.744 0.181 0.055 101 13.0 lateralorbitofrontal 6688 5392 11752 2.316 0.697 0.153 0.046 109 12.9 lingual 3523 3330 7697 2.600 0.750 0.172 0.046 61 7.4 medialorbitofrontal 4936 5424 12857 2.815 0.744 0.201 0.057 113 14.2 middletemporal 951 871 2205 2.745 0.633 0.179 0.046 17 2.1 parahippocampal 3604 2584 6363 2.577 0.512 0.131 0.034 51 5.5 paracentral 2571 2315 5793 2.767 0.696 0.173 0.050 44 5.5 parsopercularis 1348 1750 3798 2.676 0.739 0.213 0.048 21 3.1 parsorbitalis 2775 2743 5953 2.464 0.595 0.190 0.048 50 6.0 parstriangularis 2748 1671 3588 2.044 0.504 0.119 0.033 47 3.6 pericalcarine 10533 7987 16737 2.215 0.649 0.143 0.047 204 20.0 postcentral 2144 1833 4567 2.662 0.805 0.166 0.045 47 4.3 posteriorcingulate 11308 8577 20508 2.484 0.627 0.141 0.042 217 21.2 precentral 8368 6124 15912 2.677 0.495 0.138 0.038 149 13.9 precuneus 1246 1158 2845 3.048 0.902 0.219 0.075 60 4.8 rostralanteriorcingulate 11290 11315 24175 2.464 0.689 0.201 0.057 225 30.7 rostralmiddlefrontal 15065 14114 36292 2.855 0.682 0.179 0.052 320 34.2 superiorfrontal 11312 8993 20266 2.476 0.496 0.140 0.034 174 16.4 superiorparietal 6429 5951 13986 2.664 0.658 0.173 0.046 118 13.1 superiortemporal 8456 6891 16813 2.675 0.565 0.158 0.045 148 16.5 supramarginal 569 689 1537 2.785 0.557 0.227 0.051 11 1.3 frontalpole 448 544 907 2.060 0.778 0.242 0.088 15 1.5 temporalpole 653 502 1125 2.290 0.448 0.148 0.039 12 1.1 transversetemporal 3478 2478 8330 3.201 0.819 0.165 0.049 79 7.8 insula PIDs (18508 18511 18514 18518) completed and logs appended. #----------------------------------------- #@# Cortical Parc 2 lh Sun Oct 8 11:13:25 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot #----------------------------------------- #@# Cortical Parc 2 rh Sun Oct 8 11:13:25 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 rh ../surf/rh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/rh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.a2009s.annot Waiting for PID 18743 of (18743 18746) to complete... Waiting for PID 18746 of (18743 18746) to complete... mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading atlas from /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 2.9 using min determinant for regularization = 0.086 0 singular and 762 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 65 labels changed using aseg relabeling using gibbs priors... 000: 12137 changed, 183509 examined... 001: 2780 changed, 46863 examined... 002: 810 changed, 14488 examined... 003: 345 changed, 4588 examined... 004: 174 changed, 1990 examined... 005: 92 changed, 964 examined... 006: 55 changed, 504 examined... 007: 21 changed, 278 examined... 008: 15 changed, 111 examined... 009: 4 changed, 81 examined... 010: 3 changed, 28 examined... 011: 2 changed, 21 examined... 012: 1 changed, 16 examined... 013: 0 changed, 7 examined... 0 labels changed using aseg 000: 371 total segments, 283 labels (3620 vertices) changed 001: 107 total segments, 21 labels (56 vertices) changed 002: 86 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 44 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1508 vertices marked for relabeling... 1508 labels changed in reclassification. writing output to ../label/lh.aparc.a2009s.annot... classification took 0 minutes and 27 seconds. mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 rh ../surf/rh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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... 2 labels changed using aseg relabeling using gibbs priors... 000: 11659 changed, 176561 examined... 001: 2814 changed, 45230 examined... 002: 818 changed, 14578 examined... 003: 357 changed, 4676 examined... 004: 160 changed, 1958 examined... 005: 84 changed, 926 examined... 006: 42 changed, 457 examined... 007: 20 changed, 223 examined... 008: 12 changed, 103 examined... 009: 9 changed, 76 examined... 010: 5 changed, 48 examined... 011: 0 changed, 20 examined... 0 labels changed using aseg 000: 346 total segments, 255 labels (4179 vertices) changed 001: 105 total segments, 16 labels (55 vertices) changed 002: 89 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 25 changed) rationalizing unknown annotations with cortex label relabeling Medial_wall label... 1656 vertices marked for relabeling... 1656 labels changed in reclassification. writing output to ../label/rh.aparc.a2009s.annot... classification took 0 minutes and 27 seconds. PIDs (18743 18746) completed and logs appended. #----------------------------------------- #@# Parcellation Stats 2 lh Sun Oct 8 11:13:52 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.a2009s.stats -b -a ../label/lh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab 0050184 lh white #----------------------------------------- #@# Parcellation Stats 2 rh Sun Oct 8 11:13:52 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 rh white Waiting for PID 18797 of (18797 18800) to complete... Waiting for PID 18800 of (18797 18800) to complete... mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.a2009s.stats -b -a ../label/lh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab 0050184 lh white computing statistics for each annotation in ../label/lh.aparc.a2009s.annot. reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white... reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial... reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 363569 Total vertex volume 359012 (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) = 1936761 mm^3 (det: 1.005857 ) lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 1406 967 2970 2.605 0.560 0.132 0.034 19 2.0 G&S_frontomargin 1763 1178 3606 2.543 0.511 0.138 0.036 27 2.6 G&S_occipital_inf 2625 1452 3470 2.126 0.605 0.131 0.053 47 6.0 G&S_paracentral 2713 1829 6369 2.896 0.634 0.146 0.044 41 4.6 G&S_subcentral 1238 871 3186 2.698 0.571 0.166 0.055 29 2.6 G&S_transv_frontopol 3341 2294 7164 2.835 0.604 0.122 0.036 41 5.4 G&S_cingul-Ant 1819 1295 3729 2.789 0.554 0.110 0.023 14 1.8 G&S_cingul-Mid-Ant 2164 1481 4619 2.931 0.560 0.142 0.037 33 3.1 G&S_cingul-Mid-Post 846 572 2269 3.063 0.646 0.167 0.056 19 1.8 G_cingul-Post-dorsal 305 200 799 2.716 0.852 0.143 0.071 8 0.6 G_cingul-Post-ventral 2860 1829 4963 2.203 0.566 0.151 0.048 60 5.1 G_cuneus 2218 1463 6086 3.143 0.528 0.133 0.042 37 3.8 G_front_inf-Opercular 744 461 2111 3.186 0.501 0.152 0.054 16 1.6 G_front_inf-Orbital 1330 885 3370 2.962 0.489 0.161 0.051 31 2.6 G_front_inf-Triangul 5675 3738 14117 2.798 0.663 0.148 0.052 123 10.8 G_front_middle 10954 7226 28091 3.001 0.634 0.137 0.044 182 17.6 G_front_sup 787 538 1936 3.398 0.730 0.140 0.047 13 1.4 G_Ins_lg&S_cent_ins 877 556 2648 3.699 0.692 0.126 0.040 13 1.3 G_insular_short 3994 2411 8333 2.628 0.653 0.147 0.051 86 7.2 G_occipital_middle 1968 1257 3311 2.257 0.687 0.133 0.035 30 2.6 G_occipital_sup 2656 1771 7318 3.110 0.685 0.137 0.041 49 4.3 G_oc-temp_lat-fusifor 3751 2715 8650 2.534 0.752 0.166 0.048 69 7.5 G_oc-temp_med-Lingual 1400 948 4179 3.158 0.734 0.118 0.037 16 2.2 G_oc-temp_med-Parahip 3283 2129 8777 2.931 0.804 0.143 0.054 66 6.7 G_orbital 3868 2576 9044 2.715 0.618 0.148 0.048 80 6.9 G_pariet_inf-Angular 4710 3167 11963 2.928 0.575 0.146 0.044 86 7.7 G_pariet_inf-Supramar 4049 2480 8715 2.545 0.610 0.138 0.045 75 7.1 G_parietal_sup 4516 2460 6888 2.232 0.662 0.154 0.074 120 14.9 G_postcentral 3734 2051 8028 2.794 0.705 0.137 0.075 108 11.5 G_precentral 3838 2529 8345 2.639 0.508 0.137 0.040 74 6.2 G_precuneus 1358 991 3940 3.034 0.679 0.159 0.048 39 2.3 G_rectus 914 648 2286 3.377 0.974 0.122 0.042 12 1.3 G_subcallosal 598 369 1384 2.626 0.561 0.142 0.037 10 1.0 G_temp_sup-G_T_transv 2275 1573 6705 2.987 0.644 0.143 0.043 38 3.9 G_temp_sup-Lateral 678 496 1918 3.535 0.638 0.122 0.041 6 1.0 G_temp_sup-Plan_polar 1206 863 2683 2.805 0.647 0.103 0.025 11 1.1 G_temp_sup-Plan_tempo 3334 2369 10769 3.264 0.724 0.155 0.054 70 7.5 G_temporal_inf 3618 2550 12253 3.160 0.720 0.154 0.058 85 7.9 G_temporal_middle 438 298 679 2.539 0.655 0.114 0.020 3 0.4 Lat_Fis-ant-Horizont 368 258 576 2.623 0.471 0.122 0.031 2 0.5 Lat_Fis-ant-Vertical 1368 929 1907 2.593 0.474 0.118 0.025 10 1.4 Lat_Fis-post 3261 1862 3981 1.987 0.561 0.144 0.060 59 8.1 Pole_occipital 1798 1263 6720 3.320 0.878 0.153 0.058 35 4.2 Pole_temporal 3260 2571 5260 2.214 0.612 0.149 0.037 41 5.3 S_calcarine 4438 2928 5377 2.066 0.565 0.115 0.033 35 5.9 S_central 1344 930 2076 2.513 0.561 0.128 0.034 12 1.8 S_cingul-Marginalis 632 430 1104 2.979 0.548 0.108 0.027 4 0.7 S_circular_insula_ant 1398 982 2361 2.946 0.808 0.106 0.023 8 1.3 S_circular_insula_inf 2227 1510 3560 2.931 0.460 0.107 0.023 11 2.2 S_circular_insula_sup 1104 781 2214 2.877 0.580 0.117 0.028 9 1.4 S_collat_transv_ant 624 428 746 2.112 0.328 0.144 0.040 8 0.9 S_collat_transv_post 2582 1798 4125 2.414 0.484 0.116 0.028 21 2.7 S_front_inf 2111 1482 3724 2.346 0.574 0.130 0.031 22 2.8 S_front_middle 4209 2893 7871 2.709 0.521 0.115 0.029 38 4.9 S_front_sup 708 486 1031 2.458 0.401 0.108 0.022 4 0.7 S_interm_prim-Jensen 4219 2804 6131 2.359 0.398 0.124 0.029 39 5.0 S_intrapariet&P_trans 2136 1418 2791 2.195 0.394 0.119 0.029 17 2.5 S_oc_middle&Lunatus 1931 1275 2757 2.400 0.355 0.122 0.027 17 2.1 S_oc_sup&transversal 1029 716 1696 2.346 0.488 0.129 0.031 13 1.2 S_occipital_ant 1433 967 2301 2.583 0.509 0.105 0.023 9 1.4 S_oc-temp_lat 2964 2108 4870 2.433 0.404 0.103 0.020 16 2.6 S_oc-temp_med&Lingual 481 315 718 2.337 0.493 0.123 0.023 5 0.4 S_orbital_lateral 988 691 1381 2.491 0.518 0.107 0.019 6 0.8 S_orbital_med-olfact 1978 1353 3956 2.921 0.749 0.139 0.037 28 3.0 S_orbital-H_Shaped 2991 2014 4970 2.611 0.515 0.122 0.028 28 3.5 S_parieto_occipital 2123 1320 2298 1.973 0.753 0.109 0.020 24 1.6 S_pericallosal 4741 3146 7135 2.401 0.525 0.125 0.031 48 5.5 S_postcentral 2145 1445 3706 2.692 0.413 0.097 0.020 11 1.7 S_precentral-inf-part 1900 1256 2819 2.626 0.438 0.092 0.017 8 1.3 S_precentral-sup-part 1041 711 2121 2.785 0.597 0.113 0.027 13 1.1 S_suborbital 1086 752 1680 2.462 0.514 0.119 0.027 7 1.2 S_subparietal 2477 1704 3820 2.571 0.556 0.127 0.031 34 3.3 S_temporal_inf 7367 5124 12883 2.615 0.496 0.114 0.026 66 8.4 S_temporal_sup 513 355 677 2.374 0.413 0.110 0.018 3 0.4 S_temporal_transverse 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 0050184 rh white computing statistics for each annotation in ../label/rh.aparc.a2009s.annot. reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white... reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial... reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 345861 Total vertex volume 341473 (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) = 1936761 mm^3 (det: 1.005857 ) lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 1191 822 2396 2.433 0.697 0.159 0.062 25 3.8 G&S_frontomargin 1829 1263 4147 2.692 0.517 0.150 0.048 32 3.3 G&S_occipital_inf 2400 1352 4047 2.502 0.612 0.134 0.055 39 5.7 G&S_paracentral 2861 1858 5532 2.600 0.654 0.144 0.060 58 7.6 G&S_subcentral 1475 1012 3838 2.735 0.702 0.159 0.052 37 3.5 G&S_transv_frontopol 3937 2665 8163 2.657 0.634 0.133 0.048 67 7.4 G&S_cingul-Ant 2163 1501 4495 2.783 0.587 0.117 0.034 21 2.9 G&S_cingul-Mid-Ant 1831 1293 4112 2.930 0.564 0.126 0.032 20 2.5 G&S_cingul-Mid-Post 678 464 1886 2.976 0.875 0.160 0.048 15 1.2 G_cingul-Post-dorsal 331 237 909 2.645 0.813 0.153 0.045 6 0.5 G_cingul-Post-ventral 2579 1712 4185 2.112 0.589 0.158 0.046 44 4.9 G_cuneus 1899 1320 5530 2.948 0.687 0.161 0.065 44 4.9 G_front_inf-Opercular 454 317 1428 2.916 0.652 0.146 0.043 8 0.9 G_front_inf-Orbital 1274 856 3321 2.721 0.538 0.162 0.060 33 3.0 G_front_inf-Triangul 5362 3571 14827 2.741 0.672 0.176 0.074 163 16.4 G_front_middle 9616 6535 26149 2.971 0.707 0.152 0.054 190 21.2 G_front_sup 728 514 2199 3.587 0.752 0.163 0.075 13 2.2 G_Ins_lg&S_cent_ins 713 507 2303 3.596 0.791 0.170 0.063 28 2.0 G_insular_short 3959 2611 10221 2.897 0.605 0.156 0.046 118 7.6 G_occipital_middle 2294 1336 4189 2.578 0.590 0.136 0.043 38 3.6 G_occipital_sup 2936 1999 8088 3.047 0.714 0.155 0.051 64 5.8 G_oc-temp_lat-fusifor 4238 2761 7939 2.312 0.745 0.167 0.064 91 10.4 G_oc-temp_med-Lingual 993 666 2803 2.951 0.782 0.140 0.059 18 2.5 G_oc-temp_med-Parahip 3114 2263 9515 2.862 0.735 0.167 0.065 85 8.4 G_orbital 3837 2531 10040 2.910 0.614 0.149 0.052 91 8.2 G_pariet_inf-Angular 3969 2633 9956 2.845 0.627 0.157 0.058 91 8.8 G_pariet_inf-Supramar 3734 2343 8008 2.580 0.532 0.138 0.039 69 5.2 G_parietal_sup 3881 2353 6733 2.207 0.656 0.172 0.090 124 15.5 G_postcentral 4364 2721 9831 2.675 0.679 0.147 0.072 88 12.6 G_precentral 3538 2346 7726 2.741 0.515 0.137 0.040 60 5.4 G_precuneus 1067 756 3083 2.804 0.575 0.159 0.047 31 2.2 G_rectus 650 454 1742 3.252 1.237 0.117 0.057 12 1.2 G_subcallosal 487 364 1157 2.449 0.504 0.160 0.047 9 0.9 G_temp_sup-G_T_transv 1973 1406 5824 2.923 0.626 0.163 0.056 51 4.3 G_temp_sup-Lateral 1337 959 2994 2.709 0.935 0.138 0.057 20 2.9 G_temp_sup-Plan_polar 1475 995 2937 2.719 0.490 0.114 0.027 13 1.6 G_temp_sup-Plan_tempo 2391 1622 6024 2.646 0.732 0.149 0.058 50 6.3 G_temporal_inf 2719 1886 8744 3.044 0.744 0.155 0.059 77 6.7 G_temporal_middle 490 337 613 2.082 0.333 0.099 0.018 2 0.4 Lat_Fis-ant-Horizont 407 281 668 2.382 0.571 0.111 0.027 2 0.5 Lat_Fis-ant-Vertical 1846 1241 2628 2.616 0.502 0.126 0.032 16 2.5 Lat_Fis-post 4324 2606 6084 2.098 0.691 0.144 0.045 71 8.3 Pole_occipital 1349 960 2953 2.284 0.861 0.176 0.082 30 5.2 Pole_temporal 3330 2518 5277 2.363 0.634 0.145 0.038 41 5.6 S_calcarine 4411 2843 4888 1.946 0.484 0.124 0.045 50 7.9 S_central 1640 1137 3057 2.518 0.533 0.109 0.029 15 1.9 S_cingul-Marginalis 650 452 1310 2.857 0.729 0.133 0.041 4 1.5 S_circular_insula_ant 1212 825 1863 2.553 0.772 0.100 0.024 7 1.2 S_circular_insula_inf 1696 1157 2743 2.667 0.639 0.111 0.031 10 2.3 S_circular_insula_sup 729 556 1506 2.476 0.583 0.123 0.028 7 0.7 S_collat_transv_ant 436 315 711 2.557 0.657 0.159 0.037 4 0.9 S_collat_transv_post 2728 1897 4102 2.210 0.531 0.123 0.036 40 4.6 S_front_inf 3148 2165 5409 2.262 0.605 0.136 0.040 50 5.1 S_front_middle 3713 2550 6047 2.409 0.517 0.126 0.041 36 6.8 S_front_sup 725 478 1089 2.370 0.365 0.104 0.024 5 0.7 S_interm_prim-Jensen 4373 2938 6375 2.321 0.386 0.111 0.023 35 4.0 S_intrapariet&P_trans 1671 1128 2230 2.373 0.352 0.126 0.027 15 1.9 S_oc_middle&Lunatus 2073 1425 3205 2.439 0.452 0.127 0.027 20 2.2 S_oc_sup&transversal 1109 732 1638 2.471 0.422 0.120 0.033 16 1.8 S_occipital_ant 1388 935 2015 2.398 0.401 0.118 0.030 13 1.6 S_oc-temp_lat 2872 2053 4425 2.409 0.434 0.124 0.028 24 3.3 S_oc-temp_med&Lingual 346 267 561 1.974 0.510 0.135 0.031 3 0.4 S_orbital_lateral 982 681 1525 2.502 0.569 0.107 0.021 7 0.8 S_orbital_med-olfact 1757 1171 3469 2.689 0.754 0.134 0.042 25 3.1 S_orbital-H_Shaped 3218 2196 5174 2.600 0.420 0.124 0.026 33 3.3 S_parieto_occipital 1994 1241 2094 2.037 0.911 0.105 0.023 20 1.5 S_pericallosal 4526 2941 6518 2.373 0.462 0.115 0.031 41 5.8 S_postcentral 2530 1678 3800 2.366 0.574 0.113 0.037 21 3.5 S_precentral-inf-part 2150 1428 3482 2.445 0.553 0.122 0.034 19 3.0 S_precentral-sup-part 495 344 674 2.310 0.414 0.095 0.014 3 0.3 S_suborbital 1550 1108 2771 2.622 0.486 0.114 0.025 13 1.6 S_subparietal 1326 912 1960 2.505 0.546 0.119 0.031 10 1.6 S_temporal_inf 6362 4342 11035 2.671 0.497 0.120 0.028 60 7.4 S_temporal_sup 467 309 553 2.364 0.459 0.116 0.024 3 0.4 S_temporal_transverse PIDs (18797 18800) completed and logs appended. #----------------------------------------- #@# Cortical Parc 3 lh Sun Oct 8 11:14:53 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot #----------------------------------------- #@# Cortical Parc 3 rh Sun Oct 8 11:14:53 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 rh ../surf/rh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/rh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/rh.aparc.DKTatlas.annot Waiting for PID 18868 of (18868 18871) to complete... Waiting for PID 18871 of (18868 18871) to complete... mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot setting seed for random number generator to 1234 using ../mri/aseg.presurf.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.37 2014/02/04 17:46:42 fischl Exp $ $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $ reading atlas from /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs... reading color table from GCSA file.... average std = 1.4 using min determinant for regularization = 0.020 0 singular and 383 ill-conditioned covariance matrices regularized input 0: MEAN CURVATURE, flags 0, avgs 5, name mean_curvature labeling surface... 1115 labels changed using aseg relabeling using gibbs priors... 000: 2509 changed, 183509 examined... 001: 591 changed, 11471 examined... 002: 159 changed, 3304 examined... 003: 56 changed, 909 examined... 004: 26 changed, 323 examined... 005: 16 changed, 164 examined... 006: 8 changed, 97 examined... 007: 3 changed, 53 examined... 008: 3 changed, 19 examined... 009: 3 changed, 20 examined... 010: 3 changed, 22 examined... 011: 2 changed, 22 examined... 012: 1 changed, 13 examined... 013: 0 changed, 7 examined... 197 labels changed using aseg 000: 64 total segments, 31 labels (441 vertices) changed 001: 33 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... 1097 vertices marked for relabeling... 1097 labels changed in reclassification. writing output to ../label/lh.aparc.DKTatlas.annot... classification took 0 minutes and 22 seconds. mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050184 rh ../surf/rh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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... 1138 labels changed using aseg relabeling using gibbs priors... 000: 2462 changed, 176561 examined... 001: 580 changed, 11240 examined... 002: 163 changed, 3224 examined... 003: 67 changed, 957 examined... 004: 33 changed, 408 examined... 005: 14 changed, 196 examined... 006: 4 changed, 84 examined... 007: 4 changed, 28 examined... 008: 5 changed, 24 examined... 009: 4 changed, 28 examined... 010: 6 changed, 20 examined... 011: 6 changed, 32 examined... 012: 5 changed, 30 examined... 013: 5 changed, 20 examined... 014: 1 changed, 27 examined... 015: 1 changed, 7 examined... 016: 1 changed, 7 examined... 017: 1 changed, 7 examined... 018: 3 changed, 6 examined... 019: 2 changed, 14 examined... 020: 3 changed, 12 examined... 021: 5 changed, 17 examined... 022: 4 changed, 21 examined... 023: 3 changed, 13 examined... 024: 2 changed, 12 examined... 025: 1 changed, 14 examined... 026: 0 changed, 7 examined... 120 labels changed using aseg 000: 92 total segments, 59 labels (568 vertices) changed 001: 33 total segments, 0 labels (0 vertices) changed 10 filter iterations complete (10 requested, 6 changed) rationalizing unknown annotations with cortex label relabeling unknown label... relabeling corpuscallosum label... 1429 vertices marked for relabeling... 1429 labels changed in reclassification. writing output to ../label/rh.aparc.DKTatlas.annot... classification took 0 minutes and 21 seconds. PIDs (18868 18871) completed and logs appended. #----------------------------------------- #@# Parcellation Stats 3 lh Sun Oct 8 11:15:15 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.DKTatlas.stats -b -a ../label/lh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab 0050184 lh white #----------------------------------------- #@# Parcellation Stats 3 rh Sun Oct 8 11:15:15 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 rh white Waiting for PID 18921 of (18921 18924) to complete... Waiting for PID 18924 of (18921 18924) to complete... mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.DKTatlas.stats -b -a ../label/lh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab 0050184 lh white computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot. reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white... reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial... reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. INFO: using ../label/lh.cortex.label as mask to calc cortex NumVert, SurfArea and MeanThickness. Using TH3 vertex volume calc Total face volume 363569 Total vertex volume 359012 (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) = 1936761 mm^3 (det: 1.005857 ) lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 2566 1725 5667 2.828 0.758 0.119 0.028 28 2.9 caudalanteriorcingulate 4864 3209 9933 2.765 0.533 0.123 0.040 63 6.8 caudalmiddlefrontal 4182 2705 7222 2.356 0.594 0.147 0.042 77 6.8 cuneus 648 435 2295 3.457 0.753 0.138 0.052 11 1.5 entorhinal 5747 3910 12787 2.786 0.655 0.120 0.031 74 7.3 fusiform 10120 6666 20005 2.657 0.543 0.129 0.037 147 14.2 inferiorparietal 6369 4449 17206 3.053 0.761 0.142 0.046 102 12.3 inferiortemporal 1774 1131 3096 2.397 0.868 0.120 0.038 25 2.2 isthmuscingulate 11629 7251 18285 2.262 0.586 0.139 0.045 189 20.7 lateraloccipital 6054 4056 13519 2.902 0.758 0.139 0.045 100 10.9 lateralorbitofrontal 5650 4176 11531 2.444 0.680 0.150 0.041 81 9.3 lingual 3048 2165 7441 2.863 0.705 0.129 0.035 61 3.8 medialorbitofrontal 8419 5883 21273 2.897 0.710 0.138 0.044 151 14.8 middletemporal 1225 853 2737 2.755 0.628 0.092 0.019 7 0.9 parahippocampal 3853 2355 6152 2.483 0.595 0.121 0.038 51 6.0 paracentral 3113 2111 7197 2.959 0.549 0.125 0.036 40 4.5 parsopercularis 1414 915 3373 2.997 0.728 0.128 0.039 18 2.3 parsorbitalis 2770 1880 5906 2.720 0.576 0.137 0.037 41 3.7 parstriangularis 2626 1930 3786 2.056 0.512 0.149 0.040 34 4.4 pericalcarine 12167 7492 19047 2.279 0.701 0.136 0.050 206 25.7 postcentral 2961 2031 6188 2.769 0.765 0.150 0.040 52 4.7 posteriorcingulate 10206 6273 18889 2.670 0.629 0.123 0.047 163 19.9 precentral 7269 5000 14104 2.580 0.532 0.129 0.033 94 9.9 precuneus 2697 1845 5905 2.900 0.706 0.132 0.042 42 5.0 rostralanteriorcingulate 7553 5114 16437 2.640 0.662 0.135 0.039 114 11.4 rostralmiddlefrontal 16589 11217 37954 2.829 0.635 0.133 0.040 246 25.2 superiorfrontal 8358 5317 14940 2.443 0.523 0.131 0.036 117 11.8 superiorparietal 8345 5904 19671 2.854 0.665 0.125 0.034 98 11.2 superiortemporal 8293 5627 17242 2.740 0.565 0.136 0.038 121 11.9 supramarginal 744 468 1368 2.478 0.513 0.134 0.030 10 0.9 transversetemporal 3573 2402 7854 3.328 0.726 0.120 0.033 36 4.7 insula 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 0050184 rh white computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot. reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white... reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial... reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 345861 Total vertex volume 341473 (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) = 1936761 mm^3 (det: 1.005857 ) lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 1281 839 2407 2.528 0.670 0.117 0.033 16 1.6 caudalanteriorcingulate 4445 2976 8712 2.485 0.620 0.141 0.056 83 10.6 caudalmiddlefrontal 3226 2144 4999 2.212 0.551 0.151 0.042 50 5.6 cuneus 555 362 1598 2.907 0.900 0.146 0.059 9 1.6 entorhinal 5025 3543 11573 2.818 0.665 0.138 0.039 78 8.0 fusiform 10877 7306 23707 2.783 0.575 0.138 0.039 216 17.4 inferiorparietal 4949 3382 9886 2.483 0.656 0.143 0.052 83 11.0 inferiortemporal 1724 1143 3233 2.361 0.984 0.122 0.037 25 2.2 isthmuscingulate 10539 6749 18691 2.427 0.632 0.142 0.041 166 17.7 lateraloccipital 5506 3831 13342 2.839 0.778 0.149 0.055 112 13.0 lateralorbitofrontal 6620 4544 11586 2.322 0.696 0.159 0.054 115 14.3 lingual 2595 1823 5949 2.659 0.748 0.126 0.038 45 3.6 medialorbitofrontal 5657 3914 14050 2.783 0.716 0.139 0.048 112 11.7 middletemporal 1022 739 2332 2.713 0.631 0.120 0.036 12 1.5 parahippocampal 3750 2397 6753 2.591 0.527 0.124 0.037 42 5.6 paracentral 2989 2043 6658 2.682 0.695 0.136 0.047 51 5.6 parsopercularis 1106 768 2696 2.598 0.638 0.123 0.038 17 1.6 parsorbitalis 2707 1889 5893 2.507 0.613 0.144 0.044 39 5.2 parstriangularis 2672 1836 3475 2.038 0.515 0.139 0.042 33 4.6 pericalcarine 11426 7179 18158 2.226 0.641 0.143 0.062 230 30.9 postcentral 2242 1559 4678 2.672 0.791 0.130 0.031 30 2.7 posteriorcingulate 10824 6965 19730 2.490 0.638 0.134 0.054 164 23.6 precentral 8565 5845 16795 2.690 0.498 0.130 0.033 117 11.4 precuneus 1751 1130 3933 2.986 0.919 0.137 0.054 39 4.1 rostralanteriorcingulate 8022 5443 16691 2.416 0.691 0.154 0.056 176 18.3 rostralmiddlefrontal 18908 12997 45001 2.792 0.678 0.141 0.048 317 37.6 superiorfrontal 9583 6154 17375 2.491 0.505 0.124 0.032 129 11.4 superiorparietal 7813 5446 16727 2.654 0.673 0.140 0.043 124 13.4 superiortemporal 8053 5303 15878 2.674 0.561 0.135 0.043 123 13.7 supramarginal 617 429 1093 2.261 0.447 0.150 0.046 9 0.9 transversetemporal 3251 2277 7876 3.207 0.802 0.139 0.047 52 7.1 insula PIDs (18921 18924) completed and logs appended. #----------------------------------------- #@# WM/GM Contrast lh Sun Oct 8 11:16:12 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts pctsurfcon --s 0050184 --lh-only #----------------------------------------- #@# WM/GM Contrast rh Sun Oct 8 11:16:12 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts pctsurfcon --s 0050184 --rh-only Waiting for PID 18993 of (18993 19006) to complete... Waiting for PID 19006 of (18993 19006) to complete... pctsurfcon --s 0050184 --lh-only Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts/pctsurfcon.log Sun Oct 8 11:16:12 CEST 2017 setenv SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 cd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/pctsurfcon $Id: pctsurfcon,v 1.15 2016/02/12 21:43:15 zkaufman Exp $ Linux tars-555 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.18993/lh.wm.mgh --regheader 0050184 --cortex srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig.mgz as target reference. -------- original matrix ----------- 1.00000 0.00000 0.00000 0.00000; 0.00000 0.00000 1.00000 0.00000; 0.00000 -1.00000 0.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Done reading source surface Mapping Source Volume onto Source Subject Surface 1 -1 -1 -1 using old Done mapping volume to surface Number of source voxels hit = 96613 Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.18993/lh.wm.mgh Dim: 183509 1 1 mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.18993/lh.gm.mgh --projfrac 0.3 --regheader 0050184 --cortex srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = lh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig.mgz as target reference. -------- original matrix ----------- 1.00000 0.00000 0.00000 0.00000; 0.00000 0.00000 1.00000 0.00000; 0.00000 -1.00000 0.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Done reading source surface Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.thickness Done Mapping Source Volume onto Source Subject Surface 1 0.3 0.3 0.3 using old Done mapping volume to surface Number of source voxels hit = 119609 Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.cortex.label Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.18993/lh.gm.mgh Dim: 183509 1 1 mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.18993/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.18993/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.w-g.pct.mgh ninputs = 2 Checking inputs nframestot = 2 Allocing output Done allocing Combining pairs nframes = 1 Multiplying by 100.000000 Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.w-g.pct.mgh mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.w-g.pct.mgh --annot 0050184 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/stats/lh.w-g.pct.stats --snr $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ cwd cmdline mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.w-g.pct.mgh --annot 0050184 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/stats/lh.w-g.pct.stats --snr sysname Linux hostname tars-555 machine x86_64 user ntraut UseRobust 0 Constructing seg from annotation Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Seg base 1000 Loading /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.w-g.pct.mgh Vertex Area is 0.665667 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 pctsurfcon --s 0050184 --rh-only Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts/pctsurfcon.log Sun Oct 8 11:16:12 CEST 2017 setenv SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 cd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/scripts /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/pctsurfcon $Id: pctsurfcon,v 1.15 2016/02/12 21:43:15 zkaufman Exp $ Linux tars-555 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.19006/rh.wm.mgh --regheader 0050184 --cortex srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjDist = -1 reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig.mgz as target reference. -------- original matrix ----------- 1.00000 0.00000 0.00000 0.00000; 0.00000 0.00000 1.00000 0.00000; 0.00000 -1.00000 0.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 = 92825 Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.19006/rh.wm.mgh Dim: 176561 1 1 mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.19006/rh.gm.mgh --projfrac 0.3 --regheader 0050184 --cortex srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/rawavg.mgz srcreg unspecified srcregold = 0 srcwarp unspecified surf = white hemi = rh ProjFrac = 0.3 thickness = thickness reshape = 0 interp = trilinear float2int = round GetProjMax = 0 INFO: float2int code = 0 INFO: changing type to float Done loading volume Computing registration from header. Using /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/orig.mgz as target reference. -------- original matrix ----------- 1.00000 0.00000 0.00000 0.00000; 0.00000 0.00000 1.00000 0.00000; 0.00000 -1.00000 0.00000 0.00000; 0.00000 0.00000 0.00000 1.00000; -------- original matrix ----------- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Done reading source surface Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 = 114814 Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.cortex.label Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.19006/rh.gm.mgh Dim: 176561 1 1 mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.19006/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/tmp.pctsurfcon.19006/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.w-g.pct.mgh mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.w-g.pct.mgh --annot 0050184 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.w-g.pct.mgh --annot 0050184 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/stats/rh.w-g.pct.stats --snr sysname Linux hostname tars-555 machine x86_64 user ntraut UseRobust 0 Constructing seg from annotation Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.w-g.pct.mgh Vertex Area is 0.670462 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 PIDs (18993 19006) completed and logs appended. #----------------------------------------- #@# Relabel Hypointensities Sun Oct 8 11:16:21 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz reading input surface ../surf/lh.white... relabeling lh hypointensities... 2359 voxels changed to hypointensity... reading input surface ../surf/rh.white... relabeling rh hypointensities... 2654 voxels changed to hypointensity... 5094 hypointense voxels neighboring cortex changed #----------------------------------------- #@# AParc-to-ASeg aparc Sun Oct 8 11:16:48 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184 mri_aparc2aseg --s 0050184 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt #----------------------------------------- #@# AParc-to-ASeg a2009s Sun Oct 8 11:16:48 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184 mri_aparc2aseg --s 0050184 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt --a2009s #----------------------------------------- #@# AParc-to-ASeg DKTatlas Sun Oct 8 11:16:48 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184 mri_aparc2aseg --s 0050184 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt --annot aparc.DKTatlas --o mri/aparc.DKTatlas+aseg.mgz Waiting for PID 19172 of (19172 19175 19178) to complete... Waiting for PID 19175 of (19172 19175 19178) to complete... Waiting for PID 19178 of (19172 19175 19178) to complete... mri_aparc2aseg --s 0050184 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt relabeling unlikely voxels interior to white matter surface: norm: mri/norm.mgz XFORM: mri/transforms/talairach.m3z GCA: /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca label intensities: mri/aseg.auto_noCCseg.label_intensities.txt SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 subject 0050184 outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aparc+aseg.mgz useribbon 0 baseoffset 0 RipUnknown 0 Reading lh white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading lh pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Reading rh white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading rh pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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) Have color table for lh white annotation Have color table for rh white annotation Loading ribbon segmentation from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/ribbon.mgz Building hash of lh white Building hash of lh pial Building hash of rh white Building hash of rh pial Loading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aseg.presurf.hypos.mgz ASeg Vox2RAS: ----------- -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; ------------------------- Labeling Slice relabeling unlikely voxels in interior of white matter setting orig areas to linear transform determinant scaled 8.28 reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt rescaling Left_Cerebral_White_Matter from 107 --> 107 rescaling Left_Cerebral_Cortex from 61 --> 63 rescaling Left_Lateral_Ventricle from 13 --> 18 rescaling Left_Inf_Lat_Vent from 34 --> 27 rescaling Left_Cerebellum_White_Matter from 86 --> 80 rescaling Left_Cerebellum_Cortex from 60 --> 53 rescaling Left_Thalamus from 94 --> 94 rescaling Left_Thalamus_Proper from 84 --> 86 rescaling Left_Caudate from 75 --> 68 rescaling Left_Putamen from 80 --> 79 rescaling Left_Pallidum from 98 --> 92 rescaling Third_Ventricle from 25 --> 26 rescaling Fourth_Ventricle from 22 --> 17 rescaling Brain_Stem from 81 --> 83 rescaling Left_Hippocampus from 57 --> 58 rescaling Left_Amygdala from 56 --> 60 rescaling CSF from 32 --> 36 rescaling Left_Accumbens_area from 62 --> 61 rescaling Left_VentralDC from 87 --> 90 rescaling Right_Cerebral_White_Matter from 105 --> 104 rescaling Right_Cerebral_Cortex from 58 --> 60 rescaling Right_Lateral_Ventricle from 13 --> 13 rescaling Right_Inf_Lat_Vent from 25 --> 22 rescaling Right_Cerebellum_White_Matter from 87 --> 89 rescaling Right_Cerebellum_Cortex from 59 --> 58 rescaling Right_Thalamus_Proper from 85 --> 81 rescaling Right_Caudate from 62 --> 66 rescaling Right_Putamen from 80 --> 69 rescaling Right_Pallidum from 97 --> 89 rescaling Right_Hippocampus from 53 --> 52 rescaling Right_Amygdala from 55 --> 53 rescaling Right_Accumbens_area from 65 --> 65 rescaling Right_VentralDC from 86 --> 91 rescaling Fifth_Ventricle from 40 --> 32 rescaling WM_hypointensities from 78 --> 77 rescaling non_WM_hypointensities from 40 --> 56 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 692252 Used brute-force search on 0 voxels relabeling unlikely voxels in interior of white matter average std[0] = 7.3 pass 1: 194 changed. pass 2: 13 changed. pass 3: 0 changed. nchanged = 0 Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aparc+aseg.mgz mri_aparc2aseg --s 0050184 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt --a2009s relabeling unlikely voxels interior to white matter surface: norm: mri/norm.mgz XFORM: mri/transforms/talairach.m3z GCA: /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca label intensities: mri/aseg.auto_noCCseg.label_intensities.txt SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 subject 0050184 outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aparc.a2009s+aseg.mgz useribbon 0 baseoffset 10100 RipUnknown 0 Reading lh white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading lh pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.aparc.a2009s.annot reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2008.txt) Reading rh white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading rh pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.aparc.a2009s.annot reading colortable from annotation file... colortable with 76 entries read (originally Simple_surface_labels2008.txt) Have color table for lh white annotation Have color table for rh white annotation Loading ribbon segmentation from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/ribbon.mgz Building hash of lh white Building hash of lh pial Building hash of rh white Building hash of rh pial Loading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aseg.presurf.hypos.mgz ASeg Vox2RAS: ----------- -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; ------------------------- Labeling Slice relabeling unlikely voxels in interior of white matter setting orig areas to linear transform determinant scaled 8.28 reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt rescaling Left_Cerebral_White_Matter from 107 --> 107 rescaling Left_Cerebral_Cortex from 61 --> 63 rescaling Left_Lateral_Ventricle from 13 --> 18 rescaling Left_Inf_Lat_Vent from 34 --> 27 rescaling Left_Cerebellum_White_Matter from 86 --> 80 rescaling Left_Cerebellum_Cortex from 60 --> 53 rescaling Left_Thalamus from 94 --> 94 rescaling Left_Thalamus_Proper from 84 --> 86 rescaling Left_Caudate from 75 --> 68 rescaling Left_Putamen from 80 --> 79 rescaling Left_Pallidum from 98 --> 92 rescaling Third_Ventricle from 25 --> 26 rescaling Fourth_Ventricle from 22 --> 17 rescaling Brain_Stem from 81 --> 83 rescaling Left_Hippocampus from 57 --> 58 rescaling Left_Amygdala from 56 --> 60 rescaling CSF from 32 --> 36 rescaling Left_Accumbens_area from 62 --> 61 rescaling Left_VentralDC from 87 --> 90 rescaling Right_Cerebral_White_Matter from 105 --> 104 rescaling Right_Cerebral_Cortex from 58 --> 60 rescaling Right_Lateral_Ventricle from 13 --> 13 rescaling Right_Inf_Lat_Vent from 25 --> 22 rescaling Right_Cerebellum_White_Matter from 87 --> 89 rescaling Right_Cerebellum_Cortex from 59 --> 58 rescaling Right_Thalamus_Proper from 85 --> 81 rescaling Right_Caudate from 62 --> 66 rescaling Right_Putamen from 80 --> 69 rescaling Right_Pallidum from 97 --> 89 rescaling Right_Hippocampus from 53 --> 52 rescaling Right_Amygdala from 55 --> 53 rescaling Right_Accumbens_area from 65 --> 65 rescaling Right_VentralDC from 86 --> 91 rescaling Fifth_Ventricle from 40 --> 32 rescaling WM_hypointensities from 78 --> 77 rescaling non_WM_hypointensities from 40 --> 56 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 692820 Used brute-force search on 0 voxels relabeling unlikely voxels in interior of white matter average std[0] = 7.3 pass 1: 194 changed. pass 2: 13 changed. pass 3: 0 changed. nchanged = 0 Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aparc.a2009s+aseg.mgz mri_aparc2aseg --s 0050184 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt --annot aparc.DKTatlas --o mri/aparc.DKTatlas+aseg.mgz relabeling unlikely voxels interior to white matter surface: norm: mri/norm.mgz XFORM: mri/transforms/talairach.m3z GCA: /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca label intensities: mri/aseg.auto_noCCseg.label_intensities.txt SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 subject 0050184 outvol mri/aparc.DKTatlas+aseg.mgz useribbon 0 baseoffset 0 RipUnknown 0 Reading lh white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading lh pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.aparc.DKTatlas.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) Reading rh white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading rh pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.aparc.DKTatlas.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) Have color table for lh white annotation Have color table for rh white annotation Loading ribbon segmentation from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/ribbon.mgz Building hash of lh white Building hash of lh pial Building hash of rh white Building hash of rh pial Loading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aseg.presurf.hypos.mgz ASeg Vox2RAS: ----------- -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; ------------------------- Labeling Slice relabeling unlikely voxels in interior of white matter setting orig areas to linear transform determinant scaled 8.28 reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt rescaling Left_Cerebral_White_Matter from 107 --> 107 rescaling Left_Cerebral_Cortex from 61 --> 63 rescaling Left_Lateral_Ventricle from 13 --> 18 rescaling Left_Inf_Lat_Vent from 34 --> 27 rescaling Left_Cerebellum_White_Matter from 86 --> 80 rescaling Left_Cerebellum_Cortex from 60 --> 53 rescaling Left_Thalamus from 94 --> 94 rescaling Left_Thalamus_Proper from 84 --> 86 rescaling Left_Caudate from 75 --> 68 rescaling Left_Putamen from 80 --> 79 rescaling Left_Pallidum from 98 --> 92 rescaling Third_Ventricle from 25 --> 26 rescaling Fourth_Ventricle from 22 --> 17 rescaling Brain_Stem from 81 --> 83 rescaling Left_Hippocampus from 57 --> 58 rescaling Left_Amygdala from 56 --> 60 rescaling CSF from 32 --> 36 rescaling Left_Accumbens_area from 62 --> 61 rescaling Left_VentralDC from 87 --> 90 rescaling Right_Cerebral_White_Matter from 105 --> 104 rescaling Right_Cerebral_Cortex from 58 --> 60 rescaling Right_Lateral_Ventricle from 13 --> 13 rescaling Right_Inf_Lat_Vent from 25 --> 22 rescaling Right_Cerebellum_White_Matter from 87 --> 89 rescaling Right_Cerebellum_Cortex from 59 --> 58 rescaling Right_Thalamus_Proper from 85 --> 81 rescaling Right_Caudate from 62 --> 66 rescaling Right_Putamen from 80 --> 69 rescaling Right_Pallidum from 97 --> 89 rescaling Right_Hippocampus from 53 --> 52 rescaling Right_Amygdala from 55 --> 53 rescaling Right_Accumbens_area from 65 --> 65 rescaling Right_VentralDC from 86 --> 91 rescaling Fifth_Ventricle from 40 --> 32 rescaling WM_hypointensities from 78 --> 77 rescaling non_WM_hypointensities from 40 --> 56 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 692820 Used brute-force search on 0 voxels relabeling unlikely voxels in interior of white matter average std[0] = 7.3 pass 1: 194 changed. pass 2: 13 changed. pass 3: 0 changed. nchanged = 0 Writing output aseg to mri/aparc.DKTatlas+aseg.mgz PIDs (19172 19175 19178) completed and logs appended. #----------------------------------------- #@# APas-to-ASeg Sun Oct 8 11:26:11 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri apas2aseg --i aparc+aseg.mgz --o aseg.mgz Sun Oct 8 11:26:11 CEST 2017 setenv SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 cd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/apas2aseg --i aparc+aseg.mgz --o aseg.mgz freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c $Id: apas2aseg,v 1.2 2016/02/12 21:43:14 zkaufman Exp $ Linux tars-555 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux mri_binarize --i aparc+aseg.mgz --o aseg.mgz --replace 1000 3 --replace 2000 42 --replace 1001 3 --replace 2001 42 --replace 1002 3 --replace 2002 42 --replace 1003 3 --replace 2003 42 --replace 1004 3 --replace 2004 42 --replace 1005 3 --replace 2005 42 --replace 1006 3 --replace 2006 42 --replace 1007 3 --replace 2007 42 --replace 1008 3 --replace 2008 42 --replace 1009 3 --replace 2009 42 --replace 1010 3 --replace 2010 42 --replace 1011 3 --replace 2011 42 --replace 1012 3 --replace 2012 42 --replace 1013 3 --replace 2013 42 --replace 1014 3 --replace 2014 42 --replace 1015 3 --replace 2015 42 --replace 1016 3 --replace 2016 42 --replace 1017 3 --replace 2017 42 --replace 1018 3 --replace 2018 42 --replace 1019 3 --replace 2019 42 --replace 1020 3 --replace 2020 42 --replace 1021 3 --replace 2021 42 --replace 1022 3 --replace 2022 42 --replace 1023 3 --replace 2023 42 --replace 1024 3 --replace 2024 42 --replace 1025 3 --replace 2025 42 --replace 1026 3 --replace 2026 42 --replace 1027 3 --replace 2027 42 --replace 1028 3 --replace 2028 42 --replace 1029 3 --replace 2029 42 --replace 1030 3 --replace 2030 42 --replace 1031 3 --replace 2031 42 --replace 1032 3 --replace 2032 42 --replace 1033 3 --replace 2033 42 --replace 1034 3 --replace 2034 42 --replace 1035 3 --replace 2035 42 $Id: mri_binarize.c,v 1.43 2016/06/09 20:46:21 greve Exp $ cwd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri cmdline mri_binarize.bin --i aparc+aseg.mgz --o aseg.mgz --replace 1000 3 --replace 2000 42 --replace 1001 3 --replace 2001 42 --replace 1002 3 --replace 2002 42 --replace 1003 3 --replace 2003 42 --replace 1004 3 --replace 2004 42 --replace 1005 3 --replace 2005 42 --replace 1006 3 --replace 2006 42 --replace 1007 3 --replace 2007 42 --replace 1008 3 --replace 2008 42 --replace 1009 3 --replace 2009 42 --replace 1010 3 --replace 2010 42 --replace 1011 3 --replace 2011 42 --replace 1012 3 --replace 2012 42 --replace 1013 3 --replace 2013 42 --replace 1014 3 --replace 2014 42 --replace 1015 3 --replace 2015 42 --replace 1016 3 --replace 2016 42 --replace 1017 3 --replace 2017 42 --replace 1018 3 --replace 2018 42 --replace 1019 3 --replace 2019 42 --replace 1020 3 --replace 2020 42 --replace 1021 3 --replace 2021 42 --replace 1022 3 --replace 2022 42 --replace 1023 3 --replace 2023 42 --replace 1024 3 --replace 2024 42 --replace 1025 3 --replace 2025 42 --replace 1026 3 --replace 2026 42 --replace 1027 3 --replace 2027 42 --replace 1028 3 --replace 2028 42 --replace 1029 3 --replace 2029 42 --replace 1030 3 --replace 2030 42 --replace 1031 3 --replace 2031 42 --replace 1032 3 --replace 2032 42 --replace 1033 3 --replace 2033 42 --replace 1034 3 --replace 2034 42 --replace 1035 3 --replace 2035 42 sysname Linux hostname tars-555 machine x86_64 user ntraut input aparc+aseg.mgz frame 0 nErode3d 0 nErode2d 0 output aseg.mgz Binarizing based on threshold min -infinity max +infinity binval 1 binvalnot 0 fstart = 0, fend = 0, nframes = 1 Replacing 72 1: 1000 3 2: 2000 42 3: 1001 3 4: 2001 42 5: 1002 3 6: 2002 42 7: 1003 3 8: 2003 42 9: 1004 3 10: 2004 42 11: 1005 3 12: 2005 42 13: 1006 3 14: 2006 42 15: 1007 3 16: 2007 42 17: 1008 3 18: 2008 42 19: 1009 3 20: 2009 42 21: 1010 3 22: 2010 42 23: 1011 3 24: 2011 42 25: 1012 3 26: 2012 42 27: 1013 3 28: 2013 42 29: 1014 3 30: 2014 42 31: 1015 3 32: 2015 42 33: 1016 3 34: 2016 42 35: 1017 3 36: 2017 42 37: 1018 3 38: 2018 42 39: 1019 3 40: 2019 42 41: 1020 3 42: 2020 42 43: 1021 3 44: 2021 42 45: 1022 3 46: 2022 42 47: 1023 3 48: 2023 42 49: 1024 3 50: 2024 42 51: 1025 3 52: 2025 42 53: 1026 3 54: 2026 42 55: 1027 3 56: 2027 42 57: 1028 3 58: 2028 42 59: 1029 3 60: 2029 42 61: 1030 3 62: 2030 42 63: 1031 3 64: 2031 42 65: 1032 3 66: 2032 42 67: 1033 3 68: 2033 42 69: 1034 3 70: 2034 42 71: 1035 3 72: 2035 42 Found 0 values in range Counting number of voxels in first frame Found 0 voxels in final mask Count: 0 0.000000 16777216 0.000000 mri_binarize done Started at Sun Oct 8 11:26:11 CEST 2017 Ended at Sun Oct 8 11:26:17 CEST 2017 Apas2aseg-Run-Time-Sec 6 apas2aseg Done #-------------------------------------------- #@# ASeg Stats Sun Oct 8 11:26:17 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184 mri_segstats --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --supratent --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/ASegStatsLUT.txt --subject 0050184 $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ cwd cmdline mri_segstats --seg mri/aseg.mgz --sum stats/aseg.stats --pv mri/norm.mgz --empty --brainmask mri/brainmask.mgz --brain-vol-from-seg --excludeid 0 --excl-ctxgmwm --supratent --subcortgray --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --etiv --surf-wm-vol --surf-ctx-vol --totalgray --euler --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/ASegStatsLUT.txt --subject 0050184 sysname Linux hostname tars-555 machine x86_64 user ntraut UseRobust 0 atlas_icv (eTIV) = 1936761 mm^3 (det: 1.005857 ) Computing euler number orig.nofix lheno = -312, rheno = -540 orig.nofix lhholes = 157, rhholes = 271 Loading mri/aseg.mgz Getting Brain Volume Statistics lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 Loading mri/norm.mgz Loading mri/norm.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 50 segmentations Computing statistics for each segmentation Reporting on 45 segmentations Using PrintSegStat mri_segstats done #----------------------------------------- #@# WMParc Sun Oct 8 11:27:56 CEST 2017 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184 mri_aparc2aseg --s 0050184 --labelwm --hypo-as-wm --rip-unknown --volmask --o mri/wmparc.mgz --ctxseg aparc+aseg.mgz SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 subject 0050184 outvol mri/wmparc.mgz useribbon 0 baseoffset 0 labeling wm labeling hypo-intensities as wm dmaxctx 5.000000 RipUnknown 1 CtxSeg /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aparc+aseg.mgz Reading lh white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading lh pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.aparc.annot reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt) Reading rh white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading rh pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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) Have color table for lh white annotation Have color table for rh white annotation Loading ribbon segmentation from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/ribbon.mgz Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/ribbon.mgz Ripping vertices labeled as unkown Ripped 8686 vertices from left hemi Ripped 8412 vertices from right hemi Building hash of lh white Building hash of lh pial Building hash of rh white Building hash of rh pial Loading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aseg.mgz Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/aparc+aseg.mgz ASeg Vox2RAS: ----------- -1.00000 0.00000 0.00000 128.00000; 0.00000 0.00000 1.00000 -128.00000; 0.00000 -1.00000 0.00000 128.00000; 0.00000 0.00000 0.00000 1.00000; ------------------------- Labeling Slice 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 1198411 Used brute-force search on 6 voxels Fixing Parahip LH WM Found 11 clusters 0 k 1.000000 1 k 3.000000 2 k 1.000000 3 k 1.000000 4 k 1.000000 5 k 1.000000 6 k 1718.000000 7 k 2.000000 8 k 1.000000 9 k 1.000000 10 k 1.000000 Fixing Parahip RH WM Found 2 clusters 0 k 27.000000 1 k 1553.000000 Writing output aseg to mri/wmparc.mgz mri_segstats --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject 0050184 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv $Id: mri_segstats.c,v 1.121 2016/05/31 17:27:11 greve Exp $ cwd cmdline mri_segstats --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject 0050184 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv sysname Linux hostname tars-555 machine x86_64 user ntraut UseRobust 0 atlas_icv (eTIV) = 1936761 mm^3 (det: 1.005857 ) Loading mri/wmparc.mgz Getting Brain Volume Statistics lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 Loading mri/norm.mgz Loading mri/norm.mgz Voxel Volume is 1 mm^3 Generating list of segmentation ids Found 390 segmentations Computing statistics for each segmentation Reporting on 70 segmentations Using PrintSegStat mri_segstats done /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label #-------------------------------------------- #@# BA_exvivo Labels lh Sun Oct 8 11:37:53 CEST 2017 mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA1_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA1_exvivo.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA2_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA2_exvivo.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3a_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA3a_exvivo.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3b_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA3b_exvivo.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA4a_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface Waiting for PID 19958 of (19958 19964 19970 19976 19981) to complete... Waiting for PID 19964 of (19958 19964 19970 19976 19981) to complete... Waiting for PID 19970 of (19958 19964 19970 19976 19981) to complete... Waiting for PID 19976 of (19958 19964 19970 19976 19981) to complete... Waiting for PID 19981 of (19958 19964 19970 19976 19981) to complete... mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA1_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA1_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA1_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA1_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 4129 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4129 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 1762 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.label 5891 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA2_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA2_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA2_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA2_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 7909 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 7909 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 2698 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.label 10607 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3a_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA3a_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA3a_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 4077 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4077 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 588 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.label 4665 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3b_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA3b_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA3b_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 5983 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5983 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 1834 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.label 7817 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA4a_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA4a_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 5784 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 5784 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 1463 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.label 7247 mri_label2label: Done PIDs (19958 19964 19970 19976 19981) completed and logs appended. mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA4p_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA4p_exvivo.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA6_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA6_exvivo.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA44_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA44_exvivo.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA45_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface Waiting for PID 20044 of (20044 20050 20056 20062) to complete... Waiting for PID 20050 of (20044 20050 20056 20062) to complete... Waiting for PID 20056 of (20044 20050 20056 20062) to complete... Waiting for PID 20062 of (20044 20050 20056 20062) to complete... mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA4p_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA4p_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA4p_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 4070 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4070 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 760 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.label 4830 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA6_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA6_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA6_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA6_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 13589 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 13589 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 3919 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.label 17508 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA44_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA44_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA44_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA44_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 4181 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4181 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 906 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.label 5087 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA45_exvivo.label --trgsubject 0050184 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA45_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA45_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 3422 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3422 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 910 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.label 4332 mri_label2label: Done PIDs (20044 20050 20056 20062) completed and logs appended. mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.V1_exvivo.label --trgsubject 0050184 --trglabel ./lh.V1_exvivo.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.V2_exvivo.label --trgsubject 0050184 --trglabel ./lh.V2_exvivo.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.MT_exvivo.label --trgsubject 0050184 --trglabel ./lh.MT_exvivo.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.entorhinal_exvivo.label --trgsubject 0050184 --trglabel ./lh.entorhinal_exvivo.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.perirhinal_exvivo.label --trgsubject 0050184 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface Waiting for PID 20111 of (20111 20117 20123 20128 20133) to complete... Waiting for PID 20117 of (20111 20117 20123 20128 20133) to complete... Waiting for PID 20123 of (20111 20117 20123 20128 20133) to complete... Waiting for PID 20128 of (20111 20117 20123 20128 20133) to complete... Waiting for PID 20133 of (20111 20117 20123 20128 20133) to complete... mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.V1_exvivo.label --trgsubject 0050184 --trglabel ./lh.V1_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.V1_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.V1_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 4641 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 4641 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 2983 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.label 7624 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.V2_exvivo.label --trgsubject 0050184 --trglabel ./lh.V2_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.V2_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.V2_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 8114 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 8114 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 5779 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.label 13893 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.MT_exvivo.label --trgsubject 0050184 --trglabel ./lh.MT_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.MT_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.MT_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 2018 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2018 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 885 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.label 2903 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.entorhinal_exvivo.label --trgsubject 0050184 --trglabel ./lh.entorhinal_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.entorhinal_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1290 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1290 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 135 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.label 1425 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.perirhinal_exvivo.label --trgsubject 0050184 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.perirhinal_exvivo.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1199 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1199 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 89 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.label 1288 mri_label2label: Done PIDs (20111 20117 20123 20128 20133) completed and logs appended. mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA1_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA1_exvivo.thresh.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA2_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA2_exvivo.thresh.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3a_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA3a_exvivo.thresh.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3b_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA3b_exvivo.thresh.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA4a_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface Waiting for PID 20197 of (20197 20203 20209 20215 20220) to complete... Waiting for PID 20203 of (20197 20203 20209 20215 20220) to complete... Waiting for PID 20209 of (20197 20203 20209 20215 20220) to complete... Waiting for PID 20215 of (20197 20203 20209 20215 20220) to complete... Waiting for PID 20220 of (20197 20203 20209 20215 20220) to complete... mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA1_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA1_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA1_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1014 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1014 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 488 Checking for and removing duplicates Writing label file ./lh.BA1_exvivo.thresh.label 1502 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA2_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA2_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA2_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 2092 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2092 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 898 Checking for and removing duplicates Writing label file ./lh.BA2_exvivo.thresh.label 2990 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3a_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA3a_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA3a_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1504 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1504 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 167 Checking for and removing duplicates Writing label file ./lh.BA3a_exvivo.thresh.label 1671 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3b_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA3b_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA3b_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1996 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1996 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 661 Checking for and removing duplicates Writing label file ./lh.BA3b_exvivo.thresh.label 2657 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA4a_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA4a_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 2319 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 2319 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 778 Checking for and removing duplicates Writing label file ./lh.BA4a_exvivo.thresh.label 3097 mri_label2label: Done PIDs (20197 20203 20209 20215 20220) completed and logs appended. mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA4p_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA4p_exvivo.thresh.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA6_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA6_exvivo.thresh.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA44_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA44_exvivo.thresh.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA45_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface Waiting for PID 20320 of (20320 20326 20332 20337) to complete... Waiting for PID 20326 of (20320 20326 20332 20337) to complete... Waiting for PID 20332 of (20320 20326 20332 20337) to complete... Waiting for PID 20337 of (20320 20326 20332 20337) to complete... mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA4p_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA4p_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA4p_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1549 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1549 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 317 Checking for and removing duplicates Writing label file ./lh.BA4p_exvivo.thresh.label 1866 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA6_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA6_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA6_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 7035 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 7035 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 1687 Checking for and removing duplicates Writing label file ./lh.BA6_exvivo.thresh.label 8722 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA44_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA44_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA44_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1912 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1912 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 499 Checking for and removing duplicates Writing label file ./lh.BA44_exvivo.thresh.label 2411 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA45_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.BA45_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1151 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 1151 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 373 Checking for and removing duplicates Writing label file ./lh.BA45_exvivo.thresh.label 1524 mri_label2label: Done PIDs (20320 20326 20332 20337) completed and logs appended. mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.V1_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.V1_exvivo.thresh.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.V2_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.V2_exvivo.thresh.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.MT_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.MT_exvivo.thresh.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.entorhinal_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.entorhinal_exvivo.thresh.label --hemi lh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.perirhinal_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface Waiting for PID 20386 of (20386 20392 20398 20403 20410) to complete... Waiting for PID 20392 of (20386 20392 20398 20403 20410) to complete... Waiting for PID 20398 of (20386 20392 20398 20403 20410) to complete... Waiting for PID 20403 of (20386 20392 20398 20403 20410) to complete... Waiting for PID 20410 of (20386 20392 20398 20403 20410) to complete... mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.V1_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.V1_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.V1_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 3405 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3405 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 2098 Checking for and removing duplicates Writing label file ./lh.V1_exvivo.thresh.label 5503 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.V2_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.V2_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.V2_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 3334 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 3334 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 2656 Checking for and removing duplicates Writing label file ./lh.V2_exvivo.thresh.label 5990 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.MT_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.MT_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.MT_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 513 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 513 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 228 Checking for and removing duplicates Writing label file ./lh.MT_exvivo.thresh.label 741 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.entorhinal_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.entorhinal_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.entorhinal_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 470 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 470 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 73 Checking for and removing duplicates Writing label file ./lh.entorhinal_exvivo.thresh.label 543 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.perirhinal_exvivo.thresh.label --trgsubject 0050184 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 trglabel = ./lh.perirhinal_exvivo.thresh.label regmethod = surface srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0 SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 450 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/lh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.sphere.reg Rescaling ... original radius = 100 Building target registration hash (res=16). Building source registration hash (res=16). INFO: found 450 nlabel points Performing mapping from target back to the source label 183509 Number of reverse mapping hits = 24 Checking for and removing duplicates Writing label file ./lh.perirhinal_exvivo.thresh.label 474 mri_label2label: Done PIDs (20386 20392 20398 20403 20410) completed and logs appended. mris_label2annot --s 0050184 --hemi lh --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.entorhinal_exvivo.label --l lh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose Reading ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label cmdline mris_label2annot --s 0050184 --hemi lh --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/colortable_BA.txt --l lh.BA1_exvivo.label --l lh.BA2_exvivo.label --l lh.BA3a_exvivo.label --l lh.BA3b_exvivo.label --l lh.BA4a_exvivo.label --l lh.BA4p_exvivo.label --l lh.BA6_exvivo.label --l lh.BA44_exvivo.label --l lh.BA45_exvivo.label --l lh.V1_exvivo.label --l lh.V2_exvivo.label --l lh.MT_exvivo.label --l lh.entorhinal_exvivo.label --l lh.perirhinal_exvivo.label --a BA_exvivo --maxstatwinner --noverbose sysname Linux hostname tars-555 machine x86_64 user ntraut subject 0050184 hemi lh SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 ColorTable /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 124536 unhit vertices Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.BA_exvivo.annot mris_label2annot --s 0050184 --hemi lh --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose Reading ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label cmdline mris_label2annot --s 0050184 --hemi lh --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/colortable_BA.txt --l lh.BA1_exvivo.thresh.label --l lh.BA2_exvivo.thresh.label --l lh.BA3a_exvivo.thresh.label --l lh.BA3b_exvivo.thresh.label --l lh.BA4a_exvivo.thresh.label --l lh.BA4p_exvivo.thresh.label --l lh.BA6_exvivo.thresh.label --l lh.BA44_exvivo.thresh.label --l lh.BA45_exvivo.thresh.label --l lh.V1_exvivo.thresh.label --l lh.V2_exvivo.thresh.label --l lh.MT_exvivo.thresh.label --l lh.entorhinal_exvivo.thresh.label --l lh.perirhinal_exvivo.thresh.label --a BA_exvivo.thresh --maxstatwinner --noverbose sysname Linux hostname tars-555 machine x86_64 user ntraut subject 0050184 hemi lh SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 ColorTable /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.orig 1 1530880 BA1_exvivo 2 16749699 BA2_exvivo 3 16711680 BA3a_exvivo 4 3368703 BA3b_exvivo 5 1376196 BA4a_exvivo 6 13382655 BA4p_exvivo 7 10036737 BA6_exvivo 8 2490521 BA44_exvivo 9 39283 BA45_exvivo 10 3993 V1_exvivo 11 8508928 V2_exvivo 12 10027163 MT_exvivo 13 16422433 perirhinal_exvivo 14 16392598 entorhinal_exvivo Mapping unhit to unknown Found 148630 unhit vertices Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/lh.BA_exvivo.thresh.annot mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.stats -b -a ./lh.BA_exvivo.annot -c ./BA_exvivo.ctab 0050184 lh white computing statistics for each annotation in ./lh.BA_exvivo.annot. reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white... reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial... reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 363569 Total vertex volume 359012 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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) = 1936761 mm^3 (det: 1.005857 ) lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 2129 1180 3499 2.317 0.737 0.165 0.080 63 7.2 BA1_exvivo 6494 4135 10320 2.401 0.591 0.133 0.042 95 11.4 BA2_exvivo 1431 952 1394 1.788 0.371 0.129 0.037 13 2.1 BA3a_exvivo 4043 2520 6283 2.151 0.697 0.131 0.044 57 7.4 BA3b_exvivo 2692 1512 4249 2.523 0.610 0.130 0.057 52 7.2 BA4a_exvivo 1863 1089 2666 2.614 0.512 0.116 0.049 21 3.3 BA4p_exvivo 13395 8647 30441 2.874 0.635 0.122 0.041 203 21.1 BA6_exvivo 3330 2244 7974 2.957 0.589 0.113 0.029 34 3.7 BA44_exvivo 3312 2247 7205 2.729 0.544 0.142 0.040 55 5.2 BA45_exvivo 4807 3327 7309 2.037 0.581 0.147 0.045 82 8.9 V1_exvivo 11428 7685 19406 2.268 0.621 0.153 0.047 193 21.9 V2_exvivo 2705 1805 4787 2.430 0.561 0.129 0.037 32 3.6 MT_exvivo 693 450 2227 3.193 0.779 0.120 0.044 9 1.4 perirhinal_exvivo 651 459 1708 3.165 0.677 0.104 0.025 5 0.5 entorhinal_exvivo mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 0050184 lh white computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot. reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white... reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.pial... reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/lh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 363569 Total vertex volume 359012 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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) = 1936761 mm^3 (det: 1.005857 ) lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 1348 710 2090 2.270 0.674 0.170 0.083 33 5.2 BA1_exvivo 2791 1699 4328 2.264 0.614 0.136 0.053 52 6.6 BA2_exvivo 1216 813 1146 1.785 0.371 0.130 0.036 10 1.8 BA3a_exvivo 2387 1487 2820 1.809 0.430 0.117 0.039 28 4.0 BA3b_exvivo 2601 1434 4058 2.601 0.566 0.122 0.053 45 5.9 BA4a_exvivo 1462 871 2084 2.579 0.555 0.116 0.044 15 2.5 BA4p_exvivo 7256 4580 16094 2.830 0.667 0.125 0.047 132 14.1 BA6_exvivo 2161 1448 5252 2.985 0.572 0.116 0.031 25 2.6 BA44_exvivo 1378 957 3286 2.864 0.546 0.159 0.048 27 2.6 BA45_exvivo 5129 3518 7905 2.046 0.583 0.147 0.045 88 9.4 V1_exvivo 5730 3906 9363 2.153 0.627 0.157 0.050 101 11.7 V2_exvivo 710 477 1327 2.523 0.508 0.126 0.031 9 0.7 MT_exvivo 368 232 1154 3.163 0.719 0.121 0.053 5 1.0 perirhinal_exvivo 342 237 875 3.248 0.488 0.086 0.017 1 0.3 entorhinal_exvivo #-------------------------------------------- #@# BA_exvivo Labels rh Sun Oct 8 11:42:32 CEST 2017 mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA1_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA1_exvivo.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA2_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA2_exvivo.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3a_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA3a_exvivo.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3b_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA3b_exvivo.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4a_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface Waiting for PID 20544 of (20544 20550 20556 20562 20566) to complete... Waiting for PID 20550 of (20544 20550 20556 20562 20566) to complete... Waiting for PID 20556 of (20544 20550 20556 20562 20566) to complete... Waiting for PID 20562 of (20544 20550 20556 20562 20566) to complete... Waiting for PID 20566 of (20544 20550 20556 20562 20566) to complete... mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA1_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA1_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA1_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 3962 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 1687 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.label 5649 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA2_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA2_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA2_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 6687 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 2236 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.label 8923 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3a_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA3a_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3a_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 3980 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 859 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.label 4839 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3b_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA3b_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3b_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 4522 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 1648 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.label 6170 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4a_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4a_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 5747 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 1731 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.label 7478 mri_label2label: Done PIDs (20544 20550 20556 20562 20566) completed and logs appended. mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4p_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA4p_exvivo.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA6_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA6_exvivo.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA44_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA44_exvivo.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA45_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface Waiting for PID 20621 of (20621 20627 20633 20639) to complete... Waiting for PID 20627 of (20621 20627 20633 20639) to complete... Waiting for PID 20633 of (20621 20627 20633 20639) to complete... Waiting for PID 20639 of (20621 20627 20633 20639) to complete... mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4p_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA4p_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4p_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 4473 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 1023 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.label 5496 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA6_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA6_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA6_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 12256 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 3774 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.label 16030 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA44_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA44_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA44_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 6912 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 2231 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.label 9143 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA45_exvivo.label --trgsubject 0050184 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA45_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 5355 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 1553 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.label 6908 mri_label2label: Done PIDs (20621 20627 20633 20639) completed and logs appended. mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.V1_exvivo.label --trgsubject 0050184 --trglabel ./rh.V1_exvivo.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.V2_exvivo.label --trgsubject 0050184 --trglabel ./rh.V2_exvivo.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.MT_exvivo.label --trgsubject 0050184 --trglabel ./rh.MT_exvivo.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.entorhinal_exvivo.label --trgsubject 0050184 --trglabel ./rh.entorhinal_exvivo.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.perirhinal_exvivo.label --trgsubject 0050184 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface Waiting for PID 20699 of (20699 20705 20711 20716 20721) to complete... Waiting for PID 20705 of (20699 20705 20711 20716 20721) to complete... Waiting for PID 20711 of (20699 20705 20711 20716 20721) to complete... Waiting for PID 20716 of (20699 20705 20711 20716 20721) to complete... Waiting for PID 20721 of (20699 20705 20711 20716 20721) to complete... mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.V1_exvivo.label --trgsubject 0050184 --trglabel ./rh.V1_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.V1_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 4727 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 2757 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.label 7484 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.V2_exvivo.label --trgsubject 0050184 --trglabel ./rh.V2_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.V2_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 8016 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 5080 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.label 13096 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.MT_exvivo.label --trgsubject 0050184 --trglabel ./rh.MT_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.MT_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1932 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 1319 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.label 3251 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.entorhinal_exvivo.label --trgsubject 0050184 --trglabel ./rh.entorhinal_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.entorhinal_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1038 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 103 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.label 1141 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.perirhinal_exvivo.label --trgsubject 0050184 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.perirhinal_exvivo.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 752 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 26 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.label 778 mri_label2label: Done PIDs (20699 20705 20711 20716 20721) completed and logs appended. mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA1_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA1_exvivo.thresh.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA2_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA2_exvivo.thresh.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3a_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA3a_exvivo.thresh.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3b_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA3b_exvivo.thresh.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4a_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface Waiting for PID 20783 of (20783 20789 20795 20801 20806) to complete... Waiting for PID 20789 of (20783 20789 20795 20801 20806) to complete... Waiting for PID 20795 of (20783 20789 20795 20801 20806) to complete... Waiting for PID 20801 of (20783 20789 20795 20801 20806) to complete... Waiting for PID 20806 of (20783 20789 20795 20801 20806) to complete... mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA1_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA1_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA1_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 876 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 454 Checking for and removing duplicates Writing label file ./rh.BA1_exvivo.thresh.label 1330 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA2_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA2_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA2_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 2688 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 915 Checking for and removing duplicates Writing label file ./rh.BA2_exvivo.thresh.label 3603 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3a_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA3a_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3a_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1698 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 200 Checking for and removing duplicates Writing label file ./rh.BA3a_exvivo.thresh.label 1898 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3b_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA3b_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3b_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 2183 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 770 Checking for and removing duplicates Writing label file ./rh.BA3b_exvivo.thresh.label 2953 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4a_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4a_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1388 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 452 Checking for and removing duplicates Writing label file ./rh.BA4a_exvivo.thresh.label 1840 mri_label2label: Done PIDs (20783 20789 20795 20801 20806) completed and logs appended. mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4p_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA4p_exvivo.thresh.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA6_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA6_exvivo.thresh.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA44_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA44_exvivo.thresh.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA45_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface Waiting for PID 20855 of (20855 20861 20867 20872) to complete... Waiting for PID 20861 of (20855 20861 20867 20872) to complete... Waiting for PID 20867 of (20855 20861 20867 20872) to complete... Waiting for PID 20872 of (20855 20861 20867 20872) to complete... mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4p_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA4p_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA4p_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1489 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 355 Checking for and removing duplicates Writing label file ./rh.BA4p_exvivo.thresh.label 1844 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA6_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA6_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA6_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 6959 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 2105 Checking for and removing duplicates Writing label file ./rh.BA6_exvivo.thresh.label 9064 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA44_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA44_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA44_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1012 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 315 Checking for and removing duplicates Writing label file ./rh.BA44_exvivo.thresh.label 1327 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA45_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA45_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 1178 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 369 Checking for and removing duplicates Writing label file ./rh.BA45_exvivo.thresh.label 1547 mri_label2label: Done PIDs (20855 20861 20867 20872) completed and logs appended. mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.V1_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.V1_exvivo.thresh.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.V2_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.V2_exvivo.thresh.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.MT_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.MT_exvivo.thresh.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.entorhinal_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.entorhinal_exvivo.thresh.label --hemi rh --regmethod surface mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.perirhinal_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface Waiting for PID 20932 of (20932 20938 20944 20950 20956) to complete... Waiting for PID 20938 of (20932 20938 20944 20950 20956) to complete... Waiting for PID 20944 of (20932 20938 20944 20950 20956) to complete... Waiting for PID 20950 of (20932 20938 20944 20950 20956) to complete... Waiting for PID 20956 of (20932 20938 20944 20950 20956) to complete... mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.V1_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.V1_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.V1_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 3232 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 1900 Checking for and removing duplicates Writing label file ./rh.V1_exvivo.thresh.label 5132 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.V2_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.V2_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.V2_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 3437 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 2198 Checking for and removing duplicates Writing label file ./rh.V2_exvivo.thresh.label 5635 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.MT_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.MT_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.MT_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 268 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 166 Checking for and removing duplicates Writing label file ./rh.MT_exvivo.thresh.label 434 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.entorhinal_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.entorhinal_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.entorhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 694 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 50 Checking for and removing duplicates Writing label file ./rh.entorhinal_exvivo.thresh.label 744 mri_label2label: Done mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.perirhinal_exvivo.thresh.label --trgsubject 0050184 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface srclabel = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.perirhinal_exvivo.thresh.label srcsubject = fsaverage trgsubject = 0050184 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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 FREESURFER_HOME /pasteur/homes/ntraut/bin/freesurfer-6.0.0 Loading source label. Found 291 points in source label. Starting surface-based mapping Reading source registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/surf/rh.sphere.reg Rescaling ... original radius = 100 Reading target surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white Reading target registration /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 176561 Number of reverse mapping hits = 6 Checking for and removing duplicates Writing label file ./rh.perirhinal_exvivo.thresh.label 297 mri_label2label: Done PIDs (20932 20938 20944 20950 20956) completed and logs appended. mris_label2annot --s 0050184 --hemi rh --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label cmdline mris_label2annot --s 0050184 --hemi rh --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 tars-555 machine x86_64 user ntraut subject 0050184 hemi rh SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 ColorTable /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/colortable_BA.txt AnnotName BA_exvivo nlables 14 LabelThresh 0 0.000000 Loading /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 117966 unhit vertices Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label/rh.BA_exvivo.annot mris_label2annot --s 0050184 --hemi rh --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/label cmdline mris_label2annot --s 0050184 --hemi rh --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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 tars-555 machine x86_64 user ntraut subject 0050184 hemi rh SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0 ColorTable /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/colortable_BA.txt AnnotName BA_exvivo.thresh nlables 14 LabelThresh 0 0.000000 Loading /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 143513 unhit vertices Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/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 0050184 rh white computing statistics for each annotation in ./rh.BA_exvivo.annot. reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white... reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial... reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 345861 Total vertex volume 341473 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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) = 1936761 mm^3 (det: 1.005857 ) lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 1691 989 2965 2.251 0.671 0.174 0.094 53 7.0 BA1_exvivo 5408 3480 8744 2.356 0.521 0.130 0.045 83 10.6 BA2_exvivo 1640 1040 1568 1.826 0.433 0.139 0.055 26 4.0 BA3a_exvivo 3328 2068 4520 1.905 0.551 0.143 0.069 70 9.9 BA3b_exvivo 2465 1487 4373 2.560 0.609 0.136 0.057 39 6.5 BA4a_exvivo 1894 1166 2612 2.317 0.504 0.128 0.058 29 4.5 BA4p_exvivo 12177 8166 28455 2.804 0.683 0.137 0.049 180 23.9 BA6_exvivo 5195 3523 10182 2.568 0.619 0.133 0.044 72 9.0 BA44_exvivo 4924 3478 11385 2.520 0.670 0.146 0.048 103 10.0 BA45_exvivo 5055 3308 7459 2.085 0.620 0.152 0.053 79 11.9 V1_exvivo 10750 7152 17215 2.261 0.654 0.154 0.046 184 19.5 V2_exvivo 3201 2131 6139 2.658 0.484 0.129 0.033 41 4.4 MT_exvivo 572 372 1605 2.814 0.880 0.141 0.070 10 1.7 perirhinal_exvivo 295 201 554 2.485 0.623 0.094 0.023 2 0.2 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 0050184 rh white computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot. reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/mri/wm.mgz... reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white... reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.pial... reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050184/surf/rh.white... INFO: using TH3 volume calc INFO: assuming MGZ format for volumes. Using TH3 vertex volume calc Total face volume 345861 Total vertex volume 341473 (mask=0) reading colortable from annotation file... colortable with 15 entries read (originally /pasteur/homes/ntraut/bin/freesurfer-6.0.0/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) = 1936761 mm^3 (det: 1.005857 ) lhCtxGM: 355588.047 354413.000 diff= 1175.0 pctdiff= 0.330 rhCtxGM: 338548.472 337240.000 diff= 1308.5 pctdiff= 0.386 lhCtxWM: 258448.252 258636.000 diff= -187.7 pctdiff=-0.073 rhCtxWM: 247188.376 248331.000 diff=-1142.6 pctdiff=-0.462 SubCortGMVol 69394.000 SupraTentVol 1283422.147 (1277925.000) diff=5497.147 pctdiff=0.428 SupraTentVolNotVent 1273567.147 (1268070.000) diff=5497.147 pctdiff=0.432 BrainSegVol 1446809.000 (1442904.000) diff=3905.000 pctdiff=0.270 BrainSegVolNotVent 1432157.000 (1433070.147) diff=-913.147 pctdiff=-0.064 BrainSegVolNotVent 1432157.000 CerebellumVol 163847.000 VentChorVol 9855.000 3rd4th5thCSF 4797.000 CSFVol 892.000, OptChiasmVol 240.000 MaskVol 1935358.000 1204 706 1948 2.154 0.610 0.180 0.097 39 5.3 BA1_exvivo 3206 2026 5534 2.352 0.557 0.139 0.057 63 8.1 BA2_exvivo 1362 882 1224 1.848 0.422 0.131 0.042 16 2.3 BA3a_exvivo 2566 1626 3043 1.772 0.434 0.141 0.066 48 7.5 BA3b_exvivo 1588 931 2557 2.478 0.641 0.131 0.052 23 3.9 BA4a_exvivo 1528 974 2150 2.349 0.513 0.126 0.055 21 3.3 BA4p_exvivo 7925 5283 18453 2.795 0.669 0.140 0.052 123 16.3 BA6_exvivo 1158 811 2780 2.710 0.677 0.158 0.061 25 2.8 BA44_exvivo 1372 985 3497 2.598 0.576 0.154 0.050 29 2.7 BA45_exvivo 4798 3161 6890 2.080 0.598 0.149 0.050 73 10.7 V1_exvivo 5381 3685 8446 2.108 0.676 0.166 0.055 98 11.8 V2_exvivo 426 282 1178 2.881 0.596 0.150 0.043 8 0.8 MT_exvivo 339 224 1008 2.926 0.799 0.131 0.044 3 0.6 perirhinal_exvivo 195 138 346 2.491 0.517 0.082 0.014 1 0.1 entorhinal_exvivo Started at Sat Oct 7 18:45:48 CEST 2017 Ended at Sun Oct 8 11:47:02 CEST 2017 #@#%# recon-all-run-time-hours 17.021 recon-all -s 0050184 finished without error at Sun Oct 8 11:47:02 CEST 2017