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- Mon Oct 9 14:29:43 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0050185 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/SDSU/0050185/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0050185
- 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-581 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: 65993848 65718064 275784 1771392 0 64387532
- -/+ buffers/cache: 1330532 64663316
- 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:44-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-581 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: 2017/10/09-12:29:45-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-581 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: 2017/10/09-12:29:45-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-581 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: 2017/10/09-12:29:45-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-581 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: 2017/10/09-12:29:45-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-581 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: 2017/10/09-12:29:45-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-581 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: 2017/10/09-12:29:45-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-581 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: 2017/10/09-12:29:45-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-581 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-6.0.0/0050185
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/SDSU/0050185/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/SDSU/0050185/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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/0050185/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-6.0.0/0050185/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Mon Oct 9 14:29:48 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/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-6.0.0/0050185/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Mon Oct 9 14:29:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/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-581 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
- Mon Oct 9 14:29:55 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.29059
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.29059/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.29059/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.29059/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Mon Oct 9 14:30:00 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.29059/nu0.mnc ./tmp.mri_nu_correct.mni.29059/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.29059/0/ -iterations 1000 -distance 50
- [ntraut@tars-581:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/] [2017-10-09 14:30:00] 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.29059/0/ ./tmp.mri_nu_correct.mni.29059/nu0.mnc ./tmp.mri_nu_correct.mni.29059/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
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- Processing:.................................................................Done
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- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 45
- CV of field change: 0.000991284
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.29059/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.29059/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.29059/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...
-
-
- Mon Oct 9 14:31:14 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 Mon Oct 9 14:31:14 CEST 2017
- Ended at Mon Oct 9 14:31:57 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Mon Oct 9 14:31:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.6826, pval=0.4932 >= 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-6.0.0/0050185/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/transforms/talairach_avi.log
- TalAviQA: 0.97847
- z-score: 0
- #--------------------------------------------
- #@# Nu Intensity Correction Mon Oct 9 14:32:00 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-6.0.0/0050185/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-581 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
- Mon Oct 9 14:32:00 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.29914
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.29914/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.29914/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.29914/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Mon Oct 9 14:32:02 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.29914/nu0.mnc ./tmp.mri_nu_correct.mni.29914/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.29914/0/
- [ntraut@tars-581:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/] [2017-10-09 14:32:02] 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.29914/0/ ./tmp.mri_nu_correct.mni.29914/nu0.mnc ./tmp.mri_nu_correct.mni.29914/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 33
- CV of field change: 0.000983401
-
-
- --------------------------------------------------------
- Iteration 2 Mon Oct 9 14:32:51 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.29914/nu1.mnc ./tmp.mri_nu_correct.mni.29914/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.29914/1/
- [ntraut@tars-581:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/] [2017-10-09 14:32:51] 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.29914/1/ ./tmp.mri_nu_correct.mni.29914/nu1.mnc ./tmp.mri_nu_correct.mni.29914/nu2.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 23
- CV of field change: 0.000976107
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.29914/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.29914/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-6.0.0/0050185/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.29914/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.29914/ones.mgz
- sysname Linux
- hostname tars-581
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.29914/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.29914/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.29914/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.29914/sum.junk --avgwf ./tmp.mri_nu_correct.mni.29914/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.29914/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.29914/sum.junk --avgwf ./tmp.mri_nu_correct.mni.29914/input.mean.dat
- sysname Linux
- hostname tars-581
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.29914/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.29914/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.29914/ones.mgz --i ./tmp.mri_nu_correct.mni.29914/nu2.mnc --sum ./tmp.mri_nu_correct.mni.29914/sum.junk --avgwf ./tmp.mri_nu_correct.mni.29914/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.29914/ones.mgz --i ./tmp.mri_nu_correct.mni.29914/nu2.mnc --sum ./tmp.mri_nu_correct.mni.29914/sum.junk --avgwf ./tmp.mri_nu_correct.mni.29914/output.mean.dat
- sysname Linux
- hostname tars-581
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.29914/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.29914/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.29914/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.29914/nu2.mnc ./tmp.mri_nu_correct.mni.29914/nu2.mnc mul 1.04253264515252615562
- Saving result to './tmp.mri_nu_correct.mni.29914/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.29914/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.29914/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.29914/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 7 seconds.
- mapping (10, 126) to ( 3, 110)
-
-
- Mon Oct 9 14:34:09 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Mon Oct 9 14:34:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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
- 1.07578 -0.09205 -0.03377 -1.95416;
- 0.05972 1.01790 0.08117 -31.39127;
- 0.04363 0.02743 1.11964 -25.95537;
- 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 = 7
- Starting OpenSpline(): npoints = 7
- 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 90
- gm peak at 66 (66), valley at 28 (28)
- csf peak at 33, setting threshold to 55
- 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 90
- gm peak at 60 (60), valley at 26 (26)
- csf peak at 30, setting threshold to 50
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to T1.mgz
- 3D bias adjustment took 2 minutes and 5 seconds.
- #--------------------------------------------
- #@# Skull Stripping Mon Oct 9 14:36:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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=10.0
- skull bounding box = (45, 13, 34) --> (208, 164, 242)
- using (99, 63, 138) as brain centroid...
- mean wm in atlas = 108, using box (79,44,112) --> (119, 81,163) to find MRI wm
- before smoothing, mri peak at 99
- robust fit to distribution - 100 +- 13.8
- 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 = -4.738
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.358048 @ (-9.091, 27.273, -27.273)
- max log p = -4.274071 @ (4.545, 4.545, -4.545)
- max log p = -4.235654 @ (6.818, -2.273, 6.818)
- max log p = -4.211207 @ (-5.682, 1.136, -1.136)
- max log p = -4.190486 @ (2.841, 1.705, -1.705)
- max log p = -4.190486 @ (0.000, 0.000, 0.000)
- Found translation: (-0.6, 32.4, -27.8): log p = -4.190
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.881, old_max_log_p =-4.190 (thresh=-4.2)
- 1.05465 0.00000 0.13885 -26.69061;
- 0.00000 1.23625 0.00000 6.44898;
- -0.13885 0.00000 1.05465 -18.00681;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.881, old_max_log_p =-3.881 (thresh=-3.9)
- 1.05465 0.00000 0.13885 -26.69061;
- 0.00000 1.23625 0.00000 6.44898;
- -0.13885 0.00000 1.05465 -18.00681;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.2500
- ****************************************
- Nine parameter search. iteration 2 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.789, old_max_log_p =-3.881 (thresh=-3.9)
- 1.12193 0.00000 0.07353 -27.94209;
- 0.00219 1.18925 -0.03343 15.84970;
- -0.06567 0.03820 1.00197 -22.26803;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.789, old_max_log_p =-3.789 (thresh=-3.8)
- 1.12193 0.00000 0.07353 -27.94209;
- 0.00219 1.18925 -0.03343 15.84970;
- -0.06567 0.03820 1.00197 -22.26803;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 4 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.766, old_max_log_p =-3.789 (thresh=-3.8)
- 1.11834 -0.02877 0.08226 -25.51401;
- 0.02907 1.19336 -0.02321 10.10807;
- -0.07475 0.02817 0.99805 -19.46556;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.764, old_max_log_p =-3.766 (thresh=-3.8)
- 1.12096 -0.02884 0.08246 -25.86648;
- 0.02907 1.19336 -0.02321 10.10807;
- -0.07475 0.02817 0.99805 -19.46556;
- 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
- 1.12096 -0.02884 0.08246 -25.86648;
- 0.02907 1.19336 -0.02321 10.10807;
- -0.07475 0.02817 0.99805 -19.46556;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 1.12096 -0.02884 0.08246 -25.86648;
- 0.02907 1.19336 -0.02321 10.10807;
- -0.07475 0.02817 0.99805 -19.46556;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 008: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.12096 -0.02884 0.08246 -25.86648;
- 0.02907 1.19336 -0.02321 10.10807;
- -0.07475 0.02817 0.99805 -19.46556;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.764 (old=-4.738)
- transform before final EM align:
- 1.12096 -0.02884 0.08246 -25.86648;
- 0.02907 1.19336 -0.02321 10.10807;
- -0.07475 0.02817 0.99805 -19.46556;
- 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
- 1.12096 -0.02884 0.08246 -25.86648;
- 0.02907 1.19336 -0.02321 10.10807;
- -0.07475 0.02817 0.99805 -19.46556;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 1.12096 -0.02884 0.08246 -25.86648;
- 0.02907 1.19336 -0.02321 10.10807;
- -0.07475 0.02817 0.99805 -19.46556;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = 4.2 tol 0.000000
- final transform:
- 1.12096 -0.02884 0.08246 -25.86648;
- 0.02907 1.19336 -0.02321 10.10807;
- -0.07475 0.02817 0.99805 -19.46556;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 981.811741
- mri_em_register stimesec 1.089834
- 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 157614
- mri_em_register ru_majflt 0
- mri_em_register ru_nswap 0
- mri_em_register ru_inblock 148912
- 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 127
- mri_em_register ru_nivcsw 2644
- registration took 8 minutes and 35 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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=124 y=87 z=142 r=69
- first estimation of the main basin volume: 1436600 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 15 found in the rest of the brain
- global maximum in x=150, y=70, z=111, 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=7963160112 voxels, voxel volume =1.000
- = 7963160112 mmm3 = 7963160.064 cm3
- done.
- PostAnalyze...Basin Prior
- 99 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=127,y=91, z=131, r=9763 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=0, CSF_intensity=9, CSF_MAX=46 , nb = 45692
- RIGHT_CER CSF_MIN=0, CSF_intensity=9, CSF_MAX=50 , nb = -1042723515
- LEFT_CER CSF_MIN=0, CSF_intensity=9, CSF_MAX=47 , nb = 1088972427
- RIGHT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=45 , nb = 1083699509
- LEFT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=46 , nb = 1073839154
- OTHER CSF_MIN=1, CSF_intensity=2, CSF_MAX=56 , nb = 1074739646
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 46, 35, 26, 57
- after analyzing : 28, 35, 35, 40
- RIGHT_CER
- before analyzing : 50, 36, 26, 57
- after analyzing : 29, 36, 36, 41
- LEFT_CER
- before analyzing : 47, 35, 26, 57
- after analyzing : 28, 35, 35, 40
- RIGHT_BRAIN
- before analyzing : 45, 35, 27, 57
- after analyzing : 28, 35, 35, 40
- LEFT_BRAIN
- before analyzing : 46, 34, 27, 51
- after analyzing : 27, 34, 34, 38
- OTHER
- before analyzing : 56, 36, 26, 57
- after analyzing : 27, 36, 36, 41
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...77 iterations
- *********************VALIDATION*********************
- curvature mean = -0.013, std = 0.011
- curvature mean = 70.946, std = 8.272
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 5.46, sigma = 8.37
- after rotation: sse = 5.46, sigma = 8.37
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 5.87, its var is 7.55
- before Erosion-Dilatation 3.15% of inacurate vertices
- after Erosion-Dilatation 4.41% 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...30 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1685735 voxels, voxel volume = 1.000 mm3
- = 1685735 mmm3 = 1685.735 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 19.913972
- mri_watershed stimesec 0.428934
- mri_watershed ru_maxrss 822160
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 212875
- mri_watershed ru_majflt 0
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 7552
- mri_watershed ru_oublock 2960
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 1448
- mri_watershed ru_nivcsw 81
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Mon Oct 9 14:45:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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=26.0
- skull bounding box = (59, 32, 46) --> (197, 150, 225)
- using (105, 71, 136) as brain centroid...
- mean wm in atlas = 107, using box (88,57,114) --> (121, 85,158) to find MRI wm
- before smoothing, mri peak at 101
- robust fit to distribution - 102 +- 10.6
- 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 = -4.656
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.049865 @ (-9.091, 27.273, -27.273)
- max log p = -3.998822 @ (4.545, 4.545, -4.545)
- max log p = -3.861279 @ (2.273, -2.273, 6.818)
- max log p = -3.831841 @ (3.409, -1.136, 1.136)
- max log p = -3.826409 @ (-2.841, 0.568, -2.841)
- max log p = -3.821031 @ (0.284, -0.284, 1.420)
- Found translation: (-1.4, 28.7, -25.3): log p = -3.821
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.671, old_max_log_p =-3.821 (thresh=-3.8)
- 1.06580 0.00000 0.14032 -28.19690;
- 0.00000 1.15000 0.00000 15.10366;
- -0.12074 0.00000 0.91709 1.02838;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.671, old_max_log_p =-3.671 (thresh=-3.7)
- 1.06580 0.00000 0.14032 -28.19690;
- 0.00000 1.15000 0.00000 15.10366;
- -0.12074 0.00000 0.91709 1.02838;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.2500
- ****************************************
- Nine parameter search. iteration 2 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.526, old_max_log_p =-3.671 (thresh=-3.7)
- 1.04780 -0.07841 0.08228 -11.20010;
- 0.07477 1.12519 -0.02283 8.87904;
- -0.05493 0.04037 0.95820 -18.31270;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.526, old_max_log_p =-3.526 (thresh=-3.5)
- 1.04780 -0.07841 0.08228 -11.20010;
- 0.07477 1.12519 -0.02283 8.87904;
- -0.05493 0.04037 0.95820 -18.31270;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 4 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.513, old_max_log_p =-3.526 (thresh=-3.5)
- 1.04617 -0.06784 0.09737 -13.96620;
- 0.06790 1.12255 -0.05487 14.72078;
- -0.06943 0.07830 0.95323 -19.29616;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.513, old_max_log_p =-3.513 (thresh=-3.5)
- 1.04617 -0.06784 0.09737 -13.96620;
- 0.06782 1.12123 -0.05480 14.84332;
- -0.06943 0.07830 0.95323 -19.29616;
- 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
- 1.04617 -0.06784 0.09737 -13.96620;
- 0.06782 1.12123 -0.05480 14.84332;
- -0.06943 0.07830 0.95323 -19.29616;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 1.04617 -0.06784 0.09737 -13.96620;
- 0.06782 1.12123 -0.05480 14.84332;
- -0.06943 0.07830 0.95323 -19.29616;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 008: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.04617 -0.06784 0.09737 -13.96620;
- 0.06782 1.12123 -0.05480 14.84332;
- -0.06943 0.07830 0.95323 -19.29616;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.513 (old=-4.656)
- transform before final EM align:
- 1.04617 -0.06784 0.09737 -13.96620;
- 0.06782 1.12123 -0.05480 14.84332;
- -0.06943 0.07830 0.95323 -19.29616;
- 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
- 1.04617 -0.06784 0.09737 -13.96620;
- 0.06782 1.12123 -0.05480 14.84332;
- -0.06943 0.07830 0.95323 -19.29616;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 1.04617 -0.06784 0.09737 -13.96620;
- 0.06782 1.12123 -0.05480 14.84332;
- -0.06943 0.07830 0.95323 -19.29616;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = 3.9 tol 0.000000
- final transform:
- 1.04617 -0.06784 0.09737 -13.96620;
- 0.06782 1.12123 -0.05480 14.84332;
- -0.06943 0.07830 0.95323 -19.29616;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 861.447040
- mri_em_register stimesec 1.037842
- 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 158975
- 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 115
- mri_em_register ru_nivcsw 1451
- registration took 7 minutes and 26 seconds.
- #--------------------------------------
- #@# CA Normalize Mon Oct 9 14:52:36 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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=26.0
- skull bounding box = (59, 32, 46) --> (197, 150, 225)
- using (105, 71, 136) as brain centroid...
- mean wm in atlas = 107, using box (88,57,114) --> (121, 85,158) to find MRI wm
- before smoothing, mri peak at 101
- robust fit to distribution - 102 +- 10.6
- 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
- 1.04617 -0.06784 0.09737 -13.96620;
- 0.06782 1.12123 -0.05480 14.84332;
- -0.06943 0.07830 0.95323 -19.29616;
- 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 (124, 31, 49) --> (193, 138, 226)
- Left_Cerebral_White_Matter: limiting intensities to 113.0 --> 132.0
- 9 of 11 (81.8%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (66, 32, 49) --> (131, 142, 224)
- Right_Cerebral_White_Matter: limiting intensities to 101.0 --> 132.0
- 0 of 10 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (133, 106, 70) --> (181, 143, 128)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 6 of 6 (100.0%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (92, 107, 67) --> (134, 145, 127)
- Right_Cerebellum_White_Matter: limiting intensities to 96.0 --> 132.0
- 8 of 12 (66.7%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (114, 101, 104) --> (148, 162, 140)
- Brain_Stem: limiting intensities to 94.0 --> 132.0
- 8 of 23 (34.8%) samples deleted
- using 62 total control points for intensity normalization...
- bias field = 0.880 +- 0.056
- 0 of 31 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (124, 31, 49) --> (193, 138, 226)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 3 of 77 (3.9%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (66, 32, 49) --> (131, 142, 224)
- Right_Cerebral_White_Matter: limiting intensities to 110.0 --> 132.0
- 84 of 99 (84.8%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (133, 106, 70) --> (181, 143, 128)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 44 of 52 (84.6%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (92, 107, 67) --> (134, 145, 127)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 13 of 16 (81.2%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (114, 101, 104) --> (148, 162, 140)
- Brain_Stem: limiting intensities to 93.0 --> 132.0
- 22 of 24 (91.7%) samples deleted
- using 268 total control points for intensity normalization...
- bias field = 1.043 +- 0.091
- 0 of 102 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (124, 31, 49) --> (193, 138, 226)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 27 of 206 (13.1%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (66, 32, 49) --> (131, 142, 224)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 4 of 176 (2.3%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (133, 106, 70) --> (181, 143, 128)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 29 of 32 (90.6%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (92, 107, 67) --> (134, 145, 127)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 24 of 24 (100.0%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (114, 101, 104) --> (148, 162, 140)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 40 of 63 (63.5%) samples deleted
- using 501 total control points for intensity normalization...
- bias field = 1.032 +- 0.072
- 0 of 376 control points discarded
- writing normalized volume to norm.mgz...
- writing control points to ctrl_pts.mgz
- freeing GCA...done.
- normalization took 1 minutes and 52 seconds.
- #--------------------------------------
- #@# CA Reg Mon Oct 9 14:54:28 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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) = 1.13 (predicted orig area = 7.0)
- 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=0.827, neg=0, invalid=762
- 0001: dt=221.952000, rms=0.733 (11.395%), neg=0, invalid=762
- 0002: dt=239.890005, rms=0.710 (3.051%), neg=0, invalid=762
- 0003: dt=191.492063, rms=0.701 (1.366%), neg=0, invalid=762
- 0004: dt=147.348837, rms=0.697 (0.546%), neg=0, invalid=762
- 0005: dt=443.904000, rms=0.691 (0.788%), neg=0, invalid=762
- 0006: dt=129.472000, rms=0.688 (0.469%), neg=0, invalid=762
- 0007: dt=295.936000, rms=0.686 (0.273%), neg=0, invalid=762
- 0008: dt=129.472000, rms=0.684 (0.279%), neg=0, invalid=762
- 0009: dt=369.920000, rms=0.683 (0.199%), neg=0, invalid=762
- 0010: dt=369.920000, rms=0.683 (-0.317%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.684, neg=0, invalid=762
- 0011: dt=129.472000, rms=0.681 (0.351%), neg=0, invalid=762
- 0012: dt=517.888000, rms=0.680 (0.214%), neg=0, invalid=762
- 0013: dt=517.888000, rms=0.678 (0.303%), neg=0, invalid=762
- 0014: dt=517.888000, rms=0.676 (0.246%), neg=0, invalid=762
- 0015: dt=517.888000, rms=0.674 (0.348%), neg=0, invalid=762
- 0016: dt=517.888000, rms=0.673 (0.142%), neg=0, invalid=762
- 0017: dt=517.888000, rms=0.672 (0.115%), neg=0, invalid=762
- 0018: dt=517.888000, rms=0.672 (-0.706%), neg=0, invalid=762
- 0019: dt=110.976000, rms=0.668 (0.582%), neg=0, invalid=762
- 0020: dt=129.472000, rms=0.668 (0.028%), neg=0, invalid=762
- 0021: dt=129.472000, rms=0.668 (0.014%), neg=0, invalid=762
- 0022: dt=129.472000, rms=0.668 (0.029%), neg=0, invalid=762
- 0023: dt=129.472000, rms=0.667 (0.037%), neg=0, invalid=762
- 0024: dt=129.472000, rms=0.667 (0.045%), neg=0, invalid=762
- 0025: dt=129.472000, rms=0.667 (0.057%), neg=0, invalid=762
- 0026: dt=129.472000, rms=0.666 (0.047%), neg=0, invalid=762
- 0027: dt=129.472000, rms=0.666 (0.053%), neg=0, invalid=762
- 0028: dt=129.472000, rms=0.666 (0.054%), neg=0, invalid=762
- 0029: dt=129.472000, rms=0.665 (0.063%), neg=0, invalid=762
- 0030: dt=129.472000, rms=0.665 (0.070%), neg=0, invalid=762
- 0031: dt=129.472000, rms=0.664 (0.077%), neg=0, invalid=762
- 0032: dt=129.472000, rms=0.664 (0.081%), neg=0, invalid=762
- 0033: dt=129.472000, rms=0.663 (0.079%), neg=0, invalid=762
- 0034: dt=1183.744000, rms=0.663 (0.057%), neg=0, invalid=762
- setting smoothness coefficient to 0.154
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.667, neg=0, invalid=762
- 0035: dt=145.152000, rms=0.659 (1.241%), neg=0, invalid=762
- 0036: dt=112.781759, rms=0.652 (1.092%), neg=0, invalid=762
- 0037: dt=64.372816, rms=0.649 (0.454%), neg=0, invalid=762
- 0038: dt=331.776000, rms=0.641 (1.210%), neg=0, invalid=762
- 0039: dt=53.204819, rms=0.638 (0.521%), neg=0, invalid=762
- 0040: dt=580.608000, rms=0.630 (1.237%), neg=0, invalid=762
- 0041: dt=36.288000, rms=0.628 (0.260%), neg=0, invalid=762
- 0042: dt=82.944000, rms=0.628 (0.084%), neg=0, invalid=762
- 0043: dt=82.944000, rms=0.627 (0.119%), neg=0, invalid=762
- 0044: dt=82.944000, rms=0.626 (0.177%), neg=0, invalid=762
- 0045: dt=82.944000, rms=0.624 (0.266%), neg=0, invalid=762
- 0046: dt=82.944000, rms=0.622 (0.298%), neg=0, invalid=762
- 0047: dt=82.944000, rms=0.620 (0.347%), neg=0, invalid=762
- 0048: dt=82.944000, rms=0.618 (0.286%), neg=0, invalid=762
- 0049: dt=82.944000, rms=0.617 (0.275%), neg=0, invalid=762
- 0050: dt=82.944000, rms=0.615 (0.265%), neg=0, invalid=762
- 0051: dt=82.944000, rms=0.613 (0.243%), neg=0, invalid=762
- 0052: dt=82.944000, rms=0.612 (0.195%), neg=0, invalid=762
- 0053: dt=82.944000, rms=0.611 (0.177%), neg=0, invalid=762
- 0054: dt=82.944000, rms=0.610 (0.166%), neg=0, invalid=762
- 0055: dt=82.944000, rms=0.609 (0.147%), neg=0, invalid=762
- 0056: dt=82.944000, rms=0.608 (0.129%), neg=0, invalid=762
- 0057: dt=82.944000, rms=0.608 (0.105%), neg=0, invalid=762
- 0058: dt=82.944000, rms=0.607 (0.102%), neg=0, invalid=762
- 0059: dt=36.288000, rms=0.607 (0.002%), neg=0, invalid=762
- 0060: dt=36.288000, rms=0.607 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.608, neg=0, invalid=762
- 0061: dt=36.288000, rms=0.607 (0.243%), neg=0, invalid=762
- 0062: dt=36.288000, rms=0.606 (0.022%), neg=0, invalid=762
- 0063: dt=36.288000, rms=0.606 (0.005%), neg=0, invalid=762
- 0064: dt=36.288000, rms=0.606 (-0.001%), neg=0, invalid=762
- setting smoothness coefficient to 0.588
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.633, neg=0, invalid=762
- 0065: dt=11.200000, rms=0.631 (0.297%), neg=0, invalid=762
- 0066: dt=2.800000, rms=0.631 (0.006%), neg=0, invalid=762
- 0067: dt=2.800000, rms=0.631 (0.006%), neg=0, invalid=762
- 0068: dt=2.800000, rms=0.631 (-0.023%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.632, neg=0, invalid=762
- 0069: dt=0.000000, rms=0.631 (0.138%), neg=0, invalid=762
- 0070: dt=0.000000, rms=0.631 (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=0.693, neg=0, invalid=762
- 0071: dt=6.539130, rms=0.674 (2.817%), neg=0, invalid=762
- 0072: dt=4.875000, rms=0.672 (0.189%), neg=0, invalid=762
- 0073: dt=4.875000, rms=0.672 (-0.004%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.673, neg=0, invalid=762
- 0074: dt=0.000000, rms=0.672 (0.115%), neg=0, invalid=762
- 0075: dt=0.000000, rms=0.672 (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=0.725, neg=0, invalid=762
- 0076: dt=0.448000, rms=0.723 (0.202%), neg=0, invalid=762
- 0077: dt=1.024000, rms=0.723 (0.124%), neg=0, invalid=762
- 0078: dt=1.024000, rms=0.720 (0.290%), neg=0, invalid=762
- 0079: dt=1.024000, rms=0.719 (0.217%), neg=0, invalid=762
- 0080: dt=1.024000, rms=0.719 (-0.101%), neg=0, invalid=762
- 0081: dt=1.792000, rms=0.718 (0.127%), neg=0, invalid=762
- 0082: dt=4.096000, rms=0.715 (0.351%), neg=0, invalid=762
- 0083: dt=0.000000, rms=0.715 (-0.000%), neg=0, invalid=762
- 0084: dt=0.100000, rms=0.715 (-0.005%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.716, neg=0, invalid=762
- 0085: dt=0.256000, rms=0.715 (0.121%), neg=0, invalid=762
- 0086: dt=0.112000, rms=0.715 (0.001%), neg=0, invalid=762
- 0087: dt=0.112000, rms=0.715 (-0.000%), 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=0.677, neg=0, invalid=762
- 0088: dt=0.712121, rms=0.663 (2.102%), neg=0, invalid=762
- 0089: dt=0.064000, rms=0.662 (0.094%), neg=0, invalid=762
- 0090: dt=0.064000, rms=0.662 (-0.051%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.663, neg=0, invalid=762
- 0091: dt=0.048000, rms=0.662 (0.154%), neg=0, invalid=762
- 0092: dt=0.007000, rms=0.662 (0.001%), neg=0, invalid=762
- 0093: dt=0.007000, rms=0.662 (-0.001%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.05303 (28)
- Left_Lateral_Ventricle (4): linear fit = 1.37 x + 0.0 (710 voxels, overlap=0.297)
- Left_Lateral_Ventricle (4): linear fit = 1.37 x + 0.0 (710 voxels, peak = 27), gca=27.3
- gca peak = 0.15565 (16)
- mri peak = 0.05376 (27)
- Right_Lateral_Ventricle (43): linear fit = 1.84 x + 0.0 (626 voxels, overlap=0.226)
- Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (626 voxels, peak = 29), gca=24.0
- gca peak = 0.26829 (96)
- mri peak = 0.06914 (89)
- Right_Pallidum (52): linear fit = 0.92 x + 0.0 (594 voxels, overlap=0.944)
- Right_Pallidum (52): linear fit = 0.92 x + 0.0 (594 voxels, peak = 88), gca=87.8
- gca peak = 0.20183 (93)
- mri peak = 0.06631 (86)
- Left_Pallidum (13): linear fit = 0.93 x + 0.0 (476 voxels, overlap=0.841)
- Left_Pallidum (13): linear fit = 0.93 x + 0.0 (476 voxels, peak = 86), gca=86.0
- gca peak = 0.21683 (55)
- mri peak = 0.05205 (53)
- Right_Hippocampus (53): linear fit = 1.14 x + 0.0 (488 voxels, overlap=0.824)
- Right_Hippocampus (53): linear fit = 1.14 x + 0.0 (488 voxels, peak = 63), gca=63.0
- gca peak = 0.30730 (58)
- mri peak = 0.06334 (70)
- Left_Hippocampus (17): linear fit = 1.22 x + 0.0 (559 voxels, overlap=0.311)
- Left_Hippocampus (17): linear fit = 1.22 x + 0.0 (559 voxels, peak = 70), gca=70.5
- gca peak = 0.11430 (101)
- mri peak = 0.05490 (101)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (52710 voxels, overlap=0.937)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (52710 voxels, peak = 104), gca=103.5
- gca peak = 0.12076 (102)
- mri peak = 0.04880 (105)
- Left_Cerebral_White_Matter (2): linear fit = 1.03 x + 0.0 (50120 voxels, overlap=0.878)
- Left_Cerebral_White_Matter (2): linear fit = 1.03 x + 0.0 (50120 voxels, peak = 106), gca=105.6
- gca peak = 0.14995 (59)
- mri peak = 0.03186 (64)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (17704 voxels, overlap=0.973)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (17704 voxels, peak = 60), gca=60.5
- gca peak = 0.15082 (58)
- mri peak = 0.03164 (58)
- Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (19166 voxels, overlap=0.992)
- Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (19166 voxels, peak = 59), gca=59.4
- gca peak = 0.14161 (67)
- mri peak = 0.05215 (76)
- Right_Caudate (50): linear fit = 1.12 x + 0.0 (902 voxels, overlap=0.602)
- Right_Caudate (50): linear fit = 1.12 x + 0.0 (902 voxels, peak = 75), gca=74.7
- gca peak = 0.15243 (71)
- mri peak = 0.07101 (75)
- Left_Caudate (11): linear fit = 1.09 x + 0.0 (873 voxels, overlap=0.785)
- Left_Caudate (11): linear fit = 1.09 x + 0.0 (873 voxels, peak = 77), gca=77.0
- gca peak = 0.13336 (57)
- mri peak = 0.03548 (52)
- Left_Cerebellum_Cortex (8): linear fit = 0.96 x + 0.0 (17388 voxels, overlap=0.985)
- Left_Cerebellum_Cortex (8): linear fit = 0.96 x + 0.0 (17388 voxels, peak = 55), gca=55.0
- gca peak = 0.13252 (56)
- mri peak = 0.03214 (53)
- Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (18380 voxels, overlap=0.916)
- Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (18380 voxels, peak = 55), gca=55.2
- gca peak = 0.18181 (84)
- mri peak = 0.03207 (77)
- Left_Cerebellum_White_Matter (7): linear fit = 0.96 x + 0.0 (7101 voxels, overlap=0.584)
- Left_Cerebellum_White_Matter (7): linear fit = 0.96 x + 0.0 (7101 voxels, peak = 81), gca=81.1
- gca peak = 0.20573 (83)
- mri peak = 0.03047 (74)
- Right_Cerebellum_White_Matter (46): linear fit = 0.93 x + 0.0 (4879 voxels, overlap=0.164)
- Right_Cerebellum_White_Matter (46): linear fit = 0.93 x + 0.0 (4879 voxels, peak = 77), gca=76.8
- gca peak = 0.21969 (57)
- mri peak = 0.11297 (65)
- Left_Amygdala (18): linear fit = 1.12 x + 0.0 (269 voxels, overlap=0.979)
- Left_Amygdala (18): linear fit = 1.12 x + 0.0 (269 voxels, peak = 64), gca=63.6
- gca peak = 0.39313 (56)
- mri peak = 0.15430 (50)
- Right_Amygdala: unreasonable value (49.0/50.0), not in range [50, 90] - rejecting
- gca peak = 0.14181 (85)
- mri peak = 0.03875 (93)
- Left_Thalamus_Proper (10): linear fit = 1.09 x + 0.0 (4977 voxels, overlap=0.765)
- Left_Thalamus_Proper (10): linear fit = 1.09 x + 0.0 (4977 voxels, peak = 92), gca=92.2
- gca peak = 0.11978 (83)
- mri peak = 0.04222 (89)
- Right_Thalamus_Proper (49): linear fit = 1.12 x + 0.0 (4024 voxels, overlap=0.806)
- Right_Thalamus_Proper (49): linear fit = 1.12 x + 0.0 (4024 voxels, peak = 93), gca=92.5
- gca peak = 0.13399 (79)
- mri peak = 0.05787 (78)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1904 voxels, overlap=0.997)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1904 voxels, peak = 79), gca=78.6
- gca peak = 0.14159 (79)
- mri peak = 0.05992 (76)
- Right_Putamen (51): linear fit = 0.94 x + 0.0 (1993 voxels, overlap=0.990)
- Right_Putamen (51): linear fit = 0.94 x + 0.0 (1993 voxels, peak = 75), gca=74.7
- gca peak = 0.10025 (80)
- mri peak = 0.05812 (82)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (5966 voxels, overlap=0.403)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (5966 voxels, peak = 88), gca=87.6
- gca peak = 0.13281 (86)
- mri peak = 0.06870 (87)
- Right_VentralDC (60): linear fit = 1.03 x + 0.0 (835 voxels, overlap=0.727)
- Right_VentralDC (60): linear fit = 1.03 x + 0.0 (835 voxels, peak = 89), gca=89.0
- gca peak = 0.12801 (89)
- mri peak = 0.05263 (88)
- Left_VentralDC (28): linear fit = 1.10 x + 0.0 (881 voxels, overlap=0.672)
- Left_VentralDC (28): linear fit = 1.10 x + 0.0 (881 voxels, peak = 97), gca=97.5
- gca peak = 0.20494 (23)
- uniform distribution in MR - rejecting arbitrary fit
- gca peak = 0.15061 (21)
- mri peak = 0.10829 (55)
- Fourth_Ventricle (15): linear fit = 2.57 x + 0.0 (310 voxels, overlap=0.025)
- Fourth_Ventricle (15): linear fit = 2.57 x + 0.0 (310 voxels, peak = 54), gca=53.9
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.18056 (32)
- gca peak Left_Thalamus = 0.64095 (94)
- gca peak Third_Ventricle = 0.20494 (23)
- gca peak Fourth_Ventricle = 0.15061 (21)
- 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_Amygdala = 0.39313 (56)
- 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
- setting label Right_Amygdala based on Left_Amygdala = 1.12 x + 0: 64
- estimating mean gm scale to be 1.11 x + 0.0
- estimating mean wm scale to be 1.03 x + 0.0
- estimating mean csf scale to be 1.43 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=0.670, neg=0, invalid=762
- 0094: dt=132.740741, rms=0.663 (0.992%), neg=0, invalid=762
- 0095: dt=295.936000, rms=0.661 (0.382%), neg=0, invalid=762
- 0096: dt=295.936000, rms=0.657 (0.573%), neg=0, invalid=762
- 0097: dt=55.488000, rms=0.656 (0.087%), neg=0, invalid=762
- 0098: dt=92.480000, rms=0.656 (0.042%), neg=0, invalid=762
- 0099: dt=92.480000, rms=0.655 (0.091%), neg=0, invalid=762
- 0100: dt=92.480000, rms=0.655 (0.143%), neg=0, invalid=762
- 0101: dt=92.480000, rms=0.653 (0.173%), neg=0, invalid=762
- 0102: dt=92.480000, rms=0.652 (0.180%), neg=0, invalid=762
- 0103: dt=92.480000, rms=0.651 (0.178%), neg=0, invalid=762
- 0104: dt=92.480000, rms=0.650 (0.152%), neg=0, invalid=762
- 0105: dt=92.480000, rms=0.649 (0.154%), neg=0, invalid=762
- 0106: dt=92.480000, rms=0.648 (0.136%), neg=0, invalid=762
- 0107: dt=92.480000, rms=0.647 (0.114%), neg=0, invalid=762
- 0108: dt=92.480000, rms=0.647 (0.087%), neg=0, invalid=762
- 0109: dt=92.480000, rms=0.646 (0.085%), neg=0, invalid=762
- 0110: dt=92.480000, rms=0.646 (0.082%), neg=0, invalid=762
- 0111: dt=92.480000, rms=0.645 (0.075%), neg=0, invalid=762
- 0112: dt=92.480000, rms=0.645 (0.075%), neg=0, invalid=762
- 0113: dt=92.480000, rms=0.644 (0.062%), neg=0, invalid=762
- 0114: dt=92.480000, rms=0.644 (0.061%), neg=0, invalid=762
- 0115: dt=92.480000, rms=0.644 (0.069%), neg=0, invalid=762
- 0116: dt=92.480000, rms=0.643 (0.082%), neg=0, invalid=762
- 0117: dt=92.480000, rms=0.643 (0.081%), neg=0, invalid=762
- 0118: dt=92.480000, rms=0.642 (0.075%), neg=0, invalid=762
- 0119: dt=92.480000, rms=0.642 (0.073%), neg=0, invalid=762
- 0120: dt=92.480000, rms=0.641 (0.070%), neg=0, invalid=762
- 0121: dt=92.480000, rms=0.641 (0.074%), neg=0, invalid=762
- 0122: dt=92.480000, rms=0.640 (0.078%), neg=0, invalid=762
- 0123: dt=92.480000, rms=0.640 (0.077%), neg=0, invalid=762
- 0124: dt=92.480000, rms=0.639 (0.074%), neg=0, invalid=762
- 0125: dt=92.480000, rms=0.639 (0.069%), neg=0, invalid=762
- 0126: dt=92.480000, rms=0.638 (0.059%), neg=0, invalid=762
- 0127: dt=92.480000, rms=0.638 (0.058%), neg=0, invalid=762
- 0128: dt=92.480000, rms=0.638 (0.056%), neg=0, invalid=762
- 0129: dt=92.480000, rms=0.637 (0.057%), neg=0, invalid=762
- 0130: dt=92.480000, rms=0.637 (0.046%), neg=0, invalid=762
- 0131: dt=92.480000, rms=0.637 (0.045%), neg=0, invalid=762
- 0132: dt=92.480000, rms=0.636 (0.039%), neg=0, invalid=762
- 0133: dt=92.480000, rms=0.636 (0.039%), neg=0, invalid=762
- 0134: dt=92.480000, rms=0.636 (0.036%), neg=0, invalid=762
- 0135: dt=92.480000, rms=0.636 (0.036%), neg=0, invalid=762
- 0136: dt=92.480000, rms=0.635 (0.043%), neg=0, invalid=762
- 0137: dt=92.480000, rms=0.635 (0.038%), neg=0, invalid=762
- 0138: dt=92.480000, rms=0.635 (0.037%), neg=0, invalid=762
- 0139: dt=92.480000, rms=0.635 (0.033%), neg=0, invalid=762
- 0140: dt=92.480000, rms=0.635 (0.032%), neg=0, invalid=762
- 0141: dt=92.480000, rms=0.634 (0.034%), neg=0, invalid=762
- 0142: dt=92.480000, rms=0.634 (0.031%), neg=0, invalid=762
- 0143: dt=92.480000, rms=0.634 (0.031%), neg=0, invalid=762
- 0144: dt=92.480000, rms=0.634 (0.025%), neg=0, invalid=762
- 0145: dt=92.480000, rms=0.634 (0.027%), neg=0, invalid=762
- 0146: dt=92.480000, rms=0.634 (0.025%), neg=0, invalid=762
- 0147: dt=92.480000, rms=0.633 (0.024%), neg=0, invalid=762
- 0148: dt=92.480000, rms=0.633 (0.024%), neg=0, invalid=762
- 0149: dt=92.480000, rms=0.633 (0.023%), neg=0, invalid=762
- 0150: dt=3551.232000, rms=0.633 (0.082%), neg=0, invalid=762
- 0151: dt=32.368000, rms=0.632 (0.006%), neg=0, invalid=762
- 0152: dt=32.368000, rms=0.633 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.633, neg=0, invalid=762
- 0153: dt=110.976000, rms=0.632 (0.167%), neg=0, invalid=762
- 0154: dt=129.472000, rms=0.632 (0.011%), neg=0, invalid=762
- 0155: dt=129.472000, rms=0.632 (0.015%), neg=0, invalid=762
- 0156: dt=129.472000, rms=0.632 (0.019%), neg=0, invalid=762
- 0157: dt=129.472000, rms=0.632 (0.012%), neg=0, invalid=762
- 0158: dt=129.472000, rms=0.632 (0.019%), neg=0, invalid=762
- 0159: dt=129.472000, rms=0.632 (0.026%), neg=0, invalid=762
- 0160: dt=129.472000, rms=0.631 (0.038%), neg=0, invalid=762
- 0161: dt=129.472000, rms=0.631 (0.036%), neg=0, invalid=762
- 0162: dt=129.472000, rms=0.631 (0.028%), neg=0, invalid=762
- 0163: dt=129.472000, rms=0.631 (0.024%), neg=0, invalid=762
- 0164: dt=129.472000, rms=0.631 (0.027%), neg=0, invalid=762
- 0165: dt=129.472000, rms=0.631 (0.030%), neg=0, invalid=762
- 0166: dt=129.472000, rms=0.630 (0.027%), neg=0, invalid=762
- 0167: dt=129.472000, rms=0.630 (0.024%), neg=0, invalid=762
- 0168: dt=129.472000, rms=0.630 (0.020%), neg=0, invalid=762
- 0169: dt=1183.744000, rms=0.630 (0.034%), neg=0, invalid=762
- 0170: dt=18.496000, rms=0.630 (-0.002%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.632, neg=0, invalid=762
- 0171: dt=124.416000, rms=0.627 (0.744%), neg=0, invalid=762
- 0172: dt=130.790191, rms=0.621 (0.924%), neg=0, invalid=762
- 0173: dt=61.714286, rms=0.619 (0.336%), neg=0, invalid=762
- 0174: dt=331.776000, rms=0.613 (1.049%), neg=0, invalid=762
- 0175: dt=45.827160, rms=0.610 (0.409%), neg=0, invalid=762
- 0176: dt=331.776000, rms=0.608 (0.364%), neg=0, invalid=762
- 0177: dt=81.597811, rms=0.604 (0.644%), neg=0, invalid=762
- 0178: dt=36.288000, rms=0.604 (0.047%), neg=0, invalid=762
- 0179: dt=36.288000, rms=0.603 (0.043%), neg=0, invalid=762
- 0180: dt=36.288000, rms=0.603 (0.085%), neg=0, invalid=762
- 0181: dt=36.288000, rms=0.602 (0.152%), neg=0, invalid=762
- 0182: dt=36.288000, rms=0.601 (0.228%), neg=0, invalid=762
- 0183: dt=36.288000, rms=0.599 (0.257%), neg=0, invalid=762
- 0184: dt=36.288000, rms=0.598 (0.251%), neg=0, invalid=762
- 0185: dt=36.288000, rms=0.596 (0.237%), neg=0, invalid=762
- 0186: dt=36.288000, rms=0.595 (0.216%), neg=0, invalid=762
- 0187: dt=36.288000, rms=0.594 (0.197%), neg=0, invalid=762
- 0188: dt=36.288000, rms=0.593 (0.194%), neg=0, invalid=762
- 0189: dt=36.288000, rms=0.591 (0.200%), neg=0, invalid=762
- 0190: dt=36.288000, rms=0.590 (0.189%), neg=0, invalid=762
- 0191: dt=36.288000, rms=0.589 (0.165%), neg=0, invalid=762
- 0192: dt=36.288000, rms=0.588 (0.143%), neg=0, invalid=762
- 0193: dt=36.288000, rms=0.588 (0.127%), neg=0, invalid=762
- 0194: dt=36.288000, rms=0.587 (0.111%), neg=0, invalid=762
- 0195: dt=36.288000, rms=0.586 (0.117%), neg=0, invalid=762
- 0196: dt=36.288000, rms=0.586 (0.038%), neg=0, invalid=762
- 0197: dt=36.288000, rms=0.586 (0.051%), neg=0, invalid=762
- 0198: dt=36.288000, rms=0.586 (0.046%), neg=0, invalid=762
- 0199: dt=36.288000, rms=0.585 (0.048%), neg=0, invalid=762
- 0200: dt=36.288000, rms=0.585 (0.044%), neg=0, invalid=762
- 0201: dt=36.288000, rms=0.585 (0.050%), neg=0, invalid=762
- 0202: dt=36.288000, rms=0.584 (0.073%), neg=0, invalid=762
- 0203: dt=36.288000, rms=0.584 (0.081%), neg=0, invalid=762
- 0204: dt=36.288000, rms=0.583 (0.077%), neg=0, invalid=762
- 0205: dt=36.288000, rms=0.583 (0.076%), neg=0, invalid=762
- 0206: dt=36.288000, rms=0.583 (0.067%), neg=0, invalid=762
- 0207: dt=36.288000, rms=0.582 (0.064%), neg=0, invalid=762
- 0208: dt=36.288000, rms=0.582 (0.068%), neg=0, invalid=762
- 0209: dt=36.288000, rms=0.581 (0.079%), neg=0, invalid=762
- 0210: dt=36.288000, rms=0.581 (0.080%), neg=0, invalid=762
- 0211: dt=36.288000, rms=0.581 (0.007%), neg=0, invalid=762
- 0212: dt=36.288000, rms=0.581 (0.015%), neg=0, invalid=762
- 0213: dt=36.288000, rms=0.581 (0.027%), neg=0, invalid=762
- 0214: dt=36.288000, rms=0.581 (0.011%), neg=0, invalid=762
- 0215: dt=36.288000, rms=0.580 (0.012%), neg=0, invalid=762
- 0216: dt=18.144000, rms=0.580 (0.005%), neg=0, invalid=762
- 0217: dt=9.072000, rms=0.580 (0.005%), neg=0, invalid=762
- 0218: dt=1.134000, rms=0.580 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.582, neg=0, invalid=762
- 0219: dt=112.829630, rms=0.579 (0.479%), neg=0, invalid=762
- 0220: dt=62.208000, rms=0.578 (0.094%), neg=0, invalid=762
- 0221: dt=124.416000, rms=0.578 (0.118%), neg=0, invalid=762
- 0222: dt=103.680000, rms=0.577 (0.043%), neg=0, invalid=762
- 0223: dt=103.680000, rms=0.577 (0.070%), neg=0, invalid=762
- 0224: dt=103.680000, rms=0.576 (0.110%), neg=0, invalid=762
- 0225: dt=103.680000, rms=0.576 (0.066%), neg=0, invalid=762
- 0226: dt=103.680000, rms=0.575 (0.142%), neg=0, invalid=762
- 0227: dt=103.680000, rms=0.574 (0.096%), neg=0, invalid=762
- 0228: dt=103.680000, rms=0.574 (0.091%), neg=0, invalid=762
- 0229: dt=103.680000, rms=0.573 (0.102%), neg=0, invalid=762
- 0230: dt=103.680000, rms=0.573 (0.124%), neg=0, invalid=762
- 0231: dt=103.680000, rms=0.572 (0.116%), neg=0, invalid=762
- 0232: dt=103.680000, rms=0.572 (0.078%), neg=0, invalid=762
- 0233: dt=103.680000, rms=0.571 (0.151%), neg=0, invalid=762
- 0234: dt=103.680000, rms=0.570 (0.121%), neg=0, invalid=762
- 0235: dt=103.680000, rms=0.569 (0.105%), neg=0, invalid=762
- 0236: dt=103.680000, rms=0.569 (0.120%), neg=0, invalid=762
- 0237: dt=103.680000, rms=0.568 (0.103%), neg=0, invalid=762
- 0238: dt=103.680000, rms=0.568 (0.098%), neg=0, invalid=762
- 0239: dt=103.680000, rms=0.567 (0.075%), neg=0, invalid=762
- 0240: dt=103.680000, rms=0.567 (0.089%), neg=0, invalid=762
- 0241: dt=103.680000, rms=0.566 (0.091%), neg=0, invalid=762
- 0242: dt=103.680000, rms=0.566 (0.083%), neg=0, invalid=762
- 0243: dt=103.680000, rms=0.565 (0.095%), neg=0, invalid=762
- 0244: dt=103.680000, rms=0.565 (0.083%), neg=0, invalid=762
- 0245: dt=103.680000, rms=0.564 (0.079%), neg=0, invalid=762
- 0246: dt=103.680000, rms=0.564 (0.083%), neg=0, invalid=762
- 0247: dt=103.680000, rms=0.563 (0.084%), neg=0, invalid=762
- 0248: dt=103.680000, rms=0.563 (0.077%), neg=0, invalid=762
- 0249: dt=103.680000, rms=0.562 (0.084%), neg=0, invalid=762
- 0250: dt=103.680000, rms=0.562 (0.068%), neg=0, invalid=762
- 0251: dt=103.680000, rms=0.562 (0.049%), neg=0, invalid=762
- 0252: dt=103.680000, rms=0.561 (0.088%), neg=0, invalid=762
- 0253: dt=103.680000, rms=0.561 (0.072%), neg=0, invalid=762
- 0254: dt=103.680000, rms=0.561 (0.039%), neg=0, invalid=762
- 0255: dt=103.680000, rms=0.560 (0.053%), neg=0, invalid=762
- 0256: dt=103.680000, rms=0.560 (0.069%), neg=0, invalid=762
- 0257: dt=103.680000, rms=0.560 (0.049%), neg=0, invalid=762
- 0258: dt=103.680000, rms=0.559 (0.046%), neg=0, invalid=762
- 0259: dt=103.680000, rms=0.559 (0.046%), neg=0, invalid=762
- 0260: dt=103.680000, rms=0.559 (0.032%), neg=0, invalid=762
- 0261: dt=103.680000, rms=0.559 (0.038%), neg=0, invalid=762
- 0262: dt=103.680000, rms=0.558 (0.046%), neg=0, invalid=762
- 0263: dt=103.680000, rms=0.558 (0.031%), neg=0, invalid=762
- 0264: dt=103.680000, rms=0.558 (0.034%), neg=0, invalid=762
- 0265: dt=103.680000, rms=0.558 (0.033%), neg=0, invalid=762
- 0266: dt=103.680000, rms=0.558 (0.029%), neg=0, invalid=762
- 0267: dt=103.680000, rms=0.558 (0.023%), neg=0, invalid=762
- 0268: dt=103.680000, rms=0.557 (0.025%), neg=0, invalid=762
- 0269: dt=103.680000, rms=0.557 (0.026%), neg=0, invalid=762
- 0270: dt=103.680000, rms=0.557 (0.035%), neg=0, invalid=762
- 0271: dt=103.680000, rms=0.557 (0.028%), neg=0, invalid=762
- 0272: dt=103.680000, rms=0.557 (0.034%), neg=0, invalid=762
- 0273: dt=103.680000, rms=0.557 (0.036%), neg=0, invalid=762
- 0274: dt=103.680000, rms=0.556 (0.019%), neg=0, invalid=762
- 0275: dt=103.680000, rms=0.556 (0.029%), neg=0, invalid=762
- 0276: dt=103.680000, rms=0.556 (0.042%), neg=0, invalid=762
- 0277: dt=103.680000, rms=0.556 (0.025%), neg=0, invalid=762
- 0278: dt=103.680000, rms=0.556 (0.022%), neg=0, invalid=762
- 0279: dt=145.152000, rms=0.556 (0.016%), neg=0, invalid=762
- 0280: dt=145.152000, rms=0.556 (-0.065%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.565, neg=0, invalid=762
- 0281: dt=11.200000, rms=0.564 (0.285%), neg=0, invalid=762
- 0282: dt=19.200000, rms=0.563 (0.074%), neg=0, invalid=762
- 0283: dt=44.800000, rms=0.562 (0.173%), neg=0, invalid=762
- 0284: dt=179.200000, rms=0.558 (0.780%), neg=0, invalid=762
- 0285: dt=71.111111, rms=0.555 (0.540%), neg=0, invalid=762
- 0286: dt=32.000000, rms=0.553 (0.345%), neg=0, invalid=762
- 0287: dt=38.400000, rms=0.552 (0.236%), neg=0, invalid=762
- 0288: dt=2.800000, rms=0.551 (0.029%), neg=0, invalid=762
- 0289: dt=0.700000, rms=0.551 (0.003%), neg=0, invalid=762
- 0290: dt=0.350000, rms=0.551 (0.002%), neg=0, invalid=762
- 0291: dt=0.175000, rms=0.551 (0.001%), neg=0, invalid=762
- 0292: dt=0.043750, rms=0.551 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.553, neg=0, invalid=762
- 0293: dt=38.400000, rms=0.549 (0.596%), neg=0, invalid=762
- 0294: dt=32.000000, rms=0.549 (0.133%), neg=0, invalid=762
- 0295: dt=44.800000, rms=0.548 (0.186%), neg=0, invalid=762
- 0296: dt=11.200000, rms=0.547 (0.040%), neg=0, invalid=762
- 0297: dt=11.200000, rms=0.547 (0.033%), neg=0, invalid=762
- 0298: dt=11.200000, rms=0.547 (0.041%), neg=0, invalid=762
- 0299: dt=11.200000, rms=0.547 (0.066%), neg=0, invalid=762
- 0300: dt=11.200000, rms=0.546 (0.105%), neg=0, invalid=762
- 0301: dt=11.200000, rms=0.546 (0.034%), neg=0, invalid=762
- 0302: dt=11.200000, rms=0.545 (0.056%), neg=0, invalid=762
- 0303: dt=11.200000, rms=0.545 (0.020%), neg=0, invalid=762
- 0304: dt=0.700000, rms=0.545 (0.004%), neg=0, invalid=762
- 0305: dt=0.175000, rms=0.545 (0.000%), neg=0, invalid=762
- 0306: dt=0.087500, rms=0.545 (0.000%), neg=0, invalid=762
- 0307: dt=0.043750, rms=0.545 (0.000%), neg=0, invalid=762
- 0308: dt=0.005469, rms=0.545 (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=0.563, neg=0, invalid=762
- 0309: dt=1.008000, rms=0.562 (0.175%), neg=0, invalid=762
- 0310: dt=0.720000, rms=0.562 (0.002%), neg=0, invalid=762
- 0311: dt=0.720000, rms=0.562 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.563, neg=0, invalid=762
- 0312: dt=0.000000, rms=0.562 (0.166%), neg=0, invalid=762
- 0313: dt=0.000000, rms=0.562 (0.000%), neg=0, invalid=762
- 0314: dt=0.150000, rms=0.562 (-0.001%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.596, neg=0, invalid=762
- 0315: dt=2.229167, rms=0.591 (0.919%), neg=0, invalid=762
- 0316: dt=1.024000, rms=0.591 (0.049%), neg=0, invalid=762
- 0317: dt=1.024000, rms=0.591 (-0.012%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.591, neg=0, invalid=762
- 0318: dt=2.113636, rms=0.588 (0.532%), neg=0, invalid=762
- 0319: dt=1.792000, rms=0.588 (0.081%), neg=0, invalid=762
- 0320: dt=0.768000, rms=0.588 (0.006%), neg=0, invalid=762
- 0321: dt=0.768000, rms=0.588 (-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=0.561, neg=0, invalid=762
- 0322: dt=0.448000, rms=0.547 (2.480%), neg=0, invalid=762
- 0323: dt=1.536000, rms=0.536 (2.027%), neg=0, invalid=762
- 0324: dt=0.000000, rms=0.536 (0.003%), neg=0, invalid=762
- 0325: dt=0.050000, rms=0.536 (-0.015%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.537, neg=0, invalid=762
- 0326: dt=0.448000, rms=0.530 (1.253%), neg=0, invalid=762
- 0327: dt=0.448000, rms=0.530 (0.088%), neg=0, invalid=762
- 0328: dt=0.448000, rms=0.530 (0.066%), neg=0, invalid=762
- 0329: dt=0.448000, rms=0.529 (0.031%), neg=0, invalid=762
- 0330: dt=0.448000, rms=0.529 (0.031%), neg=0, invalid=762
- 0331: dt=0.448000, rms=0.529 (0.054%), neg=0, invalid=762
- 0332: dt=0.448000, rms=0.529 (0.067%), neg=0, invalid=762
- 0333: dt=0.448000, rms=0.528 (0.084%), neg=0, invalid=762
- 0334: dt=0.448000, rms=0.528 (0.088%), neg=0, invalid=762
- 0335: dt=0.448000, rms=0.527 (0.095%), neg=0, invalid=762
- 0336: dt=0.448000, rms=0.527 (0.097%), neg=0, invalid=762
- 0337: dt=0.448000, rms=0.526 (0.078%), neg=0, invalid=762
- 0338: dt=0.448000, rms=0.526 (0.059%), neg=0, invalid=762
- 0339: dt=0.448000, rms=0.526 (0.022%), neg=0, invalid=762
- 0340: dt=0.448000, rms=0.526 (0.003%), neg=0, invalid=762
- 0341: dt=0.000000, rms=0.526 (0.001%), neg=0, invalid=762
- 0342: dt=0.050000, rms=0.526 (-0.000%), 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=0.524, neg=0, invalid=762
- 0343: dt=18.496000, rms=0.523 (0.188%), neg=0, invalid=762
- 0344: dt=5.780000, rms=0.523 (0.001%), neg=0, invalid=762
- 0345: dt=5.780000, rms=0.523 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.524, neg=0, invalid=762
- 0346: dt=110.976000, rms=0.523 (0.211%), neg=0, invalid=762
- 0347: dt=129.472000, rms=0.523 (0.020%), neg=0, invalid=762
- 0348: dt=129.472000, rms=0.523 (0.022%), neg=0, invalid=762
- 0349: dt=129.472000, rms=0.523 (0.032%), neg=0, invalid=762
- 0350: dt=129.472000, rms=0.522 (0.013%), neg=0, invalid=762
- 0351: dt=129.472000, rms=0.522 (0.060%), neg=0, invalid=762
- 0352: dt=129.472000, rms=0.522 (0.013%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.523, neg=0, invalid=762
- 0353: dt=31.104000, rms=0.522 (0.264%), neg=0, invalid=762
- 0354: dt=36.288000, rms=0.522 (0.038%), neg=0, invalid=762
- 0355: dt=36.288000, rms=0.521 (0.024%), neg=0, invalid=762
- 0356: dt=36.288000, rms=0.521 (-0.012%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.522, neg=0, invalid=762
- 0357: dt=63.459155, rms=0.520 (0.484%), neg=0, invalid=762
- 0358: dt=36.288000, rms=0.519 (0.114%), neg=0, invalid=762
- 0359: dt=36.288000, rms=0.519 (0.075%), neg=0, invalid=762
- 0360: dt=36.288000, rms=0.518 (0.106%), neg=0, invalid=762
- 0361: dt=36.288000, rms=0.518 (0.127%), neg=0, invalid=762
- 0362: dt=36.288000, rms=0.517 (0.128%), neg=0, invalid=762
- 0363: dt=36.288000, rms=0.516 (0.114%), neg=0, invalid=762
- 0364: dt=36.288000, rms=0.516 (0.112%), neg=0, invalid=762
- 0365: dt=248.832000, rms=0.515 (0.081%), neg=0, invalid=762
- 0366: dt=248.832000, rms=0.515 (-1.556%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.517, neg=0, invalid=762
- 0367: dt=25.600000, rms=0.513 (0.676%), neg=0, invalid=762
- 0368: dt=44.800000, rms=0.511 (0.529%), neg=0, invalid=762
- 0369: dt=25.107692, rms=0.509 (0.233%), neg=0, invalid=762
- 0370: dt=25.107692, rms=0.508 (0.282%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 8 iterations, nbhd size=1, neg = 0
- 0371: dt=25.107692, rms=0.507 (0.279%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 10 iterations, nbhd size=1, neg = 0
- 0372: dt=25.107692, rms=0.505 (0.213%), neg=0, invalid=762
- iter 0, gcam->neg = 9
- after 1 iterations, nbhd size=0, neg = 0
- 0373: dt=25.107692, rms=0.505 (0.130%), neg=0, invalid=762
- iter 0, gcam->neg = 24
- after 11 iterations, nbhd size=1, neg = 0
- 0374: dt=25.107692, rms=0.504 (0.116%), neg=0, invalid=762
- iter 0, gcam->neg = 21
- after 11 iterations, nbhd size=1, neg = 0
- 0375: dt=25.107692, rms=0.503 (0.170%), neg=0, invalid=762
- iter 0, gcam->neg = 13
- after 3 iterations, nbhd size=0, neg = 0
- 0376: dt=25.107692, rms=0.503 (0.141%), neg=0, invalid=762
- iter 0, gcam->neg = 22
- after 14 iterations, nbhd size=1, neg = 0
- 0377: dt=25.107692, rms=0.502 (0.125%), neg=0, invalid=762
- iter 0, gcam->neg = 14
- after 9 iterations, nbhd size=1, neg = 0
- 0378: dt=25.107692, rms=0.501 (0.120%), neg=0, invalid=762
- 0379: dt=44.800000, rms=0.500 (0.219%), neg=0, invalid=762
- 0380: dt=11.200000, rms=0.500 (0.026%), neg=0, invalid=762
- 0381: dt=11.200000, rms=0.500 (0.020%), neg=0, invalid=762
- 0382: dt=11.200000, rms=0.500 (0.020%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0383: dt=11.200000, rms=0.500 (0.060%), neg=0, invalid=762
- 0384: dt=11.200000, rms=0.499 (0.064%), neg=0, invalid=762
- 0385: dt=11.200000, rms=0.499 (0.066%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 7 iterations, nbhd size=1, neg = 0
- 0386: dt=11.200000, rms=0.499 (0.061%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.500, neg=0, invalid=762
- 0387: dt=44.800000, rms=0.495 (0.950%), neg=0, invalid=762
- 0388: dt=30.654206, rms=0.493 (0.293%), neg=0, invalid=762
- 0389: dt=21.747573, rms=0.493 (0.165%), neg=0, invalid=762
- 0390: dt=21.747573, rms=0.492 (0.134%), neg=0, invalid=762
- 0391: dt=21.747573, rms=0.491 (0.152%), neg=0, invalid=762
- 0392: dt=21.747573, rms=0.490 (0.185%), neg=0, invalid=762
- 0393: dt=21.747573, rms=0.490 (0.118%), neg=0, invalid=762
- 0394: dt=21.747573, rms=0.489 (0.105%), neg=0, invalid=762
- 0395: dt=11.200000, rms=0.489 (0.022%), neg=0, invalid=762
- 0396: dt=11.200000, rms=0.489 (0.023%), neg=0, invalid=762
- 0397: dt=11.200000, rms=0.489 (0.036%), neg=0, invalid=762
- 0398: dt=11.200000, rms=0.489 (0.041%), neg=0, invalid=762
- 0399: dt=11.200000, rms=0.488 (0.048%), neg=0, invalid=762
- 0400: dt=11.200000, rms=0.488 (0.049%), neg=0, invalid=762
- 0401: dt=11.200000, rms=0.488 (0.041%), neg=0, invalid=762
- 0402: dt=11.200000, rms=0.488 (0.041%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.495, neg=0, invalid=762
- 0403: dt=0.000703, rms=0.495 (0.182%), neg=0, invalid=762
- 0404: dt=0.000000, rms=0.495 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.495, neg=0, invalid=762
- 0405: dt=3.456000, rms=0.494 (0.231%), neg=0, invalid=762
- 0406: dt=2.304000, rms=0.494 (0.011%), neg=0, invalid=762
- 0407: dt=2.304000, rms=0.494 (0.004%), neg=0, invalid=762
- 0408: dt=2.304000, rms=0.494 (-0.037%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.506, neg=0, invalid=762
- 0409: dt=0.384000, rms=0.505 (0.193%), neg=0, invalid=762
- 0410: dt=0.080000, rms=0.505 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.505, neg=0, invalid=762
- 0411: dt=1.792000, rms=0.503 (0.445%), neg=0, invalid=762
- 0412: dt=0.768000, rms=0.503 (0.031%), neg=0, invalid=762
- 0413: dt=0.768000, rms=0.503 (0.006%), neg=0, invalid=762
- 0414: dt=0.768000, rms=0.503 (-0.060%), 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=0.495, neg=0, invalid=762
- iter 0, gcam->neg = 382
- after 14 iterations, nbhd size=1, neg = 0
- 0415: dt=2.156080, rms=0.466 (5.683%), neg=0, invalid=762
- 0416: dt=0.096000, rms=0.466 (0.087%), neg=0, invalid=762
- 0417: dt=0.096000, rms=0.466 (-0.056%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.467, neg=0, invalid=762
- 0418: dt=0.112000, rms=0.465 (0.370%), neg=0, invalid=762
- 0419: dt=0.028000, rms=0.465 (0.006%), neg=0, invalid=762
- 0420: dt=0.028000, rms=0.465 (0.002%), neg=0, invalid=762
- 0421: dt=0.028000, rms=0.465 (-0.018%), 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=0.454, neg=0, invalid=762
- 0422: dt=0.000000, rms=0.454 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.454, neg=0, invalid=762
- 0423: dt=73.984000, rms=0.454 (0.012%), neg=0, invalid=762
- 0424: dt=32.368000, rms=0.454 (0.001%), neg=0, invalid=762
- 0425: dt=32.368000, rms=0.454 (0.001%), neg=0, invalid=762
- 0426: dt=32.368000, rms=0.454 (0.001%), neg=0, invalid=762
- 0427: dt=32.368000, rms=0.454 (0.001%), neg=0, invalid=762
- 0428: dt=32.368000, rms=0.454 (0.001%), neg=0, invalid=762
- 0429: dt=32.368000, rms=0.454 (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=0.454, neg=0, invalid=762
- 0430: dt=0.972000, rms=0.454 (0.000%), neg=0, invalid=762
- 0431: dt=0.121500, rms=0.454 (0.000%), neg=0, invalid=762
- 0432: dt=0.121500, rms=0.454 (0.000%), neg=0, invalid=762
- 0433: dt=0.121500, rms=0.454 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.454, neg=0, invalid=762
- 0434: dt=145.152000, rms=0.454 (0.082%), neg=0, invalid=762
- 0435: dt=103.680000, rms=0.453 (0.034%), neg=0, invalid=762
- 0436: dt=103.680000, rms=0.453 (0.019%), neg=0, invalid=762
- 0437: dt=103.680000, rms=0.453 (0.027%), neg=0, invalid=762
- 0438: dt=103.680000, rms=0.453 (0.069%), neg=0, invalid=762
- 0439: dt=103.680000, rms=0.453 (0.025%), neg=0, invalid=762
- 0440: dt=103.680000, rms=0.453 (-0.011%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.453, neg=0, invalid=762
- 0441: dt=8.000000, rms=0.453 (0.044%), neg=0, invalid=762
- 0442: dt=2.800000, rms=0.453 (0.006%), neg=0, invalid=762
- 0443: dt=2.800000, rms=0.453 (0.002%), neg=0, invalid=762
- 0444: dt=2.800000, rms=0.453 (-0.007%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.453, neg=0, invalid=762
- 0445: dt=44.800000, rms=0.451 (0.455%), neg=0, invalid=762
- 0446: dt=23.963470, rms=0.450 (0.213%), neg=0, invalid=762
- 0447: dt=23.963470, rms=0.449 (0.147%), neg=0, invalid=762
- 0448: dt=23.963470, rms=0.449 (0.176%), neg=0, invalid=762
- 0449: dt=23.963470, rms=0.448 (0.247%), neg=0, invalid=762
- 0450: dt=23.963470, rms=0.447 (0.190%), neg=0, invalid=762
- 0451: dt=23.963470, rms=0.446 (0.225%), neg=0, invalid=762
- 0452: dt=23.963470, rms=0.445 (0.152%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 6 iterations, nbhd size=1, neg = 0
- 0453: dt=23.963470, rms=0.444 (0.151%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0454: dt=23.963470, rms=0.444 (0.122%), neg=0, invalid=762
- 0455: dt=23.963470, rms=0.443 (0.126%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 8 iterations, nbhd size=1, neg = 0
- 0456: dt=23.963470, rms=0.443 (0.105%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0457: dt=23.963470, rms=0.442 (0.088%), neg=0, invalid=762
- 0458: dt=25.600000, rms=0.442 (0.021%), neg=0, invalid=762
- 0459: dt=25.600000, rms=0.442 (0.017%), neg=0, invalid=762
- 0460: dt=25.600000, rms=0.442 (0.017%), neg=0, invalid=762
- 0461: dt=25.600000, rms=0.442 (0.020%), neg=0, invalid=762
- 0462: dt=25.600000, rms=0.442 (0.011%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.446, neg=0, invalid=762
- 0463: dt=0.000000, rms=0.446 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.446, neg=0, invalid=762
- 0464: dt=5.777778, rms=0.446 (0.057%), neg=0, invalid=762
- 0465: dt=4.032000, rms=0.446 (0.018%), neg=0, invalid=762
- 0466: dt=4.032000, rms=0.446 (0.010%), neg=0, invalid=762
- 0467: dt=4.032000, rms=0.446 (-0.010%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.452, neg=0, invalid=762
- 0468: dt=0.000000, rms=0.452 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.452, neg=0, invalid=762
- 0469: dt=0.000000, rms=0.452 (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=0.441, neg=0, invalid=762
- iter 0, gcam->neg = 412
- after 14 iterations, nbhd size=1, neg = 0
- 0470: dt=1.464896, rms=0.430 (2.501%), neg=0, invalid=762
- 0471: dt=0.000013, rms=0.430 (0.000%), neg=0, invalid=762
- 0472: dt=0.000013, rms=0.430 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.430, neg=0, invalid=762
- 0473: dt=0.112000, rms=0.430 (0.136%), neg=0, invalid=762
- 0474: dt=0.112000, rms=0.429 (0.045%), neg=0, invalid=762
- 0475: dt=0.112000, rms=0.429 (0.012%), neg=0, invalid=762
- 0476: dt=0.112000, rms=0.429 (-0.073%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 1 hours, 53 minutes and 9 seconds.
- mri_ca_register utimesec 7584.161032
- mri_ca_register stimesec 6.920947
- mri_ca_register ru_maxrss 1350360
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 4258452
- mri_ca_register ru_majflt 2
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 5504
- mri_ca_register ru_oublock 63640
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 4034
- mri_ca_register ru_nivcsw 15229
- FSRUNTIME@ mri_ca_register 1.8859 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Mon Oct 9 16:47:37 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-581
- 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-6.0.0/0050185/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 7.05
- 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 = 0.05192 (15)
- Left_Lateral_Ventricle (4): linear fit = 1.48 x + 0.0 (212 voxels, overlap=0.302)
- Left_Lateral_Ventricle (4): linear fit = 1.48 x + 0.0 (212 voxels, peak = 30), gca=29.5
- gca peak = 0.17677 (13)
- mri peak = 0.07391 (15)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (485 voxels, overlap=0.680)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (485 voxels, peak = 13), gca=13.5
- gca peak = 0.28129 (95)
- mri peak = 0.08078 (94)
- Right_Pallidum (52): linear fit = 0.98 x + 0.0 (620 voxels, overlap=1.017)
- Right_Pallidum (52): linear fit = 0.98 x + 0.0 (620 voxels, peak = 93), gca=92.6
- gca peak = 0.16930 (96)
- mri peak = 0.07988 (95)
- Left_Pallidum (13): linear fit = 0.99 x + 0.0 (661 voxels, overlap=1.014)
- Left_Pallidum (13): linear fit = 0.99 x + 0.0 (661 voxels, peak = 95), gca=94.6
- gca peak = 0.24553 (55)
- mri peak = 0.06795 (60)
- Right_Hippocampus (53): linear fit = 1.04 x + 0.0 (811 voxels, overlap=1.014)
- Right_Hippocampus (53): linear fit = 1.04 x + 0.0 (811 voxels, peak = 57), gca=57.5
- gca peak = 0.30264 (59)
- mri peak = 0.06813 (64)
- Left_Hippocampus (17): linear fit = 1.04 x + 0.0 (938 voxels, overlap=1.013)
- Left_Hippocampus (17): linear fit = 1.04 x + 0.0 (938 voxels, peak = 62), gca=61.7
- gca peak = 0.07580 (103)
- mri peak = 0.05389 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (27786 voxels, overlap=0.784)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (27786 voxels, peak = 106), gca=105.6
- gca peak = 0.07714 (104)
- mri peak = 0.05241 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (27361 voxels, overlap=0.704)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (27361 voxels, peak = 109), gca=108.7
- gca peak = 0.09712 (58)
- mri peak = 0.03559 (60)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (23483 voxels, overlap=0.967)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (23483 voxels, peak = 59), gca=59.4
- gca peak = 0.11620 (58)
- mri peak = 0.03826 (61)
- Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (26096 voxels, overlap=0.967)
- Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (26096 voxels, peak = 59), gca=59.4
- gca peak = 0.30970 (66)
- mri peak = 0.05849 (70)
- Right_Caudate (50): linear fit = 1.12 x + 0.0 (1060 voxels, overlap=1.011)
- Right_Caudate (50): linear fit = 1.12 x + 0.0 (1060 voxels, peak = 74), gca=74.2
- gca peak = 0.15280 (69)
- mri peak = 0.06528 (75)
- Left_Caudate (11): linear fit = 1.04 x + 0.0 (1008 voxels, overlap=1.008)
- Left_Caudate (11): linear fit = 1.04 x + 0.0 (1008 voxels, peak = 72), gca=72.1
- gca peak = 0.13902 (56)
- mri peak = 0.04541 (52)
- Left_Cerebellum_Cortex (8): linear fit = 0.96 x + 0.0 (20926 voxels, overlap=0.999)
- Left_Cerebellum_Cortex (8): linear fit = 0.96 x + 0.0 (20926 voxels, peak = 54), gca=54.0
- gca peak = 0.14777 (55)
- mri peak = 0.04636 (56)
- Right_Cerebellum_Cortex (47): linear fit = 0.96 x + 0.0 (20789 voxels, overlap=0.998)
- Right_Cerebellum_Cortex (47): linear fit = 0.96 x + 0.0 (20789 voxels, peak = 53), gca=53.1
- gca peak = 0.16765 (84)
- mri peak = 0.05676 (83)
- Left_Cerebellum_White_Matter (7): linear fit = 0.98 x + 0.0 (4333 voxels, overlap=0.991)
- Left_Cerebellum_White_Matter (7): linear fit = 0.98 x + 0.0 (4333 voxels, peak = 82), gca=81.9
- gca peak = 0.18739 (84)
- mri peak = 0.05150 (80)
- Right_Cerebellum_White_Matter (46): linear fit = 0.98 x + 0.0 (5196 voxels, overlap=0.997)
- Right_Cerebellum_White_Matter (46): linear fit = 0.98 x + 0.0 (5196 voxels, peak = 82), gca=81.9
- gca peak = 0.29869 (57)
- mri peak = 0.06976 (65)
- Left_Amygdala (18): linear fit = 1.12 x + 0.0 (548 voxels, overlap=1.014)
- Left_Amygdala (18): linear fit = 1.12 x + 0.0 (548 voxels, peak = 64), gca=63.6
- gca peak = 0.33601 (57)
- mri peak = 0.06922 (53)
- Right_Amygdala (54): linear fit = 0.98 x + 0.0 (464 voxels, overlap=1.035)
- Right_Amygdala (54): linear fit = 0.98 x + 0.0 (464 voxels, peak = 56), gca=55.6
- gca peak = 0.11131 (90)
- mri peak = 0.04887 (91)
- Left_Thalamus_Proper (10): linear fit = 1.05 x + 0.0 (3872 voxels, overlap=0.975)
- Left_Thalamus_Proper (10): linear fit = 1.05 x + 0.0 (3872 voxels, peak = 95), gca=94.9
- gca peak = 0.11793 (83)
- mri peak = 0.05152 (90)
- Right_Thalamus_Proper (49): linear fit = 1.09 x + 0.0 (4067 voxels, overlap=0.866)
- Right_Thalamus_Proper (49): linear fit = 1.09 x + 0.0 (4067 voxels, peak = 90), gca=90.1
- gca peak = 0.08324 (81)
- mri peak = 0.06681 (75)
- Left_Putamen (12): linear fit = 0.99 x + 0.0 (1404 voxels, overlap=0.972)
- Left_Putamen (12): linear fit = 0.99 x + 0.0 (1404 voxels, peak = 80), gca=79.8
- gca peak = 0.10360 (77)
- mri peak = 0.07202 (69)
- Right_Putamen (51): linear fit = 0.94 x + 0.0 (1782 voxels, overlap=0.749)
- Right_Putamen (51): linear fit = 0.94 x + 0.0 (1782 voxels, peak = 72), gca=72.0
- gca peak = 0.08424 (78)
- mri peak = 0.05117 (82)
- Brain_Stem (16): linear fit = 1.13 x + 0.0 (6136 voxels, overlap=0.477)
- Brain_Stem (16): linear fit = 1.13 x + 0.0 (6136 voxels, peak = 89), gca=88.5
- gca peak = 0.12631 (89)
- mri peak = 0.06308 (91)
- Right_VentralDC (60): linear fit = 1.08 x + 0.0 (1041 voxels, overlap=0.828)
- Right_VentralDC (60): linear fit = 1.08 x + 0.0 (1041 voxels, peak = 96), gca=95.7
- gca peak = 0.14500 (87)
- mri peak = 0.05347 (99)
- Left_VentralDC (28): linear fit = 1.08 x + 0.0 (1196 voxels, overlap=0.707)
- Left_VentralDC (28): linear fit = 1.08 x + 0.0 (1196 voxels, peak = 94), gca=93.5
- gca peak = 0.14975 (24)
- mri peak = 0.16667 (25)
- gca peak = 0.19357 (14)
- mri peak = 0.07275 (16)
- Fourth_Ventricle (15): linear fit = 1.03 x + 0.0 (175 voxels, overlap=0.784)
- Fourth_Ventricle (15): linear fit = 1.03 x + 0.0 (175 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 1.04 x + 0.0
- estimating mean wm scale to be 1.03 x + 0.0
- estimating mean csf scale to be 1.18 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.15662 (27)
- mri peak = 0.05192 (15)
- Left_Lateral_Ventricle (4): linear fit = 0.47 x + 0.0 (212 voxels, overlap=0.327)
- Left_Lateral_Ventricle (4): linear fit = 0.47 x + 0.0 (212 voxels, peak = 13), gca=12.8
- gca peak = 0.20032 (13)
- mri peak = 0.07391 (15)
- Right_Lateral_Ventricle (43): linear fit = 1.01 x + 0.0 (485 voxels, overlap=0.697)
- Right_Lateral_Ventricle (43): linear fit = 1.01 x + 0.0 (485 voxels, peak = 13), gca=13.2
- gca peak = 0.24713 (92)
- mri peak = 0.08078 (94)
- Right_Pallidum (52): linear fit = 1.01 x + 0.0 (620 voxels, overlap=0.933)
- Right_Pallidum (52): linear fit = 1.01 x + 0.0 (620 voxels, peak = 93), gca=93.4
- gca peak = 0.18705 (95)
- mri peak = 0.07988 (95)
- Left_Pallidum (13): linear fit = 1.02 x + 0.0 (661 voxels, overlap=1.009)
- Left_Pallidum (13): linear fit = 1.02 x + 0.0 (661 voxels, peak = 97), gca=97.4
- gca peak = 0.27995 (58)
- mri peak = 0.06795 (60)
- Right_Hippocampus (53): linear fit = 0.92 x + 0.0 (811 voxels, overlap=1.011)
- Right_Hippocampus (53): linear fit = 0.92 x + 0.0 (811 voxels, peak = 53), gca=53.1
- gca peak = 0.29301 (59)
- mri peak = 0.06813 (64)
- Left_Hippocampus (17): linear fit = 1.08 x + 0.0 (938 voxels, overlap=1.013)
- Left_Hippocampus (17): linear fit = 1.08 x + 0.0 (938 voxels, peak = 63), gca=63.4
- gca peak = 0.07607 (105)
- mri peak = 0.05389 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (27786 voxels, overlap=0.870)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (27786 voxels, peak = 105), gca=105.0
- gca peak = 0.07799 (109)
- mri peak = 0.05241 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (27361 voxels, overlap=0.877)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (27361 voxels, peak = 109), gca=109.0
- gca peak = 0.09503 (59)
- mri peak = 0.03559 (60)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (23483 voxels, overlap=0.980)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (23483 voxels, peak = 60), gca=60.5
- gca peak = 0.11335 (59)
- mri peak = 0.03826 (61)
- Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (26096 voxels, overlap=0.979)
- Right_Cerebral_Cortex (42): linear fit = 1.02 x + 0.0 (26096 voxels, peak = 60), gca=60.5
- gca peak = 0.25481 (75)
- mri peak = 0.05849 (70)
- Right_Caudate (50): linear fit = 0.93 x + 0.0 (1060 voxels, overlap=1.008)
- Right_Caudate (50): linear fit = 0.93 x + 0.0 (1060 voxels, peak = 69), gca=69.4
- gca peak = 0.15447 (72)
- mri peak = 0.06528 (75)
- Left_Caudate (11): linear fit = 0.99 x + 0.0 (1008 voxels, overlap=1.005)
- Left_Caudate (11): linear fit = 0.99 x + 0.0 (1008 voxels, peak = 71), gca=70.9
- gca peak = 0.14774 (54)
- mri peak = 0.04541 (52)
- Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (20926 voxels, overlap=1.000)
- Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (20926 voxels, peak = 56), gca=56.4
- gca peak = 0.15523 (53)
- mri peak = 0.04636 (56)
- Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (20789 voxels, overlap=0.999)
- Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (20789 voxels, peak = 55), gca=55.4
- gca peak = 0.17221 (82)
- mri peak = 0.05676 (83)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4333 voxels, overlap=0.981)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4333 voxels, peak = 82), gca=81.6
- gca peak = 0.18706 (82)
- mri peak = 0.05150 (80)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (5196 voxels, overlap=0.988)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (5196 voxels, peak = 82), gca=81.6
- gca peak = 0.24255 (65)
- mri peak = 0.06976 (65)
- Left_Amygdala (18): linear fit = 0.99 x + 0.0 (548 voxels, overlap=1.016)
- Left_Amygdala (18): linear fit = 0.99 x + 0.0 (548 voxels, peak = 64), gca=64.0
- gca peak = 0.33530 (56)
- mri peak = 0.06922 (53)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (464 voxels, overlap=1.032)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (464 voxels, peak = 59), gca=58.5
- gca peak = 0.10703 (95)
- mri peak = 0.04887 (91)
- Left_Thalamus_Proper (10): linear fit = 0.96 x + 0.0 (3872 voxels, overlap=1.000)
- Left_Thalamus_Proper (10): linear fit = 0.96 x + 0.0 (3872 voxels, peak = 92), gca=91.7
- gca peak = 0.10855 (90)
- mri peak = 0.05152 (90)
- Right_Thalamus_Proper (49): linear fit = 0.99 x + 0.0 (4067 voxels, overlap=0.999)
- Right_Thalamus_Proper (49): linear fit = 0.99 x + 0.0 (4067 voxels, peak = 89), gca=88.7
- gca peak = 0.09217 (74)
- mri peak = 0.06681 (75)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1404 voxels, overlap=0.967)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1404 voxels, peak = 74), gca=74.0
- gca peak = 0.09691 (72)
- mri peak = 0.07202 (69)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (1782 voxels, overlap=0.961)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (1782 voxels, peak = 72), gca=71.6
- gca peak = 0.07523 (89)
- mri peak = 0.05117 (82)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (6136 voxels, overlap=0.910)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (6136 voxels, peak = 89), gca=88.6
- gca peak = 0.11192 (96)
- mri peak = 0.06308 (91)
- Right_VentralDC (60): linear fit = 0.99 x + 0.0 (1041 voxels, overlap=0.900)
- Right_VentralDC (60): linear fit = 0.99 x + 0.0 (1041 voxels, peak = 95), gca=94.6
- gca peak = 0.16237 (92)
- mri peak = 0.05347 (99)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1196 voxels, overlap=0.913)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1196 voxels, peak = 92), gca=92.0
- gca peak = 0.16743 (30)
- mri peak = 0.16667 (25)
- gca peak = 0.18343 (17)
- mri peak = 0.07275 (16)
- Fourth_Ventricle (15): linear fit = 1.02 x + 0.0 (175 voxels, overlap=0.746)
- Fourth_Ventricle (15): linear fit = 1.02 x + 0.0 (175 voxels, peak = 17), gca=17.4
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16503 (28)
- gca peak Left_Thalamus = 0.72551 (98)
- gca peak Third_Ventricle = 0.16743 (30)
- gca peak CSF = 0.24000 (43)
- gca peak Left_Accumbens_area = 0.72949 (65)
- gca peak Left_undetermined = 0.96707 (34)
- gca peak Left_vessel = 0.75962 (52)
- gca peak Left_choroid_plexus = 0.11989 (35)
- gca peak Right_Inf_Lat_Vent = 0.21972 (24)
- gca peak Right_Accumbens_area = 0.29951 (73)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14514 (37)
- gca peak Fifth_Ventricle = 0.54107 (38)
- gca peak WM_hypointensities = 0.07589 (79)
- gca peak non_WM_hypointensities = 0.08309 (45)
- gca peak Optic_Chiasm = 0.70601 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.01 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 0.84 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
- 131680 voxels changed in iteration 0 of unlikely voxel relabeling
- 224 voxels changed in iteration 1 of unlikely voxel relabeling
- 2 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 65154 gm and wm labels changed (%38 to gray, %62 to white out of all changed labels)
- 773 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 111787 changed. image ll: -2.159, PF=0.500
- pass 2: 33570 changed. image ll: -2.158, PF=0.500
- pass 3: 10272 changed.
- pass 4: 3606 changed.
- 74452 voxels changed in iteration 0 of unlikely voxel relabeling
- 325 voxels changed in iteration 1 of unlikely voxel relabeling
- 3 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 8297 voxels changed in iteration 0 of unlikely voxel relabeling
- 89 voxels changed in iteration 1 of unlikely voxel relabeling
- 7 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 6348 voxels changed in iteration 0 of unlikely voxel relabeling
- 93 voxels changed in iteration 1 of unlikely voxel relabeling
- 0 voxels changed in iteration 2 of unlikely voxel relabeling
- 5571 voxels changed in iteration 0 of unlikely voxel relabeling
- 36 voxels changed in iteration 1 of unlikely voxel relabeling
- 1 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 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 3788.266096
- mri_ca_label stimesec 1.458778
- mri_ca_label ru_maxrss 2107412
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 637440
- mri_ca_label ru_majflt 3
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 76280
- mri_ca_label ru_oublock 504
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 325
- mri_ca_label ru_nivcsw 8525
- auto-labeling took 62 minutes and 24 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/transforms/cc_up.lta 0050185
- 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-6.0.0/0050185/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/norm.mgz
- 68593 voxels in left wm, 68029 in right wm, xrange [120, 135]
- searching rotation angles z=[-6 8], y=[-3 11]
-
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
searching scale 1 Z rot 5.8
searching scale 1 Z rot 6.0
searching scale 1 Z rot 6.3
searching scale 1 Z rot 6.5
searching scale 1 Z rot 6.8
searching scale 1 Z rot 7.0
searching scale 1 Z rot 7.3 global minimum found at slice 127.1, rotations (4.38, 0.52)
- final transformation (x=127.1, yr=4.378, zr=0.517):
- 0.99704 -0.00902 0.07633 -8.54461;
- 0.00900 0.99996 0.00069 51.76485;
- -0.07633 0.00000 0.99708 1.10426;
- 0.00000 0.00000 0.00000 1.00000;
- updating x range to be [125, 130] in xformed coordinates
- best xformed slice 128
- cc center is found at 128 75 137
- eigenvectors:
- -0.00036 0.00272 1.00000;
- 0.17506 -0.98455 0.00274;
- 0.98456 0.17506 -0.00012;
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/aseg.auto.mgz...
- corpus callosum segmentation took 1.5 minutes
- #--------------------------------------
- #@# Merge ASeg Mon Oct 9 17:51:29 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Mon Oct 9 17:51:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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...
- 2611 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 89
- gm peak at 62 (62), valley at 0 (-1)
- csf peak at 31, setting threshold to 51
- 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 90
- gm peak at 58 (58), valley at 0 (-1)
- csf peak at 29, setting threshold to 48
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to brain.mgz
- 3D bias adjustment took 3 minutes and 3 seconds.
- #--------------------------------------------
- #@# Mask BFS Mon Oct 9 17:54:33 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1662830 voxels in mask (pct= 9.91)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Mon Oct 9 17:54:34 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 (104.0): 105.8 +- 5.9 [79.0 --> 125.0]
- GM (71.0) : 68.4 +- 9.5 [30.0 --> 95.0]
- setting bottom of white matter range to 77.9
- setting top of gray matter range to 87.4
- 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...
- 16394 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 3993 filled
- 12 bright non-wm voxels segmented.
- 7828 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 0.95 minutes
- reading wm segmentation from wm.seg.mgz...
- 2794 voxels added to wm to prevent paths from MTL structures to cortex
- 5587 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 53097 voxels turned on, 10261 voxels turned off.
- propagating editing to output volume from wm.seg.mgz
- 115,126,128 old 96 new 96
- 115,126,128 old 96 new 96
- writing edited volume to wm.asegedit.mgz....
- mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz
- Iteration Number : 1
- pass 1 (xy+): 59 found - 59 modified | TOTAL: 59
- pass 2 (xy+): 0 found - 59 modified | TOTAL: 59
- pass 1 (xy-): 76 found - 76 modified | TOTAL: 135
- pass 2 (xy-): 0 found - 76 modified | TOTAL: 135
- pass 1 (yz+): 61 found - 61 modified | TOTAL: 196
- pass 2 (yz+): 0 found - 61 modified | TOTAL: 196
- pass 1 (yz-): 57 found - 57 modified | TOTAL: 253
- pass 2 (yz-): 0 found - 57 modified | TOTAL: 253
- pass 1 (xz+): 56 found - 56 modified | TOTAL: 309
- pass 2 (xz+): 0 found - 56 modified | TOTAL: 309
- pass 1 (xz-): 51 found - 51 modified | TOTAL: 360
- pass 2 (xz-): 0 found - 51 modified | TOTAL: 360
- Iteration Number : 1
- pass 1 (+++): 74 found - 74 modified | TOTAL: 74
- pass 2 (+++): 0 found - 74 modified | TOTAL: 74
- pass 1 (+++): 88 found - 88 modified | TOTAL: 162
- pass 2 (+++): 0 found - 88 modified | TOTAL: 162
- pass 1 (+++): 88 found - 88 modified | TOTAL: 250
- pass 2 (+++): 0 found - 88 modified | TOTAL: 250
- pass 1 (+++): 148 found - 148 modified | TOTAL: 398
- pass 2 (+++): 0 found - 148 modified | TOTAL: 398
- Iteration Number : 1
- pass 1 (++): 211 found - 211 modified | TOTAL: 211
- pass 2 (++): 0 found - 211 modified | TOTAL: 211
- pass 1 (+-): 223 found - 223 modified | TOTAL: 434
- pass 2 (+-): 2 found - 225 modified | TOTAL: 436
- pass 3 (+-): 0 found - 225 modified | TOTAL: 436
- pass 1 (--): 224 found - 224 modified | TOTAL: 660
- pass 2 (--): 1 found - 225 modified | TOTAL: 661
- pass 3 (--): 0 found - 225 modified | TOTAL: 661
- pass 1 (-+): 275 found - 275 modified | TOTAL: 936
- pass 2 (-+): 0 found - 275 modified | TOTAL: 936
- Iteration Number : 2
- pass 1 (xy+): 24 found - 24 modified | TOTAL: 24
- pass 2 (xy+): 0 found - 24 modified | TOTAL: 24
- pass 1 (xy-): 39 found - 39 modified | TOTAL: 63
- pass 2 (xy-): 0 found - 39 modified | TOTAL: 63
- pass 1 (yz+): 25 found - 25 modified | TOTAL: 88
- pass 2 (yz+): 0 found - 25 modified | TOTAL: 88
- pass 1 (yz-): 39 found - 39 modified | TOTAL: 127
- pass 2 (yz-): 0 found - 39 modified | TOTAL: 127
- pass 1 (xz+): 31 found - 31 modified | TOTAL: 158
- pass 2 (xz+): 0 found - 31 modified | TOTAL: 158
- pass 1 (xz-): 23 found - 23 modified | TOTAL: 181
- pass 2 (xz-): 0 found - 23 modified | TOTAL: 181
- Iteration Number : 2
- pass 1 (+++): 8 found - 8 modified | TOTAL: 8
- pass 2 (+++): 0 found - 8 modified | TOTAL: 8
- pass 1 (+++): 6 found - 6 modified | TOTAL: 14
- pass 2 (+++): 0 found - 6 modified | TOTAL: 14
- pass 1 (+++): 4 found - 4 modified | TOTAL: 18
- pass 2 (+++): 0 found - 4 modified | TOTAL: 18
- pass 1 (+++): 6 found - 6 modified | TOTAL: 24
- pass 2 (+++): 0 found - 6 modified | TOTAL: 24
- Iteration Number : 2
- pass 1 (++): 14 found - 14 modified | TOTAL: 14
- pass 2 (++): 0 found - 14 modified | TOTAL: 14
- pass 1 (+-): 16 found - 16 modified | TOTAL: 30
- pass 2 (+-): 1 found - 17 modified | TOTAL: 31
- pass 3 (+-): 0 found - 17 modified | TOTAL: 31
- pass 1 (--): 10 found - 10 modified | TOTAL: 41
- pass 2 (--): 1 found - 11 modified | TOTAL: 42
- pass 3 (--): 0 found - 11 modified | TOTAL: 42
- pass 1 (-+): 10 found - 10 modified | TOTAL: 52
- pass 2 (-+): 0 found - 10 modified | TOTAL: 52
- Iteration Number : 3
- pass 1 (xy+): 7 found - 7 modified | TOTAL: 7
- pass 2 (xy+): 0 found - 7 modified | TOTAL: 7
- pass 1 (xy-): 2 found - 2 modified | TOTAL: 9
- pass 2 (xy-): 0 found - 2 modified | TOTAL: 9
- pass 1 (yz+): 3 found - 3 modified | TOTAL: 12
- pass 2 (yz+): 0 found - 3 modified | TOTAL: 12
- pass 1 (yz-): 3 found - 3 modified | TOTAL: 15
- pass 2 (yz-): 0 found - 3 modified | TOTAL: 15
- pass 1 (xz+): 1 found - 1 modified | TOTAL: 16
- pass 2 (xz+): 0 found - 1 modified | TOTAL: 16
- pass 1 (xz-): 3 found - 3 modified | TOTAL: 19
- pass 2 (xz-): 0 found - 3 modified | TOTAL: 19
- Iteration Number : 3
- 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 : 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 (--): 5 found - 5 modified | TOTAL: 8
- pass 2 (--): 0 found - 5 modified | TOTAL: 8
- pass 1 (-+): 1 found - 1 modified | TOTAL: 9
- pass 2 (-+): 0 found - 1 modified | TOTAL: 9
- Iteration Number : 4
- 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+): 0 found - 0 modified | TOTAL: 2
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 2
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 2
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 2
- Iteration Number : 4
- 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 : 4
- 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 (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 : 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
- Total Number of Modified Voxels = 1981 (out of 410846: 0.482176)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Mon Oct 9 17:57:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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
- 1.04617 -0.06784 0.09737 -13.96620;
- 0.06782 1.12123 -0.05480 14.84332;
- -0.06943 0.07830 0.95323 -19.29616;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 1.04617 -0.06784 0.09737 -13.96620;
- 0.06782 1.12123 -0.05480 14.84332;
- -0.06943 0.07830 0.95323 -19.29616;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 823 (min = 350, max = 1400), aspect = 0.43 (min = 0.10, max = 0.75)
- no need to search
- using seed (127, 112, 88), TAL = (1.0, -40.0, 16.0)
- talairach voxel to voxel transform
- 0.94557 0.06370 -0.09292 10.46752;
- -0.05361 0.88470 0.05634 -12.79344;
- 0.07327 -0.06803 1.03767 22.05617;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (127, 112, 88) --> (1.0, -40.0, 16.0)
- done.
- writing output to filled.mgz...
- filling took 0.7 minutes
- talairach cc position changed to (1.00, -40.00, 16.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(19.00, -40.00, 16.00) SRC: (112.49, 85.41, 113.74)
- search lh wm seed point around talairach space (-17.00, -40.00, 16.00), SRC: (146.53, 83.48, 116.38)
- 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 Mon Oct 9 17:57:56 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.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-): 2 found - 2 modified | TOTAL: 3
- pass 2 (xy-): 0 found - 2 modified | TOTAL: 3
- pass 1 (yz+): 2 found - 2 modified | TOTAL: 5
- pass 2 (yz+): 0 found - 2 modified | TOTAL: 5
- pass 1 (yz-): 4 found - 4 modified | TOTAL: 9
- pass 2 (yz-): 0 found - 4 modified | TOTAL: 9
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 9
- pass 1 (xz-): 1 found - 1 modified | TOTAL: 10
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 10
- 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 (++): 3 found - 3 modified | TOTAL: 3
- pass 2 (++): 0 found - 3 modified | TOTAL: 3
- pass 1 (+-): 2 found - 2 modified | TOTAL: 5
- pass 2 (+-): 0 found - 2 modified | TOTAL: 5
- pass 1 (--): 0 found - 0 modified | TOTAL: 5
- pass 1 (-+): 1 found - 1 modified | TOTAL: 6
- pass 2 (-+): 0 found - 1 modified | TOTAL: 6
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy-): 0 found - 1 modified | TOTAL: 1
- pass 1 (yz+): 1 found - 1 modified | TOTAL: 2
- pass 2 (yz+): 0 found - 1 modified | TOTAL: 2
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 2
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 2
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 2
- 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
- Iteration Number : 3
- 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 : 3
- 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 : 3
- 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 = 18 (out of 201523: 0.008932)
- 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 50: 85 vertices, 109 faces
- slice 60: 2493 vertices, 2638 faces
- slice 70: 7069 vertices, 7288 faces
- slice 80: 13150 vertices, 13469 faces
- slice 90: 19679 vertices, 20022 faces
- slice 100: 27826 vertices, 28253 faces
- slice 110: 35883 vertices, 36351 faces
- slice 120: 45985 vertices, 46602 faces
- slice 130: 58319 vertices, 59060 faces
- slice 140: 72150 vertices, 72998 faces
- slice 150: 84912 vertices, 85844 faces
- slice 160: 96139 vertices, 97055 faces
- slice 170: 105618 vertices, 106499 faces
- slice 180: 114149 vertices, 115022 faces
- slice 190: 121810 vertices, 122678 faces
- slice 200: 129181 vertices, 130077 faces
- slice 210: 135834 vertices, 136729 faces
- slice 220: 139755 vertices, 140536 faces
- slice 230: 139992 vertices, 140724 faces
- slice 240: 139992 vertices, 140724 faces
- slice 250: 139992 vertices, 140724 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...
- 139956 voxel in cpt #1: X=-736 [v=139956,e=422076,f=281384] located at (-27.321238, 9.556025, 44.246677)
- 24 voxel in cpt #2: X=2 [v=24,e=66,f=44] located at (1.250000, 34.000000, 45.416668)
- 12 voxel in cpt #3: X=2 [v=12,e=30,f=20] located at (2.500000, 51.000000, 31.000000)
- For the whole surface: X=-732 [v=139992,e=422172,f=281448]
- 3 components have been found
- keeping component #1 with 139956 vertices
- done
- #--------------------------------------------
- #@# Tessellate rh Mon Oct 9 17:58:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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+): 3 found - 3 modified | TOTAL: 5
- pass 2 (yz+): 0 found - 3 modified | TOTAL: 5
- pass 1 (yz-): 2 found - 2 modified | TOTAL: 7
- pass 2 (yz-): 0 found - 2 modified | TOTAL: 7
- pass 1 (xz+): 1 found - 1 modified | TOTAL: 8
- pass 2 (xz+): 0 found - 1 modified | TOTAL: 8
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 8
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 1 found - 1 modified | TOTAL: 1
- pass 2 (+-): 0 found - 1 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 1 found - 1 modified | TOTAL: 2
- pass 2 (-+): 0 found - 1 modified | TOTAL: 2
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 10 (out of 194795: 0.005134)
- Ambiguous edge configurations...
- mri_pretess done
- mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix
- $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- slice 50: 182 vertices, 219 faces
- slice 60: 2868 vertices, 3035 faces
- slice 70: 8262 vertices, 8529 faces
- slice 80: 14469 vertices, 14755 faces
- slice 90: 20645 vertices, 21016 faces
- slice 100: 29376 vertices, 29828 faces
- slice 110: 37434 vertices, 37986 faces
- slice 120: 47931 vertices, 48536 faces
- slice 130: 59965 vertices, 60642 faces
- slice 140: 72661 vertices, 73454 faces
- slice 150: 83808 vertices, 84587 faces
- slice 160: 93051 vertices, 93763 faces
- slice 170: 100495 vertices, 101239 faces
- slice 180: 107124 vertices, 107873 faces
- slice 190: 114649 vertices, 115360 faces
- slice 200: 119872 vertices, 120570 faces
- slice 210: 123405 vertices, 124073 faces
- slice 220: 124914 vertices, 125474 faces
- slice 230: 124914 vertices, 125474 faces
- slice 240: 124914 vertices, 125474 faces
- slice 250: 124914 vertices, 125474 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...
- 124914 voxel in cpt #1: X=-560 [v=124914,e=376422,f=250948] located at (27.641336, 3.055846, 44.716228)
- For the whole surface: X=-560 [v=124914,e=376422,f=250948]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Mon Oct 9 17:58:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Mon Oct 9 17:58:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 5084 of (5084 5087) to complete...
- Waiting for PID 5087 of (5084 5087) 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 (5084 5087) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Mon Oct 9 17:58:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Mon Oct 9 17:58:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 5130 of (5130 5133) to complete...
- Waiting for PID 5133 of (5130 5133) 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 = 46.7 mm, total surface area = 63910 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 0.7 minutes
-
step 000: RMS=0.229 (target=0.015)
step 005: RMS=0.197 (target=0.015)
step 010: RMS=0.173 (target=0.015)
step 015: RMS=0.166 (target=0.015)
step 020: RMS=0.162 (target=0.015)
step 025: RMS=0.160 (target=0.015)
step 030: RMS=0.157 (target=0.015)
step 035: RMS=0.156 (target=0.015)
step 040: RMS=0.156 (target=0.015)
step 045: RMS=0.155 (target=0.015)
step 050: RMS=0.154 (target=0.015)
step 055: RMS=0.154 (target=0.015)
step 060: RMS=0.154 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 44.013308
- mris_inflate stimesec 0.122981
- mris_inflate ru_maxrss 208724
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 30652
- mris_inflate ru_majflt 3
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 12280
- mris_inflate ru_oublock 9896
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 3401
- mris_inflate ru_nivcsw 3217
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 45.2 mm, total surface area = 58272 mm^2
- writing inflated surface to ../surf/rh.inflated.nofix
- inflation took 0.7 minutes
-
step 000: RMS=0.221 (target=0.015)
step 005: RMS=0.187 (target=0.015)
step 010: RMS=0.160 (target=0.015)
step 015: RMS=0.152 (target=0.015)
step 020: RMS=0.147 (target=0.015)
step 025: RMS=0.145 (target=0.015)
step 030: RMS=0.145 (target=0.015)
step 035: RMS=0.143 (target=0.015)
step 040: RMS=0.142 (target=0.015)
step 045: RMS=0.141 (target=0.015)
step 050: RMS=0.141 (target=0.015)
step 055: RMS=0.142 (target=0.015)
step 060: RMS=0.142 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 39.869938
- mris_inflate stimesec 0.087986
- mris_inflate ru_maxrss 186076
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 27547
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 8816
- mris_inflate ru_oublock 8832
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2275
- mris_inflate ru_nivcsw 3740
- PIDs (5130 5133) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Mon Oct 9 17:58:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Mon Oct 9 17:58:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 5186 of (5186 5190) to complete...
- Waiting for PID 5190 of (5186 5190) 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 0.90 +- 0.82 (0.00-->9.11) (max @ vno 35597 --> 36470)
- face area 0.02 +- 0.04 (-0.49-->0.84)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.306...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=178.559, avgs=0
- 005/300: dt: 0.9000, rms radial error=178.298, avgs=0
- 010/300: dt: 0.9000, rms radial error=177.736, avgs=0
- 015/300: dt: 0.9000, rms radial error=176.996, avgs=0
- 020/300: dt: 0.9000, rms radial error=176.153, avgs=0
- 025/300: dt: 0.9000, rms radial error=175.250, avgs=0
- 030/300: dt: 0.9000, rms radial error=174.314, avgs=0
- 035/300: dt: 0.9000, rms radial error=173.359, avgs=0
- 040/300: dt: 0.9000, rms radial error=172.395, avgs=0
- 045/300: dt: 0.9000, rms radial error=171.428, avgs=0
- 050/300: dt: 0.9000, rms radial error=170.459, avgs=0
- 055/300: dt: 0.9000, rms radial error=169.492, avgs=0
- 060/300: dt: 0.9000, rms radial error=168.538, avgs=0
- 065/300: dt: 0.9000, rms radial error=167.593, avgs=0
- 070/300: dt: 0.9000, rms radial error=166.652, avgs=0
- 075/300: dt: 0.9000, rms radial error=165.715, avgs=0
- 080/300: dt: 0.9000, rms radial error=164.785, avgs=0
- 085/300: dt: 0.9000, rms radial error=163.860, avgs=0
- 090/300: dt: 0.9000, rms radial error=162.939, avgs=0
- 095/300: dt: 0.9000, rms radial error=162.024, avgs=0
- 100/300: dt: 0.9000, rms radial error=161.113, avgs=0
- 105/300: dt: 0.9000, rms radial error=160.207, avgs=0
- 110/300: dt: 0.9000, rms radial error=159.306, avgs=0
- 115/300: dt: 0.9000, rms radial error=158.409, avgs=0
- 120/300: dt: 0.9000, rms radial error=157.518, avgs=0
- 125/300: dt: 0.9000, rms radial error=156.629, avgs=0
- 130/300: dt: 0.9000, rms radial error=155.746, avgs=0
- 135/300: dt: 0.9000, rms radial error=154.867, avgs=0
- 140/300: dt: 0.9000, rms radial error=153.995, avgs=0
- 145/300: dt: 0.9000, rms radial error=153.124, avgs=0
- 150/300: dt: 0.9000, rms radial error=152.262, avgs=0
- 155/300: dt: 0.9000, rms radial error=151.402, avgs=0
- 160/300: dt: 0.9000, rms radial error=150.546, avgs=0
- 165/300: dt: 0.9000, rms radial error=149.696, avgs=0
- 170/300: dt: 0.9000, rms radial error=148.849, avgs=0
- 175/300: dt: 0.9000, rms radial error=148.008, avgs=0
- 180/300: dt: 0.9000, rms radial error=147.172, avgs=0
- 185/300: dt: 0.9000, rms radial error=146.340, avgs=0
- 190/300: dt: 0.9000, rms radial error=145.512, avgs=0
- 195/300: dt: 0.9000, rms radial error=144.690, avgs=0
- 200/300: dt: 0.9000, rms radial error=143.872, avgs=0
- 205/300: dt: 0.9000, rms radial error=143.062, avgs=0
- 210/300: dt: 0.9000, rms radial error=142.251, avgs=0
- 215/300: dt: 0.9000, rms radial error=141.450, avgs=0
- 220/300: dt: 0.9000, rms radial error=140.647, avgs=0
- 225/300: dt: 0.9000, rms radial error=139.849, avgs=0
- 230/300: dt: 0.9000, rms radial error=139.058, avgs=0
- 235/300: dt: 0.9000, rms radial error=138.271, avgs=0
- 240/300: dt: 0.9000, rms radial error=137.488, avgs=0
- 245/300: dt: 0.9000, rms radial error=136.710, avgs=0
- 250/300: dt: 0.9000, rms radial error=135.937, avgs=0
- 255/300: dt: 0.9000, rms radial error=135.167, avgs=0
- 260/300: dt: 0.9000, rms radial error=134.402, avgs=0
- 265/300: dt: 0.9000, rms radial error=133.642, avgs=0
- 270/300: dt: 0.9000, rms radial error=132.887, avgs=0
- 275/300: dt: 0.9000, rms radial error=132.133, avgs=0
- 280/300: dt: 0.9000, rms radial error=131.401, avgs=0
- 285/300: dt: 0.9000, rms radial error=130.651, avgs=0
- 290/300: dt: 0.9000, rms radial error=129.914, avgs=0
- 295/300: dt: 0.9000, rms radial error=129.177, avgs=0
- 300/300: dt: 0.9000, rms radial error=128.449, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 17160.34
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00021
- epoch 2 (K=40.0), pass 1, starting sse = 3449.21
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00026
- epoch 3 (K=160.0), pass 1, starting sse = 665.47
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.02/10 = 0.00227
- epoch 4 (K=640.0), pass 1, starting sse = 145.27
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.05/10 = 0.00455
- final distance error %33.21
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.06 hours
- mris_sphere utimesec 242.764094
- mris_sphere stimesec 0.158975
- mris_sphere ru_maxrss 208940
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 30724
- mris_sphere ru_majflt 1
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 11560
- mris_sphere ru_oublock 9920
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 9913
- mris_sphere ru_nivcsw 16556
- FSRUNTIME@ mris_sphere 0.0649 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 0.95 +- 0.80 (0.00-->8.34) (max @ vno 40171 --> 41266)
- face area 0.02 +- 0.04 (-0.22-->0.74)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.314...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=178.800, avgs=0
- 005/300: dt: 0.9000, rms radial error=178.540, avgs=0
- 010/300: dt: 0.9000, rms radial error=177.982, avgs=0
- 015/300: dt: 0.9000, rms radial error=177.251, avgs=0
- 020/300: dt: 0.9000, rms radial error=176.418, avgs=0
- 025/300: dt: 0.9000, rms radial error=175.527, avgs=0
- 030/300: dt: 0.9000, rms radial error=174.603, avgs=0
- 035/300: dt: 0.9000, rms radial error=173.662, avgs=0
- 040/300: dt: 0.9000, rms radial error=172.713, avgs=0
- 045/300: dt: 0.9000, rms radial error=171.761, avgs=0
- 050/300: dt: 0.9000, rms radial error=170.808, avgs=0
- 055/300: dt: 0.9000, rms radial error=169.858, avgs=0
- 060/300: dt: 0.9000, rms radial error=168.910, avgs=0
- 065/300: dt: 0.9000, rms radial error=167.966, avgs=0
- 070/300: dt: 0.9000, rms radial error=167.025, avgs=0
- 075/300: dt: 0.9000, rms radial error=166.088, avgs=0
- 080/300: dt: 0.9000, rms radial error=165.155, avgs=0
- 085/300: dt: 0.9000, rms radial error=164.227, avgs=0
- 090/300: dt: 0.9000, rms radial error=163.303, avgs=0
- 095/300: dt: 0.9000, rms radial error=162.384, avgs=0
- 100/300: dt: 0.9000, rms radial error=161.469, avgs=0
- 105/300: dt: 0.9000, rms radial error=160.559, avgs=0
- 110/300: dt: 0.9000, rms radial error=159.653, avgs=0
- 115/300: dt: 0.9000, rms radial error=158.752, avgs=0
- 120/300: dt: 0.9000, rms radial error=157.855, avgs=0
- 125/300: dt: 0.9000, rms radial error=156.964, avgs=0
- 130/300: dt: 0.9000, rms radial error=156.077, avgs=0
- 135/300: dt: 0.9000, rms radial error=155.194, avgs=0
- 140/300: dt: 0.9000, rms radial error=154.316, avgs=0
- 145/300: dt: 0.9000, rms radial error=153.443, avgs=0
- 150/300: dt: 0.9000, rms radial error=152.574, avgs=0
- 155/300: dt: 0.9000, rms radial error=151.710, avgs=0
- 160/300: dt: 0.9000, rms radial error=150.851, avgs=0
- 165/300: dt: 0.9000, rms radial error=149.996, avgs=0
- 170/300: dt: 0.9000, rms radial error=149.146, avgs=0
- 175/300: dt: 0.9000, rms radial error=148.301, avgs=0
- 180/300: dt: 0.9000, rms radial error=147.460, avgs=0
- 185/300: dt: 0.9000, rms radial error=146.623, avgs=0
- 190/300: dt: 0.9000, rms radial error=145.791, avgs=0
- 195/300: dt: 0.9000, rms radial error=144.964, avgs=0
- 200/300: dt: 0.9000, rms radial error=144.142, avgs=0
- 205/300: dt: 0.9000, rms radial error=143.325, avgs=0
- 210/300: dt: 0.9000, rms radial error=142.513, avgs=0
- 215/300: dt: 0.9000, rms radial error=141.704, avgs=0
- 220/300: dt: 0.9000, rms radial error=140.901, avgs=0
- 225/300: dt: 0.9000, rms radial error=140.101, avgs=0
- 230/300: dt: 0.9000, rms radial error=139.307, avgs=0
- 235/300: dt: 0.9000, rms radial error=138.516, avgs=0
- 240/300: dt: 0.9000, rms radial error=137.730, avgs=0
- 245/300: dt: 0.9000, rms radial error=136.948, avgs=0
- 250/300: dt: 0.9000, rms radial error=136.171, avgs=0
- 255/300: dt: 0.9000, rms radial error=135.398, avgs=0
- 260/300: dt: 0.9000, rms radial error=134.629, avgs=0
- 265/300: dt: 0.9000, rms radial error=133.864, avgs=0
- 270/300: dt: 0.9000, rms radial error=133.104, avgs=0
- 275/300: dt: 0.9000, rms radial error=132.347, avgs=0
- 280/300: dt: 0.9000, rms radial error=131.595, avgs=0
- 285/300: dt: 0.9000, rms radial error=130.847, avgs=0
- 290/300: dt: 0.9000, rms radial error=130.103, avgs=0
- 295/300: dt: 0.9000, rms radial error=129.363, avgs=0
- 300/300: dt: 0.9000, rms radial error=128.627, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 15062.05
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00015
- epoch 2 (K=40.0), pass 1, starting sse = 2887.13
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00014
- epoch 3 (K=160.0), pass 1, starting sse = 520.06
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.03/10 = 0.00321
- epoch 4 (K=640.0), pass 1, starting sse = 103.18
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.04/10 = 0.00425
- final distance error %30.16
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.06 hours
- mris_sphere utimesec 219.337655
- mris_sphere stimesec 0.146977
- mris_sphere ru_maxrss 186264
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 27593
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 8856
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 8183
- mris_sphere ru_nivcsw 15695
- FSRUNTIME@ mris_sphere 0.0609 hours 1 threads
- PIDs (5186 5190) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Mon Oct 9 18:02:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Mon Oct 9 18:02:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Mon Oct 9 18:02:49 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050185 lh
- #@# Fix Topology rh Mon Oct 9 18:02:49 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050185 rh
- Waiting for PID 5409 of (5409 5412) to complete...
- Waiting for PID 5412 of (5409 5412) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050185 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=-736 (nv=139956, nf=281384, ne=422076, g=369)
- 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 11 iterations
- marking ambiguous vertices...
- 105350 ambiguous faces found in tessellation
- segmenting defects...
- 203 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 1 into 0
- -merging segment 6 into 0
- -merging segment 10 into 0
- -merging segment 3 into 2
- -merging segment 29 into 25
- -merging segment 48 into 28
- -merging segment 57 into 43
- -merging segment 59 into 43
- -merging segment 54 into 50
- -merging segment 64 into 52
- -merging segment 73 into 66
- -merging segment 84 into 71
- -merging segment 96 into 78
- -merging segment 91 into 81
- -merging segment 100 into 83
- -merging segment 95 into 83
- -merging segment 112 into 89
- -merging segment 115 into 89
- -merging segment 120 into 89
- -merging segment 107 into 105
- -merging segment 113 into 106
- -merging segment 142 into 116
- -merging segment 137 into 136
- -merging segment 144 into 139
- -merging segment 171 into 165
- -merging segment 188 into 175
- -merging segment 185 into 181
- -merging segment 192 into 181
- -merging segment 200 into 196
- 174 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.4435 (-4.7218)
- -vertex loglikelihood: -6.6475 (-3.3237)
- -normal dot loglikelihood: -3.5750 (-3.5750)
- -quad curv loglikelihood: -6.2674 (-3.1337)
- Total Loglikelihood : -25.9334
- CORRECTING DEFECT 0 (vertices=6098, convex hull=1578, v0=0)
- XL defect detected...
- After retessellation of defect 0 (v0=0), euler #=-164 (82074,235454,153216) : difference with theory (-171) = -7
- CORRECTING DEFECT 1 (vertices=141, convex hull=81, v0=827)
- After retessellation of defect 1 (v0=827), euler #=-162 (82092,235540,153286) : difference with theory (-170) = -8
- CORRECTING DEFECT 2 (vertices=2416, convex hull=612, v0=3266)
- XL defect detected...
- After retessellation of defect 2 (v0=3266), euler #=-161 (82438,236916,154317) : difference with theory (-169) = -8
- CORRECTING DEFECT 3 (vertices=14, convex hull=26, v0=5754)
- After retessellation of defect 3 (v0=5754), euler #=-160 (82441,236935,154334) : difference with theory (-168) = -8
- CORRECTING DEFECT 4 (vertices=85, convex hull=41, v0=5806)
- After retessellation of defect 4 (v0=5806), euler #=-159 (82447,236970,154364) : difference with theory (-167) = -8
- CORRECTING DEFECT 5 (vertices=100, convex hull=55, v0=6110)
- After retessellation of defect 5 (v0=6110), euler #=-158 (82457,237026,154411) : difference with theory (-166) = -8
- CORRECTING DEFECT 6 (vertices=68, convex hull=29, v0=6503)
- After retessellation of defect 6 (v0=6503), euler #=-157 (82468,237072,154447) : difference with theory (-165) = -8
- CORRECTING DEFECT 7 (vertices=106, convex hull=44, v0=8109)
- After retessellation of defect 7 (v0=8109), euler #=-156 (82473,237102,154473) : difference with theory (-164) = -8
- CORRECTING DEFECT 8 (vertices=36, convex hull=30, v0=8235)
- After retessellation of defect 8 (v0=8235), euler #=-155 (82474,237116,154487) : difference with theory (-163) = -8
- CORRECTING DEFECT 9 (vertices=749, convex hull=275, v0=8611)
- After retessellation of defect 9 (v0=8611), euler #=-154 (82663,237818,155001) : difference with theory (-162) = -8
- CORRECTING DEFECT 10 (vertices=365, convex hull=103, v0=8672)
- After retessellation of defect 10 (v0=8672), euler #=-153 (82700,237973,155120) : difference with theory (-161) = -8
- CORRECTING DEFECT 11 (vertices=29, convex hull=62, v0=9303)
- After retessellation of defect 11 (v0=9303), euler #=-152 (82712,238034,155170) : difference with theory (-160) = -8
- CORRECTING DEFECT 12 (vertices=123, convex hull=193, v0=10880)
- After retessellation of defect 12 (v0=10880), euler #=-151 (82787,238341,155403) : difference with theory (-159) = -8
- CORRECTING DEFECT 13 (vertices=182, convex hull=58, v0=11295)
- After retessellation of defect 13 (v0=11295), euler #=-150 (82800,238407,155457) : difference with theory (-158) = -8
- CORRECTING DEFECT 14 (vertices=27, convex hull=41, v0=11303)
- After retessellation of defect 14 (v0=11303), euler #=-149 (82800,238421,155472) : difference with theory (-157) = -8
- CORRECTING DEFECT 15 (vertices=112, convex hull=47, v0=13202)
- After retessellation of defect 15 (v0=13202), euler #=-148 (82809,238465,155508) : difference with theory (-156) = -8
- CORRECTING DEFECT 16 (vertices=87, convex hull=47, v0=14459)
- After retessellation of defect 16 (v0=14459), euler #=-147 (82814,238498,155537) : difference with theory (-155) = -8
- CORRECTING DEFECT 17 (vertices=382, convex hull=105, v0=14611)
- After retessellation of defect 17 (v0=14611), euler #=-146 (82863,238695,155686) : difference with theory (-154) = -8
- CORRECTING DEFECT 18 (vertices=51, convex hull=71, v0=14886)
- After retessellation of defect 18 (v0=14886), euler #=-145 (82874,238757,155738) : difference with theory (-153) = -8
- CORRECTING DEFECT 19 (vertices=29, convex hull=49, v0=14899)
- After retessellation of defect 19 (v0=14899), euler #=-144 (82883,238805,155778) : difference with theory (-152) = -8
- CORRECTING DEFECT 20 (vertices=112, convex hull=53, v0=15445)
- After retessellation of defect 20 (v0=15445), euler #=-143 (82893,238859,155823) : difference with theory (-151) = -8
- CORRECTING DEFECT 21 (vertices=118, convex hull=168, v0=17495)
- After retessellation of defect 21 (v0=17495), euler #=-141 (82938,239067,155988) : difference with theory (-150) = -9
- CORRECTING DEFECT 22 (vertices=24, convex hull=55, v0=18271)
- After retessellation of defect 22 (v0=18271), euler #=-140 (82951,239126,156035) : difference with theory (-149) = -9
- CORRECTING DEFECT 23 (vertices=266, convex hull=38, v0=18529)
- After retessellation of defect 23 (v0=18529), euler #=-139 (82960,239167,156068) : difference with theory (-148) = -9
- CORRECTING DEFECT 24 (vertices=425, convex hull=118, v0=19027)
- After retessellation of defect 24 (v0=19027), euler #=-137 (82993,239324,156194) : difference with theory (-147) = -10
- CORRECTING DEFECT 25 (vertices=381, convex hull=71, v0=19915)
- After retessellation of defect 25 (v0=19915), euler #=-136 (83034,239486,156316) : difference with theory (-146) = -10
- CORRECTING DEFECT 26 (vertices=78, convex hull=57, v0=20050)
- After retessellation of defect 26 (v0=20050), euler #=-135 (83044,239541,156362) : difference with theory (-145) = -10
- CORRECTING DEFECT 27 (vertices=59, convex hull=34, v0=20126)
- After retessellation of defect 27 (v0=20126), euler #=-134 (83053,239581,156394) : difference with theory (-144) = -10
- CORRECTING DEFECT 28 (vertices=132, convex hull=42, v0=20998)
- After retessellation of defect 28 (v0=20998), euler #=-133 (83063,239629,156433) : difference with theory (-143) = -10
- CORRECTING DEFECT 29 (vertices=134, convex hull=48, v0=21087)
- After retessellation of defect 29 (v0=21087), euler #=-132 (83084,239713,156497) : difference with theory (-142) = -10
- CORRECTING DEFECT 30 (vertices=83, convex hull=104, v0=22580)
- After retessellation of defect 30 (v0=22580), euler #=-131 (83131,239896,156634) : difference with theory (-141) = -10
- CORRECTING DEFECT 31 (vertices=456, convex hull=182, v0=23423)
- After retessellation of defect 31 (v0=23423), euler #=-130 (83176,240125,156819) : difference with theory (-140) = -10
- CORRECTING DEFECT 32 (vertices=21, convex hull=59, v0=23979)
- After retessellation of defect 32 (v0=23979), euler #=-129 (83189,240185,156867) : difference with theory (-139) = -10
- CORRECTING DEFECT 33 (vertices=27, convex hull=28, v0=24468)
- After retessellation of defect 33 (v0=24468), euler #=-128 (83192,240202,156882) : difference with theory (-138) = -10
- CORRECTING DEFECT 34 (vertices=31, convex hull=24, v0=24628)
- After retessellation of defect 34 (v0=24628), euler #=-127 (83201,240234,156906) : difference with theory (-137) = -10
- CORRECTING DEFECT 35 (vertices=11, convex hull=23, v0=24932)
- After retessellation of defect 35 (v0=24932), euler #=-126 (83202,240242,156914) : difference with theory (-136) = -10
- CORRECTING DEFECT 36 (vertices=47, convex hull=35, v0=24976)
- After retessellation of defect 36 (v0=24976), euler #=-125 (83212,240282,156945) : difference with theory (-135) = -10
- CORRECTING DEFECT 37 (vertices=198, convex hull=99, v0=25152)
- After retessellation of defect 37 (v0=25152), euler #=-124 (83258,240464,157082) : difference with theory (-134) = -10
- CORRECTING DEFECT 38 (vertices=1466, convex hull=560, v0=27219)
- L defect detected...
- After retessellation of defect 38 (v0=27219), euler #=-121 (83559,241667,157987) : difference with theory (-133) = -12
- CORRECTING DEFECT 39 (vertices=101, convex hull=54, v0=27454)
- After retessellation of defect 39 (v0=27454), euler #=-120 (83578,241748,158050) : difference with theory (-132) = -12
- CORRECTING DEFECT 40 (vertices=44, convex hull=33, v0=27856)
- After retessellation of defect 40 (v0=27856), euler #=-119 (83584,241778,158075) : difference with theory (-131) = -12
- CORRECTING DEFECT 41 (vertices=30, convex hull=70, v0=28088)
- After retessellation of defect 41 (v0=28088), euler #=-118 (83602,241859,158139) : difference with theory (-130) = -12
- CORRECTING DEFECT 42 (vertices=5, convex hull=18, v0=28928)
- After retessellation of defect 42 (v0=28928), euler #=-117 (83602,241865,158146) : difference with theory (-129) = -12
- CORRECTING DEFECT 43 (vertices=114, convex hull=51, v0=30107)
- After retessellation of defect 43 (v0=30107), euler #=-116 (83609,241908,158183) : difference with theory (-128) = -12
- CORRECTING DEFECT 44 (vertices=11, convex hull=26, v0=30379)
- After retessellation of defect 44 (v0=30379), euler #=-114 (83611,241925,158200) : difference with theory (-127) = -13
- CORRECTING DEFECT 45 (vertices=32, convex hull=24, v0=30719)
- After retessellation of defect 45 (v0=30719), euler #=-113 (83615,241946,158218) : difference with theory (-126) = -13
- CORRECTING DEFECT 46 (vertices=624, convex hull=362, v0=30840)
- normal vector of length zero at vertex 26833 with 4 faces
- normal vector of length zero at vertex 26833 with 4 faces
- normal vector of length zero at vertex 26833 with 4 faces
- normal vector of length zero at vertex 26833 with 4 faces
- After retessellation of defect 46 (v0=30840), euler #=-111 (83778,242627,158738) : difference with theory (-125) = -14
- CORRECTING DEFECT 47 (vertices=35, convex hull=27, v0=31084)
- After retessellation of defect 47 (v0=31084), euler #=-110 (83782,242647,158755) : difference with theory (-124) = -14
- CORRECTING DEFECT 48 (vertices=69, convex hull=45, v0=31258)
- After retessellation of defect 48 (v0=31258), euler #=-109 (83791,242693,158793) : difference with theory (-123) = -14
- CORRECTING DEFECT 49 (vertices=17, convex hull=24, v0=31681)
- After retessellation of defect 49 (v0=31681), euler #=-108 (83793,242710,158809) : difference with theory (-122) = -14
- CORRECTING DEFECT 50 (vertices=10, convex hull=34, v0=32031)
- After retessellation of defect 50 (v0=32031), euler #=-107 (83797,242733,158829) : difference with theory (-121) = -14
- CORRECTING DEFECT 51 (vertices=87, convex hull=50, v0=32848)
- After retessellation of defect 51 (v0=32848), euler #=-106 (83812,242799,158881) : difference with theory (-120) = -14
- CORRECTING DEFECT 52 (vertices=31, convex hull=36, v0=33272)
- After retessellation of defect 52 (v0=33272), euler #=-105 (83816,242823,158902) : difference with theory (-119) = -14
- CORRECTING DEFECT 53 (vertices=45, convex hull=77, v0=33602)
- After retessellation of defect 53 (v0=33602), euler #=-104 (83840,242927,158983) : difference with theory (-118) = -14
- CORRECTING DEFECT 54 (vertices=12, convex hull=30, v0=33674)
- After retessellation of defect 54 (v0=33674), euler #=-103 (83844,242947,159000) : difference with theory (-117) = -14
- CORRECTING DEFECT 55 (vertices=25, convex hull=27, v0=35123)
- After retessellation of defect 55 (v0=35123), euler #=-102 (83850,242976,159024) : difference with theory (-116) = -14
- CORRECTING DEFECT 56 (vertices=90, convex hull=88, v0=35128)
- After retessellation of defect 56 (v0=35128), euler #=-100 (83860,243047,159087) : difference with theory (-115) = -15
- CORRECTING DEFECT 57 (vertices=160, convex hull=145, v0=35827)
- After retessellation of defect 57 (v0=35827), euler #=-99 (83912,243268,159257) : difference with theory (-114) = -15
- CORRECTING DEFECT 58 (vertices=8, convex hull=40, v0=35926)
- After retessellation of defect 58 (v0=35926), euler #=-98 (83913,243282,159271) : difference with theory (-113) = -15
- CORRECTING DEFECT 59 (vertices=106, convex hull=68, v0=35947)
- After retessellation of defect 59 (v0=35947), euler #=-97 (83928,243354,159329) : difference with theory (-112) = -15
- CORRECTING DEFECT 60 (vertices=8, convex hull=21, v0=36468)
- After retessellation of defect 60 (v0=36468), euler #=-96 (83929,243363,159338) : difference with theory (-111) = -15
- CORRECTING DEFECT 61 (vertices=1936, convex hull=660, v0=36842)
- XL defect detected...
- After retessellation of defect 61 (v0=36842), euler #=-96 (84462,245337,160779) : difference with theory (-110) = -14
- CORRECTING DEFECT 62 (vertices=88, convex hull=140, v0=37780)
- After retessellation of defect 62 (v0=37780), euler #=-95 (84496,245504,160913) : difference with theory (-109) = -14
- CORRECTING DEFECT 63 (vertices=25, convex hull=40, v0=39267)
- After retessellation of defect 63 (v0=39267), euler #=-94 (84508,245555,160953) : difference with theory (-108) = -14
- CORRECTING DEFECT 64 (vertices=159, convex hull=179, v0=40338)
- After retessellation of defect 64 (v0=40338), euler #=-93 (84593,245893,161207) : difference with theory (-107) = -14
- CORRECTING DEFECT 65 (vertices=48, convex hull=101, v0=40531)
- After retessellation of defect 65 (v0=40531), euler #=-92 (84614,245993,161287) : difference with theory (-106) = -14
- CORRECTING DEFECT 66 (vertices=6, convex hull=31, v0=40663)
- After retessellation of defect 66 (v0=40663), euler #=-91 (84616,246009,161302) : difference with theory (-105) = -14
- CORRECTING DEFECT 67 (vertices=247, convex hull=125, v0=40711)
- After retessellation of defect 67 (v0=40711), euler #=-89 (84632,246117,161396) : difference with theory (-104) = -15
- CORRECTING DEFECT 68 (vertices=17, convex hull=18, v0=40908)
- After retessellation of defect 68 (v0=40908), euler #=-88 (84632,246123,161403) : difference with theory (-103) = -15
- CORRECTING DEFECT 69 (vertices=32, convex hull=69, v0=40947)
- After retessellation of defect 69 (v0=40947), euler #=-87 (84641,246178,161450) : difference with theory (-102) = -15
- CORRECTING DEFECT 70 (vertices=427, convex hull=407, v0=41343)
- After retessellation of defect 70 (v0=41343), euler #=-85 (84864,247055,162106) : difference with theory (-101) = -16
- CORRECTING DEFECT 71 (vertices=49, convex hull=48, v0=41459)
- After retessellation of defect 71 (v0=41459), euler #=-84 (84873,247098,162141) : difference with theory (-100) = -16
- CORRECTING DEFECT 72 (vertices=2118, convex hull=1099, v0=42752)
- XL defect detected...
- After retessellation of defect 72 (v0=42752), euler #=-84 (85459,249434,163891) : difference with theory (-99) = -15
- CORRECTING DEFECT 73 (vertices=153, convex hull=198, v0=43366)
- After retessellation of defect 73 (v0=43366), euler #=-83 (85549,249804,164172) : difference with theory (-98) = -15
- CORRECTING DEFECT 74 (vertices=144, convex hull=53, v0=43668)
- After retessellation of defect 74 (v0=43668), euler #=-82 (85578,249912,164252) : difference with theory (-97) = -15
- CORRECTING DEFECT 75 (vertices=5, convex hull=18, v0=43750)
- After retessellation of defect 75 (v0=43750), euler #=-81 (85580,249922,164261) : difference with theory (-96) = -15
- CORRECTING DEFECT 76 (vertices=378, convex hull=116, v0=43766)
- After retessellation of defect 76 (v0=43766), euler #=-80 (85627,250113,164406) : difference with theory (-95) = -15
- CORRECTING DEFECT 77 (vertices=10298, convex hull=2781, v0=44935)
- XL defect detected...
- After retessellation of defect 77 (v0=44935), euler #=-89 (87554,257611,169968) : difference with theory (-94) = -5
- CORRECTING DEFECT 78 (vertices=73, convex hull=81, v0=45165)
- After retessellation of defect 78 (v0=45165), euler #=-88 (87590,257755,170077) : difference with theory (-93) = -5
- CORRECTING DEFECT 79 (vertices=58, convex hull=33, v0=46282)
- After retessellation of defect 79 (v0=46282), euler #=-87 (87599,257794,170108) : difference with theory (-92) = -5
- CORRECTING DEFECT 80 (vertices=5, convex hull=15, v0=46431)
- After retessellation of defect 80 (v0=46431), euler #=-86 (87600,257801,170115) : difference with theory (-91) = -5
- CORRECTING DEFECT 81 (vertices=334, convex hull=159, v0=46874)
- After retessellation of defect 81 (v0=46874), euler #=-85 (87699,258173,170389) : difference with theory (-90) = -5
- CORRECTING DEFECT 82 (vertices=72, convex hull=88, v0=50086)
- After retessellation of defect 82 (v0=50086), euler #=-84 (87737,258322,170501) : difference with theory (-89) = -5
- CORRECTING DEFECT 83 (vertices=37, convex hull=26, v0=54105)
- After retessellation of defect 83 (v0=54105), euler #=-83 (87744,258352,170525) : difference with theory (-88) = -5
- CORRECTING DEFECT 84 (vertices=313, convex hull=150, v0=54159)
- After retessellation of defect 84 (v0=54159), euler #=-82 (87851,258758,170825) : difference with theory (-87) = -5
- CORRECTING DEFECT 85 (vertices=6, convex hull=11, v0=58846)
- After retessellation of defect 85 (v0=58846), euler #=-81 (87853,258766,170832) : difference with theory (-86) = -5
- CORRECTING DEFECT 86 (vertices=295, convex hull=136, v0=59139)
- After retessellation of defect 86 (v0=59139), euler #=-80 (87947,259104,171077) : difference with theory (-85) = -5
- CORRECTING DEFECT 87 (vertices=8, convex hull=24, v0=60159)
- After retessellation of defect 87 (v0=60159), euler #=-79 (87950,259119,171090) : difference with theory (-84) = -5
- CORRECTING DEFECT 88 (vertices=678, convex hull=288, v0=61056)
- After retessellation of defect 88 (v0=61056), euler #=-78 (88199,260011,171734) : difference with theory (-83) = -5
- CORRECTING DEFECT 89 (vertices=152, convex hull=242, v0=61611)
- After retessellation of defect 89 (v0=61611), euler #=-76 (88224,260191,171891) : difference with theory (-82) = -6
- CORRECTING DEFECT 90 (vertices=1248, convex hull=338, v0=61920)
- After retessellation of defect 90 (v0=61920), euler #=-74 (88404,260897,172419) : difference with theory (-81) = -7
- CORRECTING DEFECT 91 (vertices=20, convex hull=27, v0=63790)
- After retessellation of defect 91 (v0=63790), euler #=-73 (88406,260913,172434) : difference with theory (-80) = -7
- CORRECTING DEFECT 92 (vertices=878, convex hull=246, v0=65098)
- After retessellation of defect 92 (v0=65098), euler #=-72 (88572,261532,172888) : difference with theory (-79) = -7
- CORRECTING DEFECT 93 (vertices=21, convex hull=27, v0=66842)
- After retessellation of defect 93 (v0=66842), euler #=-71 (88575,261550,172904) : difference with theory (-78) = -7
- CORRECTING DEFECT 94 (vertices=33, convex hull=62, v0=67666)
- After retessellation of defect 94 (v0=67666), euler #=-70 (88599,261649,172980) : difference with theory (-77) = -7
- CORRECTING DEFECT 95 (vertices=26, convex hull=58, v0=70767)
- After retessellation of defect 95 (v0=70767), euler #=-69 (88613,261718,173036) : difference with theory (-76) = -7
- CORRECTING DEFECT 96 (vertices=4769, convex hull=1162, v0=73135)
- XL defect detected...
- After retessellation of defect 96 (v0=73135), euler #=-73 (89681,265648,175894) : difference with theory (-75) = -2
- CORRECTING DEFECT 97 (vertices=13, convex hull=16, v0=76890)
- After retessellation of defect 97 (v0=76890), euler #=-72 (89684,265659,175903) : difference with theory (-74) = -2
- CORRECTING DEFECT 98 (vertices=31, convex hull=26, v0=77280)
- After retessellation of defect 98 (v0=77280), euler #=-71 (89690,265684,175923) : difference with theory (-73) = -2
- CORRECTING DEFECT 99 (vertices=7, convex hull=14, v0=78830)
- After retessellation of defect 99 (v0=78830), euler #=-70 (89690,265687,175927) : difference with theory (-72) = -2
- CORRECTING DEFECT 100 (vertices=25, convex hull=47, v0=81865)
- After retessellation of defect 100 (v0=81865), euler #=-69 (89703,265742,175970) : difference with theory (-71) = -2
- CORRECTING DEFECT 101 (vertices=196, convex hull=90, v0=82475)
- After retessellation of defect 101 (v0=82475), euler #=-68 (89751,265928,176109) : difference with theory (-70) = -2
- CORRECTING DEFECT 102 (vertices=97, convex hull=47, v0=83274)
- After retessellation of defect 102 (v0=83274), euler #=-67 (89775,266022,176180) : difference with theory (-69) = -2
- CORRECTING DEFECT 103 (vertices=113, convex hull=65, v0=83560)
- After retessellation of defect 103 (v0=83560), euler #=-66 (89806,266144,176272) : difference with theory (-68) = -2
- CORRECTING DEFECT 104 (vertices=111, convex hull=34, v0=83829)
- After retessellation of defect 104 (v0=83829), euler #=-65 (89822,266204,176317) : difference with theory (-67) = -2
- CORRECTING DEFECT 105 (vertices=13, convex hull=23, v0=85393)
- After retessellation of defect 105 (v0=85393), euler #=-64 (89825,266221,176332) : difference with theory (-66) = -2
- CORRECTING DEFECT 106 (vertices=6, convex hull=22, v0=88203)
- After retessellation of defect 106 (v0=88203), euler #=-63 (89827,266232,176342) : difference with theory (-65) = -2
- CORRECTING DEFECT 107 (vertices=30, convex hull=52, v0=88873)
- After retessellation of defect 107 (v0=88873), euler #=-62 (89842,266297,176393) : difference with theory (-64) = -2
- CORRECTING DEFECT 108 (vertices=8, convex hull=21, v0=88965)
- After retessellation of defect 108 (v0=88965), euler #=-61 (89844,266309,176404) : difference with theory (-63) = -2
- CORRECTING DEFECT 109 (vertices=27, convex hull=29, v0=89548)
- After retessellation of defect 109 (v0=89548), euler #=-60 (89850,266340,176430) : difference with theory (-62) = -2
- CORRECTING DEFECT 110 (vertices=52, convex hull=31, v0=91222)
- After retessellation of defect 110 (v0=91222), euler #=-59 (89858,266377,176460) : difference with theory (-61) = -2
- CORRECTING DEFECT 111 (vertices=21, convex hull=29, v0=91274)
- After retessellation of defect 111 (v0=91274), euler #=-58 (89862,266399,176479) : difference with theory (-60) = -2
- CORRECTING DEFECT 112 (vertices=285, convex hull=54, v0=91347)
- After retessellation of defect 112 (v0=91347), euler #=-57 (89871,266446,176518) : difference with theory (-59) = -2
- CORRECTING DEFECT 113 (vertices=17, convex hull=35, v0=91788)
- After retessellation of defect 113 (v0=91788), euler #=-56 (89876,266476,176544) : difference with theory (-58) = -2
- CORRECTING DEFECT 114 (vertices=63, convex hull=107, v0=91898)
- After retessellation of defect 114 (v0=91898), euler #=-55 (89914,266630,176661) : difference with theory (-57) = -2
- CORRECTING DEFECT 115 (vertices=299, convex hull=160, v0=94504)
- After retessellation of defect 115 (v0=94504), euler #=-53 (89988,266933,176892) : difference with theory (-56) = -3
- CORRECTING DEFECT 116 (vertices=24, convex hull=46, v0=94668)
- After retessellation of defect 116 (v0=94668), euler #=-52 (89997,266975,176926) : difference with theory (-55) = -3
- CORRECTING DEFECT 117 (vertices=446, convex hull=179, v0=96149)
- After retessellation of defect 117 (v0=96149), euler #=-50 (90075,267303,177178) : difference with theory (-54) = -4
- CORRECTING DEFECT 118 (vertices=40, convex hull=75, v0=97595)
- After retessellation of defect 118 (v0=97595), euler #=-49 (90099,267406,177258) : difference with theory (-53) = -4
- CORRECTING DEFECT 119 (vertices=71, convex hull=60, v0=97625)
- After retessellation of defect 119 (v0=97625), euler #=-48 (90119,267495,177328) : difference with theory (-52) = -4
- CORRECTING DEFECT 120 (vertices=25, convex hull=24, v0=98685)
- After retessellation of defect 120 (v0=98685), euler #=-47 (90126,267522,177349) : difference with theory (-51) = -4
- CORRECTING DEFECT 121 (vertices=81, convex hull=134, v0=99350)
- After retessellation of defect 121 (v0=99350), euler #=-46 (90182,267748,177520) : difference with theory (-50) = -4
- CORRECTING DEFECT 122 (vertices=42, convex hull=77, v0=99353)
- After retessellation of defect 122 (v0=99353), euler #=-45 (90207,267853,177601) : difference with theory (-49) = -4
- CORRECTING DEFECT 123 (vertices=84, convex hull=52, v0=99843)
- After retessellation of defect 123 (v0=99843), euler #=-44 (90234,267956,177678) : difference with theory (-48) = -4
- CORRECTING DEFECT 124 (vertices=21, convex hull=38, v0=100574)
- After retessellation of defect 124 (v0=100574), euler #=-43 (90237,267977,177697) : difference with theory (-47) = -4
- CORRECTING DEFECT 125 (vertices=84, convex hull=98, v0=101742)
- After retessellation of defect 125 (v0=101742), euler #=-42 (90268,268115,177805) : difference with theory (-46) = -4
- CORRECTING DEFECT 126 (vertices=25, convex hull=58, v0=101755)
- After retessellation of defect 126 (v0=101755), euler #=-41 (90278,268168,177849) : difference with theory (-45) = -4
- CORRECTING DEFECT 127 (vertices=31, convex hull=27, v0=102962)
- After retessellation of defect 127 (v0=102962), euler #=-40 (90280,268181,177861) : difference with theory (-44) = -4
- CORRECTING DEFECT 128 (vertices=746, convex hull=337, v0=103032)
- After retessellation of defect 128 (v0=103032), euler #=-43 (90464,268950,178443) : difference with theory (-43) = 0
- CORRECTING DEFECT 129 (vertices=46, convex hull=41, v0=103245)
- After retessellation of defect 129 (v0=103245), euler #=-42 (90473,268996,178481) : difference with theory (-42) = 0
- CORRECTING DEFECT 130 (vertices=279, convex hull=118, v0=103291)
- After retessellation of defect 130 (v0=103291), euler #=-41 (90517,269185,178627) : difference with theory (-41) = 0
- CORRECTING DEFECT 131 (vertices=72, convex hull=43, v0=103417)
- After retessellation of defect 131 (v0=103417), euler #=-40 (90526,269229,178663) : difference with theory (-40) = 0
- CORRECTING DEFECT 132 (vertices=48, convex hull=58, v0=105875)
- After retessellation of defect 132 (v0=105875), euler #=-39 (90544,269307,178724) : difference with theory (-39) = 0
- CORRECTING DEFECT 133 (vertices=35, convex hull=65, v0=106236)
- After retessellation of defect 133 (v0=106236), euler #=-38 (90556,269370,178776) : difference with theory (-38) = 0
- CORRECTING DEFECT 134 (vertices=8, convex hull=28, v0=106480)
- After retessellation of defect 134 (v0=106480), euler #=-37 (90557,269384,178790) : difference with theory (-37) = 0
- CORRECTING DEFECT 135 (vertices=190, convex hull=79, v0=106484)
- After retessellation of defect 135 (v0=106484), euler #=-36 (90568,269455,178851) : difference with theory (-36) = 0
- CORRECTING DEFECT 136 (vertices=190, convex hull=24, v0=106660)
- After retessellation of defect 136 (v0=106660), euler #=-35 (90577,269488,178876) : difference with theory (-35) = 0
- CORRECTING DEFECT 137 (vertices=54, convex hull=70, v0=106898)
- After retessellation of defect 137 (v0=106898), euler #=-34 (90600,269590,178956) : difference with theory (-34) = 0
- CORRECTING DEFECT 138 (vertices=99, convex hull=53, v0=107983)
- After retessellation of defect 138 (v0=107983), euler #=-33 (90612,269648,179003) : difference with theory (-33) = 0
- CORRECTING DEFECT 139 (vertices=291, convex hull=89, v0=108177)
- After retessellation of defect 139 (v0=108177), euler #=-32 (90628,269737,179077) : difference with theory (-32) = 0
- CORRECTING DEFECT 140 (vertices=10, convex hull=18, v0=108769)
- After retessellation of defect 140 (v0=108769), euler #=-31 (90630,269746,179085) : difference with theory (-31) = 0
- CORRECTING DEFECT 141 (vertices=72, convex hull=76, v0=109775)
- After retessellation of defect 141 (v0=109775), euler #=-29 (90658,269868,179181) : difference with theory (-30) = -1
- CORRECTING DEFECT 142 (vertices=205, convex hull=117, v0=110668)
- After retessellation of defect 142 (v0=110668), euler #=-28 (90697,270040,179315) : difference with theory (-29) = -1
- CORRECTING DEFECT 143 (vertices=29, convex hull=50, v0=110786)
- After retessellation of defect 143 (v0=110786), euler #=-27 (90712,270102,179363) : difference with theory (-28) = -1
- CORRECTING DEFECT 144 (vertices=119, convex hull=152, v0=111342)
- After retessellation of defect 144 (v0=111342), euler #=-26 (90771,270350,179553) : difference with theory (-27) = -1
- CORRECTING DEFECT 145 (vertices=465, convex hull=279, v0=112673)
- After retessellation of defect 145 (v0=112673), euler #=-25 (90933,270972,180014) : difference with theory (-26) = -1
- CORRECTING DEFECT 146 (vertices=35, convex hull=72, v0=112867)
- After retessellation of defect 146 (v0=112867), euler #=-24 (90950,271051,180077) : difference with theory (-25) = -1
- CORRECTING DEFECT 147 (vertices=101, convex hull=32, v0=113371)
- After retessellation of defect 147 (v0=113371), euler #=-23 (90957,271086,180106) : difference with theory (-24) = -1
- CORRECTING DEFECT 148 (vertices=50, convex hull=71, v0=113416)
- After retessellation of defect 148 (v0=113416), euler #=-23 (90977,271189,180189) : difference with theory (-23) = 0
- CORRECTING DEFECT 149 (vertices=48, convex hull=23, v0=113511)
- After retessellation of defect 149 (v0=113511), euler #=-22 (90984,271218,180212) : difference with theory (-22) = 0
- CORRECTING DEFECT 150 (vertices=3017, convex hull=560, v0=113916)
- XL defect detected...
- After retessellation of defect 150 (v0=113916), euler #=-20 (91395,272755,181340) : difference with theory (-21) = -1
- CORRECTING DEFECT 151 (vertices=43, convex hull=30, v0=115176)
- After retessellation of defect 151 (v0=115176), euler #=-19 (91403,272790,181368) : difference with theory (-20) = -1
- CORRECTING DEFECT 152 (vertices=7, convex hull=13, v0=116937)
- After retessellation of defect 152 (v0=116937), euler #=-18 (91404,272797,181375) : difference with theory (-19) = -1
- CORRECTING DEFECT 153 (vertices=102, convex hull=67, v0=117105)
- After retessellation of defect 153 (v0=117105), euler #=-17 (91412,272848,181419) : difference with theory (-18) = -1
- CORRECTING DEFECT 154 (vertices=5, convex hull=18, v0=117529)
- After retessellation of defect 154 (v0=117529), euler #=-16 (91412,272852,181424) : difference with theory (-17) = -1
- CORRECTING DEFECT 155 (vertices=29, convex hull=29, v0=117906)
- After retessellation of defect 155 (v0=117906), euler #=-15 (91416,272873,181442) : difference with theory (-16) = -1
- CORRECTING DEFECT 156 (vertices=4907, convex hull=1078, v0=118597)
- XL defect detected...
- After retessellation of defect 156 (v0=118597), euler #=-13 (92013,275267,183241) : difference with theory (-15) = -2
- CORRECTING DEFECT 157 (vertices=31, convex hull=33, v0=118675)
- After retessellation of defect 157 (v0=118675), euler #=-12 (92015,275282,183255) : difference with theory (-14) = -2
- CORRECTING DEFECT 158 (vertices=263, convex hull=305, v0=121188)
- After retessellation of defect 158 (v0=121188), euler #=-12 (92148,275835,183675) : difference with theory (-13) = -1
- CORRECTING DEFECT 159 (vertices=5, convex hull=21, v0=121407)
- After retessellation of defect 159 (v0=121407), euler #=-11 (92150,275847,183686) : difference with theory (-12) = -1
- CORRECTING DEFECT 160 (vertices=78, convex hull=43, v0=123067)
- After retessellation of defect 160 (v0=123067), euler #=-10 (92151,275863,183702) : difference with theory (-11) = -1
- CORRECTING DEFECT 161 (vertices=24, convex hull=28, v0=125069)
- After retessellation of defect 161 (v0=125069), euler #=-9 (92156,275886,183721) : difference with theory (-10) = -1
- CORRECTING DEFECT 162 (vertices=44, convex hull=74, v0=125218)
- After retessellation of defect 162 (v0=125218), euler #=-8 (92179,275986,183799) : difference with theory (-9) = -1
- CORRECTING DEFECT 163 (vertices=37, convex hull=76, v0=125676)
- After retessellation of defect 163 (v0=125676), euler #=-7 (92203,276086,183876) : difference with theory (-8) = -1
- CORRECTING DEFECT 164 (vertices=52, convex hull=44, v0=126569)
- After retessellation of defect 164 (v0=126569), euler #=-6 (92208,276120,183906) : difference with theory (-7) = -1
- CORRECTING DEFECT 165 (vertices=6, convex hull=29, v0=127089)
- After retessellation of defect 165 (v0=127089), euler #=-5 (92208,276128,183915) : difference with theory (-6) = -1
- CORRECTING DEFECT 166 (vertices=41, convex hull=31, v0=127824)
- After retessellation of defect 166 (v0=127824), euler #=-4 (92211,276149,183934) : difference with theory (-5) = -1
- CORRECTING DEFECT 167 (vertices=35, convex hull=28, v0=128452)
- After retessellation of defect 167 (v0=128452), euler #=-3 (92214,276170,183953) : difference with theory (-4) = -1
- CORRECTING DEFECT 168 (vertices=285, convex hull=177, v0=129451)
- After retessellation of defect 168 (v0=129451), euler #=-1 (92305,276534,184228) : difference with theory (-3) = -2
- CORRECTING DEFECT 169 (vertices=1868, convex hull=578, v0=129952)
- XL defect detected...
- After retessellation of defect 169 (v0=129952), euler #=-2 (92542,277565,185021) : difference with theory (-2) = 0
- CORRECTING DEFECT 170 (vertices=11, convex hull=25, v0=130094)
- After retessellation of defect 170 (v0=130094), euler #=-1 (92543,277576,185032) : difference with theory (-1) = 0
- CORRECTING DEFECT 171 (vertices=126, convex hull=37, v0=130611)
- After retessellation of defect 171 (v0=130611), euler #=0 (92554,277620,185066) : difference with theory (0) = 0
- CORRECTING DEFECT 172 (vertices=16, convex hull=34, v0=135336)
- After retessellation of defect 172 (v0=135336), euler #=1 (92556,277639,185084) : difference with theory (1) = 0
- CORRECTING DEFECT 173 (vertices=24, convex hull=60, v0=137712)
- After retessellation of defect 173 (v0=137712), euler #=2 (92565,277689,185126) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.92 +- 0.46 (0.03-->25.49) (max @ vno 49909 --> 61539)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.92 +- 0.46 (0.03-->25.49) (max @ vno 49909 --> 61539)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 565 mutations (36.4%), 989 crossovers (63.6%), 3294 vertices were eliminated
- building final representation...
- 47391 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=92565, nf=185126, ne=277689, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 988.3 minutes
- 0 defective edges
- removing intersecting faces
- 000: 3830 intersecting
- 001: 297 intersecting
- 002: 103 intersecting
- 003: 55 intersecting
- 004: 30 intersecting
- expanding nbhd size to 2
- 005: 33 intersecting
- 006: 21 intersecting
- expanding nbhd size to 3
- 007: 26 intersecting
- 008: 20 intersecting
- expanding nbhd size to 4
- 009: 27 intersecting
- 010: 25 intersecting
- 011: 23 intersecting
- 012: 21 intersecting
- 013: 6 intersecting
- mris_fix_topology utimesec 59296.959491
- mris_fix_topology stimesec 23.280460
- mris_fix_topology ru_maxrss 1261492
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 586536
- mris_fix_topology ru_majflt 6
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 37776
- mris_fix_topology ru_oublock 10656
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 580
- mris_fix_topology ru_nivcsw 202837
- FSRUNTIME@ mris_fix_topology lh 16.4716 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050185 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=-560 (nv=124914, nf=250948, ne=376422, g=281)
- 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 12 iterations
- marking ambiguous vertices...
- 72341 ambiguous faces found in tessellation
- segmenting defects...
- 233 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 2 into 0
- -merging segment 27 into 0
- -merging segment 11 into 0
- -merging segment 4 into 1
- -merging segment 6 into 1
- -merging segment 31 into 25
- -merging segment 51 into 47
- -merging segment 57 into 50
- -merging segment 81 into 75
- -merging segment 101 into 95
- -merging segment 108 into 97
- -merging segment 104 into 100
- -merging segment 112 into 106
- -merging segment 138 into 128
- -merging segment 133 into 135
- -merging segment 153 into 150
- -merging segment 157 into 150
- -merging segment 160 into 159
- -merging segment 173 into 167
- -merging segment 202 into 201
- -merging segment 208 into 203
- -merging segment 223 into 212
- -merging segment 224 into 220
- 210 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.2655 (-4.6328)
- -vertex loglikelihood: -6.5807 (-3.2904)
- -normal dot loglikelihood: -3.5438 (-3.5438)
- -quad curv loglikelihood: -6.2302 (-3.1151)
- Total Loglikelihood : -25.6203
- CORRECTING DEFECT 0 (vertices=4579, convex hull=1188, v0=0)
- XL defect detected...
- After retessellation of defect 0 (v0=0), euler #=-203 (84827,246026,160996) : difference with theory (-207) = -4
- CORRECTING DEFECT 1 (vertices=663, convex hull=346, v0=1333)
- After retessellation of defect 1 (v0=1333), euler #=-200 (84956,246608,161452) : difference with theory (-206) = -6
- CORRECTING DEFECT 2 (vertices=6, convex hull=24, v0=3557)
- After retessellation of defect 2 (v0=3557), euler #=-199 (84957,246617,161461) : difference with theory (-205) = -6
- CORRECTING DEFECT 3 (vertices=134, convex hull=63, v0=3926)
- After retessellation of defect 3 (v0=3926), euler #=-198 (84975,246696,161523) : difference with theory (-204) = -6
- CORRECTING DEFECT 4 (vertices=15, convex hull=22, v0=4302)
- After retessellation of defect 4 (v0=4302), euler #=-197 (84978,246711,161536) : difference with theory (-203) = -6
- CORRECTING DEFECT 5 (vertices=77, convex hull=32, v0=4662)
- After retessellation of defect 5 (v0=4662), euler #=-196 (84980,246729,161553) : difference with theory (-202) = -6
- CORRECTING DEFECT 6 (vertices=1990, convex hull=571, v0=4704)
- XL defect detected...
- After retessellation of defect 6 (v0=4704), euler #=-197 (85243,247834,162394) : difference with theory (-201) = -4
- CORRECTING DEFECT 7 (vertices=279, convex hull=117, v0=4723)
- After retessellation of defect 7 (v0=4723), euler #=-196 (85255,247926,162475) : difference with theory (-200) = -4
- CORRECTING DEFECT 8 (vertices=51, convex hull=62, v0=6147)
- After retessellation of defect 8 (v0=6147), euler #=-195 (85276,248018,162547) : difference with theory (-199) = -4
- CORRECTING DEFECT 9 (vertices=58, convex hull=39, v0=6436)
- After retessellation of defect 9 (v0=6436), euler #=-194 (85283,248056,162579) : difference with theory (-198) = -4
- CORRECTING DEFECT 10 (vertices=128, convex hull=49, v0=6620)
- After retessellation of defect 10 (v0=6620), euler #=-193 (85297,248115,162625) : difference with theory (-197) = -4
- CORRECTING DEFECT 11 (vertices=48, convex hull=56, v0=6942)
- After retessellation of defect 11 (v0=6942), euler #=-192 (85309,248173,162672) : difference with theory (-196) = -4
- CORRECTING DEFECT 12 (vertices=58, convex hull=77, v0=7153)
- After retessellation of defect 12 (v0=7153), euler #=-191 (85324,248249,162734) : difference with theory (-195) = -4
- CORRECTING DEFECT 13 (vertices=51, convex hull=58, v0=7216)
- After retessellation of defect 13 (v0=7216), euler #=-190 (85336,248308,162782) : difference with theory (-194) = -4
- CORRECTING DEFECT 14 (vertices=36, convex hull=62, v0=8009)
- After retessellation of defect 14 (v0=8009), euler #=-189 (85356,248391,162846) : difference with theory (-193) = -4
- CORRECTING DEFECT 15 (vertices=138, convex hull=38, v0=8254)
- After retessellation of defect 15 (v0=8254), euler #=-188 (85368,248443,162887) : difference with theory (-192) = -4
- CORRECTING DEFECT 16 (vertices=116, convex hull=59, v0=8921)
- After retessellation of defect 16 (v0=8921), euler #=-187 (85383,248512,162942) : difference with theory (-191) = -4
- CORRECTING DEFECT 17 (vertices=18, convex hull=50, v0=9018)
- After retessellation of defect 17 (v0=9018), euler #=-186 (85393,248557,162978) : difference with theory (-190) = -4
- CORRECTING DEFECT 18 (vertices=12, convex hull=23, v0=9043)
- After retessellation of defect 18 (v0=9043), euler #=-185 (85396,248570,162989) : difference with theory (-189) = -4
- CORRECTING DEFECT 19 (vertices=45, convex hull=44, v0=9369)
- After retessellation of defect 19 (v0=9369), euler #=-184 (85402,248604,163018) : difference with theory (-188) = -4
- CORRECTING DEFECT 20 (vertices=107, convex hull=61, v0=9453)
- After retessellation of defect 20 (v0=9453), euler #=-183 (85418,248674,163073) : difference with theory (-187) = -4
- CORRECTING DEFECT 21 (vertices=79, convex hull=87, v0=10253)
- After retessellation of defect 21 (v0=10253), euler #=-181 (85436,248770,163153) : difference with theory (-186) = -5
- CORRECTING DEFECT 22 (vertices=25, convex hull=32, v0=10256)
- After retessellation of defect 22 (v0=10256), euler #=-180 (85438,248789,163171) : difference with theory (-185) = -5
- CORRECTING DEFECT 23 (vertices=173, convex hull=75, v0=11558)
- After retessellation of defect 23 (v0=11558), euler #=-179 (85464,248906,163263) : difference with theory (-184) = -5
- CORRECTING DEFECT 24 (vertices=17, convex hull=26, v0=12033)
- After retessellation of defect 24 (v0=12033), euler #=-178 (85466,248919,163275) : difference with theory (-183) = -5
- CORRECTING DEFECT 25 (vertices=76, convex hull=56, v0=12209)
- After retessellation of defect 25 (v0=12209), euler #=-177 (85475,248966,163314) : difference with theory (-182) = -5
- CORRECTING DEFECT 26 (vertices=630, convex hull=435, v0=13151)
- After retessellation of defect 26 (v0=13151), euler #=-176 (85614,249619,163829) : difference with theory (-181) = -5
- CORRECTING DEFECT 27 (vertices=28, convex hull=80, v0=14023)
- After retessellation of defect 27 (v0=14023), euler #=-175 (85628,249689,163886) : difference with theory (-180) = -5
- CORRECTING DEFECT 28 (vertices=38, convex hull=34, v0=14263)
- After retessellation of defect 28 (v0=14263), euler #=-174 (85633,249717,163910) : difference with theory (-179) = -5
- CORRECTING DEFECT 29 (vertices=91, convex hull=40, v0=14627)
- After retessellation of defect 29 (v0=14627), euler #=-173 (85648,249779,163958) : difference with theory (-178) = -5
- CORRECTING DEFECT 30 (vertices=144, convex hull=54, v0=15335)
- After retessellation of defect 30 (v0=15335), euler #=-172 (85657,249828,163999) : difference with theory (-177) = -5
- CORRECTING DEFECT 31 (vertices=7, convex hull=29, v0=15554)
- After retessellation of defect 31 (v0=15554), euler #=-171 (85658,249838,164009) : difference with theory (-176) = -5
- CORRECTING DEFECT 32 (vertices=536, convex hull=169, v0=16316)
- After retessellation of defect 32 (v0=16316), euler #=-171 (85715,250099,164213) : difference with theory (-175) = -4
- CORRECTING DEFECT 33 (vertices=69, convex hull=51, v0=16631)
- After retessellation of defect 33 (v0=16631), euler #=-170 (85728,250160,164262) : difference with theory (-174) = -4
- CORRECTING DEFECT 34 (vertices=11, convex hull=23, v0=16863)
- After retessellation of defect 34 (v0=16863), euler #=-169 (85729,250169,164271) : difference with theory (-173) = -4
- CORRECTING DEFECT 35 (vertices=28, convex hull=63, v0=17976)
- After retessellation of defect 35 (v0=17976), euler #=-168 (85746,250246,164332) : difference with theory (-172) = -4
- CORRECTING DEFECT 36 (vertices=235, convex hull=129, v0=18835)
- After retessellation of defect 36 (v0=18835), euler #=-167 (85780,250410,164463) : difference with theory (-171) = -4
- CORRECTING DEFECT 37 (vertices=21, convex hull=20, v0=19119)
- After retessellation of defect 37 (v0=19119), euler #=-166 (85784,250425,164475) : difference with theory (-170) = -4
- CORRECTING DEFECT 38 (vertices=70, convex hull=35, v0=19449)
- After retessellation of defect 38 (v0=19449), euler #=-165 (85785,250441,164491) : difference with theory (-169) = -4
- CORRECTING DEFECT 39 (vertices=385, convex hull=77, v0=19671)
- After retessellation of defect 39 (v0=19671), euler #=-164 (85813,250558,164581) : difference with theory (-168) = -4
- CORRECTING DEFECT 40 (vertices=6, convex hull=23, v0=19767)
- After retessellation of defect 40 (v0=19767), euler #=-163 (85815,250573,164595) : difference with theory (-167) = -4
- CORRECTING DEFECT 41 (vertices=67, convex hull=136, v0=19847)
- After retessellation of defect 41 (v0=19847), euler #=-161 (85842,250711,164708) : difference with theory (-166) = -5
- CORRECTING DEFECT 42 (vertices=152, convex hull=69, v0=20197)
- After retessellation of defect 42 (v0=20197), euler #=-160 (85852,250769,164757) : difference with theory (-165) = -5
- CORRECTING DEFECT 43 (vertices=123, convex hull=59, v0=20325)
- After retessellation of defect 43 (v0=20325), euler #=-159 (85870,250853,164824) : difference with theory (-164) = -5
- CORRECTING DEFECT 44 (vertices=150, convex hull=110, v0=20382)
- After retessellation of defect 44 (v0=20382), euler #=-157 (85908,251025,164960) : difference with theory (-163) = -6
- CORRECTING DEFECT 45 (vertices=134, convex hull=48, v0=21350)
- After retessellation of defect 45 (v0=21350), euler #=-156 (85913,251066,164997) : difference with theory (-162) = -6
- CORRECTING DEFECT 46 (vertices=34, convex hull=28, v0=21399)
- After retessellation of defect 46 (v0=21399), euler #=-155 (85916,251087,165016) : difference with theory (-161) = -6
- CORRECTING DEFECT 47 (vertices=54, convex hull=35, v0=22396)
- After retessellation of defect 47 (v0=22396), euler #=-154 (85924,251126,165048) : difference with theory (-160) = -6
- CORRECTING DEFECT 48 (vertices=27, convex hull=30, v0=22616)
- After retessellation of defect 48 (v0=22616), euler #=-153 (85926,251141,165062) : difference with theory (-159) = -6
- CORRECTING DEFECT 49 (vertices=83, convex hull=116, v0=22680)
- After retessellation of defect 49 (v0=22680), euler #=-152 (85962,251299,165185) : difference with theory (-158) = -6
- CORRECTING DEFECT 50 (vertices=175, convex hull=185, v0=23799)
- After retessellation of defect 50 (v0=23799), euler #=-151 (86037,251606,165418) : difference with theory (-157) = -6
- CORRECTING DEFECT 51 (vertices=39, convex hull=40, v0=24432)
- After retessellation of defect 51 (v0=24432), euler #=-150 (86041,251632,165441) : difference with theory (-156) = -6
- CORRECTING DEFECT 52 (vertices=25, convex hull=19, v0=24504)
- After retessellation of defect 52 (v0=24504), euler #=-149 (86042,251642,165451) : difference with theory (-155) = -6
- CORRECTING DEFECT 53 (vertices=5, convex hull=19, v0=25829)
- After retessellation of defect 53 (v0=25829), euler #=-148 (86043,251649,165458) : difference with theory (-154) = -6
- CORRECTING DEFECT 54 (vertices=6, convex hull=27, v0=26034)
- After retessellation of defect 54 (v0=26034), euler #=-147 (86045,251663,165471) : difference with theory (-153) = -6
- CORRECTING DEFECT 55 (vertices=70, convex hull=61, v0=26037)
- After retessellation of defect 55 (v0=26037), euler #=-146 (86062,251738,165530) : difference with theory (-152) = -6
- CORRECTING DEFECT 56 (vertices=40, convex hull=59, v0=26121)
- After retessellation of defect 56 (v0=26121), euler #=-145 (86081,251816,165590) : difference with theory (-151) = -6
- CORRECTING DEFECT 57 (vertices=287, convex hull=170, v0=26534)
- After retessellation of defect 57 (v0=26534), euler #=-144 (86132,252054,165778) : difference with theory (-150) = -6
- CORRECTING DEFECT 58 (vertices=6, convex hull=28, v0=26578)
- After retessellation of defect 58 (v0=26578), euler #=-143 (86133,252065,165789) : difference with theory (-149) = -6
- CORRECTING DEFECT 59 (vertices=26, convex hull=73, v0=27366)
- After retessellation of defect 59 (v0=27366), euler #=-142 (86149,252143,165852) : difference with theory (-148) = -6
- CORRECTING DEFECT 60 (vertices=13, convex hull=21, v0=27969)
- After retessellation of defect 60 (v0=27969), euler #=-141 (86150,252152,165861) : difference with theory (-147) = -6
- CORRECTING DEFECT 61 (vertices=292, convex hull=197, v0=28284)
- After retessellation of defect 61 (v0=28284), euler #=-140 (86254,252555,166161) : difference with theory (-146) = -6
- CORRECTING DEFECT 62 (vertices=234, convex hull=102, v0=28481)
- After retessellation of defect 62 (v0=28481), euler #=-139 (86289,252699,166271) : difference with theory (-145) = -6
- CORRECTING DEFECT 63 (vertices=94, convex hull=48, v0=28523)
- After retessellation of defect 63 (v0=28523), euler #=-138 (86300,252753,166315) : difference with theory (-144) = -6
- CORRECTING DEFECT 64 (vertices=53, convex hull=35, v0=28809)
- After retessellation of defect 64 (v0=28809), euler #=-137 (86307,252783,166339) : difference with theory (-143) = -6
- CORRECTING DEFECT 65 (vertices=120, convex hull=129, v0=29555)
- After retessellation of defect 65 (v0=29555), euler #=-136 (86369,253032,166527) : difference with theory (-142) = -6
- CORRECTING DEFECT 66 (vertices=189, convex hull=68, v0=29693)
- After retessellation of defect 66 (v0=29693), euler #=-135 (86395,253140,166610) : difference with theory (-141) = -6
- CORRECTING DEFECT 67 (vertices=2757, convex hull=682, v0=30421)
- XL defect detected...
- After retessellation of defect 67 (v0=30421), euler #=-137 (86829,254839,167873) : difference with theory (-140) = -3
- CORRECTING DEFECT 68 (vertices=7, convex hull=29, v0=31375)
- After retessellation of defect 68 (v0=31375), euler #=-136 (86830,254851,167885) : difference with theory (-139) = -3
- CORRECTING DEFECT 69 (vertices=64, convex hull=83, v0=31937)
- After retessellation of defect 69 (v0=31937), euler #=-135 (86866,254997,167996) : difference with theory (-138) = -3
- CORRECTING DEFECT 70 (vertices=6, convex hull=14, v0=32435)
- After retessellation of defect 70 (v0=32435), euler #=-134 (86867,255005,168004) : difference with theory (-137) = -3
- CORRECTING DEFECT 71 (vertices=35, convex hull=22, v0=33785)
- After retessellation of defect 71 (v0=33785), euler #=-133 (86868,255018,168017) : difference with theory (-136) = -3
- CORRECTING DEFECT 72 (vertices=129, convex hull=90, v0=33834)
- After retessellation of defect 72 (v0=33834), euler #=-132 (86907,255173,168134) : difference with theory (-135) = -3
- CORRECTING DEFECT 73 (vertices=41, convex hull=38, v0=35254)
- After retessellation of defect 73 (v0=35254), euler #=-131 (86912,255202,168159) : difference with theory (-134) = -3
- CORRECTING DEFECT 74 (vertices=276, convex hull=45, v0=35419)
- After retessellation of defect 74 (v0=35419), euler #=-130 (86941,255310,168239) : difference with theory (-133) = -3
- CORRECTING DEFECT 75 (vertices=8, convex hull=15, v0=36017)
- After retessellation of defect 75 (v0=36017), euler #=-129 (86942,255317,168246) : difference with theory (-132) = -3
- CORRECTING DEFECT 76 (vertices=28, convex hull=25, v0=37414)
- After retessellation of defect 76 (v0=37414), euler #=-128 (86943,255330,168259) : difference with theory (-131) = -3
- CORRECTING DEFECT 77 (vertices=204, convex hull=74, v0=37472)
- After retessellation of defect 77 (v0=37472), euler #=-127 (86968,255432,168337) : difference with theory (-130) = -3
- CORRECTING DEFECT 78 (vertices=27, convex hull=30, v0=38432)
- After retessellation of defect 78 (v0=38432), euler #=-126 (86972,255453,168355) : difference with theory (-129) = -3
- CORRECTING DEFECT 79 (vertices=19, convex hull=25, v0=40078)
- After retessellation of defect 79 (v0=40078), euler #=-125 (86977,255480,168378) : difference with theory (-128) = -3
- CORRECTING DEFECT 80 (vertices=101, convex hull=56, v0=41759)
- After retessellation of defect 80 (v0=41759), euler #=-124 (86987,255536,168425) : difference with theory (-127) = -3
- CORRECTING DEFECT 81 (vertices=148, convex hull=240, v0=42652)
- After retessellation of defect 81 (v0=42652), euler #=-123 (87016,255735,168596) : difference with theory (-126) = -3
- CORRECTING DEFECT 82 (vertices=222, convex hull=88, v0=43010)
- After retessellation of defect 82 (v0=43010), euler #=-122 (87042,255848,168684) : difference with theory (-125) = -3
- CORRECTING DEFECT 83 (vertices=162, convex hull=126, v0=43541)
- After retessellation of defect 83 (v0=43541), euler #=-121 (87076,256008,168811) : difference with theory (-124) = -3
- CORRECTING DEFECT 84 (vertices=6, convex hull=25, v0=43736)
- After retessellation of defect 84 (v0=43736), euler #=-120 (87079,256021,168822) : difference with theory (-123) = -3
- CORRECTING DEFECT 85 (vertices=82, convex hull=40, v0=45833)
- After retessellation of defect 85 (v0=45833), euler #=-119 (87083,256046,168844) : difference with theory (-122) = -3
- CORRECTING DEFECT 86 (vertices=147, convex hull=163, v0=46194)
- After retessellation of defect 86 (v0=46194), euler #=-117 (87160,256359,169082) : difference with theory (-121) = -4
- CORRECTING DEFECT 87 (vertices=90, convex hull=148, v0=46751)
- After retessellation of defect 87 (v0=46751), euler #=-116 (87221,256611,169274) : difference with theory (-120) = -4
- CORRECTING DEFECT 88 (vertices=5286, convex hull=1446, v0=46893)
- XL defect detected...
- After retessellation of defect 88 (v0=46893), euler #=-123 (88358,260912,172431) : difference with theory (-119) = 4
- CORRECTING DEFECT 89 (vertices=59, convex hull=122, v0=46920)
- After retessellation of defect 89 (v0=46920), euler #=-122 (88394,261064,172548) : difference with theory (-118) = 4
- CORRECTING DEFECT 90 (vertices=13, convex hull=24, v0=47722)
- After retessellation of defect 90 (v0=47722), euler #=-121 (88398,261083,172564) : difference with theory (-117) = 4
- CORRECTING DEFECT 91 (vertices=200, convex hull=178, v0=48242)
- After retessellation of defect 91 (v0=48242), euler #=-119 (88445,261304,172740) : difference with theory (-116) = 3
- CORRECTING DEFECT 92 (vertices=106, convex hull=67, v0=52208)
- After retessellation of defect 92 (v0=52208), euler #=-118 (88473,261413,172822) : difference with theory (-115) = 3
- CORRECTING DEFECT 93 (vertices=111, convex hull=48, v0=52553)
- After retessellation of defect 93 (v0=52553), euler #=-117 (88488,261477,172872) : difference with theory (-114) = 3
- CORRECTING DEFECT 94 (vertices=393, convex hull=225, v0=53681)
- After retessellation of defect 94 (v0=53681), euler #=-116 (88575,261834,173143) : difference with theory (-113) = 3
- CORRECTING DEFECT 95 (vertices=141, convex hull=152, v0=54756)
- After retessellation of defect 95 (v0=54756), euler #=-114 (88648,262127,173365) : difference with theory (-112) = 2
- CORRECTING DEFECT 96 (vertices=365, convex hull=78, v0=54780)
- After retessellation of defect 96 (v0=54780), euler #=-113 (88660,262203,173430) : difference with theory (-111) = 2
- CORRECTING DEFECT 97 (vertices=46, convex hull=91, v0=57208)
- After retessellation of defect 97 (v0=57208), euler #=-112 (88681,262299,173506) : difference with theory (-110) = 2
- CORRECTING DEFECT 98 (vertices=35, convex hull=54, v0=58495)
- After retessellation of defect 98 (v0=58495), euler #=-111 (88695,262368,173562) : difference with theory (-109) = 2
- CORRECTING DEFECT 99 (vertices=83, convex hull=98, v0=58510)
- After retessellation of defect 99 (v0=58510), euler #=-111 (88723,262498,173664) : difference with theory (-108) = 3
- CORRECTING DEFECT 100 (vertices=170, convex hull=103, v0=59494)
- After retessellation of defect 100 (v0=59494), euler #=-110 (88773,262695,173812) : difference with theory (-107) = 3
- CORRECTING DEFECT 101 (vertices=37, convex hull=82, v0=60601)
- After retessellation of defect 101 (v0=60601), euler #=-109 (88795,262790,173886) : difference with theory (-106) = 3
- CORRECTING DEFECT 102 (vertices=339, convex hull=64, v0=60627)
- After retessellation of defect 102 (v0=60627), euler #=-108 (88836,262939,173995) : difference with theory (-105) = 3
- CORRECTING DEFECT 103 (vertices=35, convex hull=27, v0=61013)
- After retessellation of defect 103 (v0=61013), euler #=-107 (88843,262970,174020) : difference with theory (-104) = 3
- CORRECTING DEFECT 104 (vertices=28, convex hull=28, v0=61171)
- After retessellation of defect 104 (v0=61171), euler #=-106 (88847,262991,174038) : difference with theory (-103) = 3
- CORRECTING DEFECT 105 (vertices=298, convex hull=87, v0=61192)
- After retessellation of defect 105 (v0=61192), euler #=-105 (88891,263158,174162) : difference with theory (-102) = 3
- CORRECTING DEFECT 106 (vertices=75, convex hull=125, v0=62066)
- After retessellation of defect 106 (v0=62066), euler #=-104 (88936,263346,174306) : difference with theory (-101) = 3
- CORRECTING DEFECT 107 (vertices=63, convex hull=85, v0=66580)
- After retessellation of defect 107 (v0=66580), euler #=-103 (88964,263467,174400) : difference with theory (-100) = 3
- CORRECTING DEFECT 108 (vertices=671, convex hull=133, v0=67178)
- After retessellation of defect 108 (v0=67178), euler #=-102 (89000,263640,174538) : difference with theory (-99) = 3
- CORRECTING DEFECT 109 (vertices=11, convex hull=26, v0=67351)
- After retessellation of defect 109 (v0=67351), euler #=-101 (89002,263651,174548) : difference with theory (-98) = 3
- CORRECTING DEFECT 110 (vertices=338, convex hull=258, v0=69028)
- After retessellation of defect 110 (v0=69028), euler #=-100 (89121,264139,174918) : difference with theory (-97) = 3
- CORRECTING DEFECT 111 (vertices=36, convex hull=55, v0=69468)
- After retessellation of defect 111 (v0=69468), euler #=-99 (89132,264192,174961) : difference with theory (-96) = 3
- CORRECTING DEFECT 112 (vertices=152, convex hull=60, v0=69589)
- After retessellation of defect 112 (v0=69589), euler #=-98 (89147,264264,175019) : difference with theory (-95) = 3
- CORRECTING DEFECT 113 (vertices=9, convex hull=25, v0=70313)
- After retessellation of defect 113 (v0=70313), euler #=-97 (89149,264277,175031) : difference with theory (-94) = 3
- CORRECTING DEFECT 114 (vertices=633, convex hull=180, v0=72577)
- After retessellation of defect 114 (v0=72577), euler #=-96 (89183,264461,175182) : difference with theory (-93) = 3
- CORRECTING DEFECT 115 (vertices=101, convex hull=100, v0=75672)
- After retessellation of defect 115 (v0=75672), euler #=-94 (89215,264605,175296) : difference with theory (-92) = 2
- CORRECTING DEFECT 116 (vertices=44, convex hull=47, v0=76042)
- After retessellation of defect 116 (v0=76042), euler #=-93 (89240,264701,175368) : difference with theory (-91) = 2
- CORRECTING DEFECT 117 (vertices=89, convex hull=41, v0=76371)
- After retessellation of defect 117 (v0=76371), euler #=-92 (89254,264755,175409) : difference with theory (-90) = 2
- CORRECTING DEFECT 118 (vertices=85, convex hull=121, v0=76401)
- After retessellation of defect 118 (v0=76401), euler #=-91 (89309,264971,175571) : difference with theory (-89) = 2
- CORRECTING DEFECT 119 (vertices=168, convex hull=179, v0=76636)
- After retessellation of defect 119 (v0=76636), euler #=-90 (89402,265333,175841) : difference with theory (-88) = 2
- CORRECTING DEFECT 120 (vertices=26, convex hull=49, v0=76911)
- After retessellation of defect 120 (v0=76911), euler #=-89 (89416,265397,175892) : difference with theory (-87) = 2
- CORRECTING DEFECT 121 (vertices=753, convex hull=325, v0=78988)
- After retessellation of defect 121 (v0=78988), euler #=-88 (89565,266013,176360) : difference with theory (-86) = 2
- CORRECTING DEFECT 122 (vertices=28, convex hull=54, v0=80298)
- After retessellation of defect 122 (v0=80298), euler #=-87 (89583,266089,176419) : difference with theory (-85) = 2
- CORRECTING DEFECT 123 (vertices=29, convex hull=44, v0=80650)
- After retessellation of defect 123 (v0=80650), euler #=-86 (89587,266116,176443) : difference with theory (-84) = 2
- CORRECTING DEFECT 124 (vertices=29, convex hull=79, v0=81289)
- After retessellation of defect 124 (v0=81289), euler #=-85 (89607,266206,176514) : difference with theory (-83) = 2
- CORRECTING DEFECT 125 (vertices=74, convex hull=81, v0=81428)
- After retessellation of defect 125 (v0=81428), euler #=-84 (89638,266330,176608) : difference with theory (-82) = 2
- CORRECTING DEFECT 126 (vertices=9, convex hull=39, v0=81596)
- After retessellation of defect 126 (v0=81596), euler #=-83 (89640,266347,176624) : difference with theory (-81) = 2
- CORRECTING DEFECT 127 (vertices=5, convex hull=16, v0=82354)
- After retessellation of defect 127 (v0=82354), euler #=-82 (89640,266351,176629) : difference with theory (-80) = 2
- CORRECTING DEFECT 128 (vertices=32, convex hull=52, v0=83190)
- After retessellation of defect 128 (v0=83190), euler #=-81 (89656,266424,176687) : difference with theory (-79) = 2
- CORRECTING DEFECT 129 (vertices=55, convex hull=33, v0=83363)
- After retessellation of defect 129 (v0=83363), euler #=-80 (89668,266471,176723) : difference with theory (-78) = 2
- CORRECTING DEFECT 130 (vertices=331, convex hull=166, v0=84140)
- After retessellation of defect 130 (v0=84140), euler #=-79 (89704,266654,176871) : difference with theory (-77) = 2
- CORRECTING DEFECT 131 (vertices=25, convex hull=44, v0=84748)
- After retessellation of defect 131 (v0=84748), euler #=-78 (89715,266703,176910) : difference with theory (-76) = 2
- CORRECTING DEFECT 132 (vertices=18, convex hull=55, v0=85721)
- After retessellation of defect 132 (v0=85721), euler #=-77 (89727,266759,176955) : difference with theory (-75) = 2
- CORRECTING DEFECT 133 (vertices=18, convex hull=37, v0=86466)
- After retessellation of defect 133 (v0=86466), euler #=-76 (89729,266775,176970) : difference with theory (-74) = 2
- CORRECTING DEFECT 134 (vertices=58, convex hull=53, v0=86760)
- After retessellation of defect 134 (v0=86760), euler #=-75 (89747,266844,177022) : difference with theory (-73) = 2
- CORRECTING DEFECT 135 (vertices=450, convex hull=201, v0=86824)
- After retessellation of defect 135 (v0=86824), euler #=-72 (89794,267078,177212) : difference with theory (-72) = 0
- CORRECTING DEFECT 136 (vertices=11, convex hull=19, v0=86884)
- After retessellation of defect 136 (v0=86884), euler #=-71 (89795,267085,177219) : difference with theory (-71) = 0
- CORRECTING DEFECT 137 (vertices=22, convex hull=43, v0=87395)
- After retessellation of defect 137 (v0=87395), euler #=-70 (89810,267147,177267) : difference with theory (-70) = 0
- CORRECTING DEFECT 138 (vertices=7, convex hull=37, v0=87825)
- After retessellation of defect 138 (v0=87825), euler #=-69 (89811,267161,177281) : difference with theory (-69) = 0
- CORRECTING DEFECT 139 (vertices=80, convex hull=30, v0=88433)
- After retessellation of defect 139 (v0=88433), euler #=-68 (89823,267204,177313) : difference with theory (-68) = 0
- CORRECTING DEFECT 140 (vertices=40, convex hull=26, v0=88566)
- After retessellation of defect 140 (v0=88566), euler #=-67 (89830,267233,177336) : difference with theory (-67) = 0
- CORRECTING DEFECT 141 (vertices=15, convex hull=17, v0=89401)
- After retessellation of defect 141 (v0=89401), euler #=-66 (89832,267243,177345) : difference with theory (-66) = 0
- CORRECTING DEFECT 142 (vertices=482, convex hull=179, v0=89802)
- After retessellation of defect 142 (v0=89802), euler #=-64 (89928,267618,177626) : difference with theory (-65) = -1
- CORRECTING DEFECT 143 (vertices=54, convex hull=72, v0=91152)
- After retessellation of defect 143 (v0=91152), euler #=-63 (89958,267736,177715) : difference with theory (-64) = -1
- CORRECTING DEFECT 144 (vertices=38, convex hull=81, v0=91490)
- After retessellation of defect 144 (v0=91490), euler #=-62 (89980,267831,177789) : difference with theory (-63) = -1
- CORRECTING DEFECT 145 (vertices=86, convex hull=84, v0=91849)
- After retessellation of defect 145 (v0=91849), euler #=-61 (90010,267956,177885) : difference with theory (-62) = -1
- CORRECTING DEFECT 146 (vertices=35, convex hull=31, v0=92047)
- After retessellation of defect 146 (v0=92047), euler #=-60 (90014,267977,177903) : difference with theory (-61) = -1
- CORRECTING DEFECT 147 (vertices=51, convex hull=46, v0=92141)
- After retessellation of defect 147 (v0=92141), euler #=-59 (90025,268023,177939) : difference with theory (-60) = -1
- CORRECTING DEFECT 148 (vertices=488, convex hull=108, v0=92224)
- After retessellation of defect 148 (v0=92224), euler #=-58 (90094,268284,178132) : difference with theory (-59) = -1
- CORRECTING DEFECT 149 (vertices=32, convex hull=65, v0=92989)
- After retessellation of defect 149 (v0=92989), euler #=-56 (90107,268349,178186) : difference with theory (-58) = -2
- CORRECTING DEFECT 150 (vertices=69, convex hull=47, v0=93079)
- After retessellation of defect 150 (v0=93079), euler #=-55 (90113,268387,178219) : difference with theory (-57) = -2
- CORRECTING DEFECT 151 (vertices=22, convex hull=21, v0=93393)
- After retessellation of defect 151 (v0=93393), euler #=-54 (90116,268401,178231) : difference with theory (-56) = -2
- CORRECTING DEFECT 152 (vertices=16, convex hull=26, v0=94178)
- After retessellation of defect 152 (v0=94178), euler #=-53 (90119,268419,178247) : difference with theory (-55) = -2
- CORRECTING DEFECT 153 (vertices=31, convex hull=42, v0=94697)
- After retessellation of defect 153 (v0=94697), euler #=-52 (90126,268458,178280) : difference with theory (-54) = -2
- CORRECTING DEFECT 154 (vertices=34, convex hull=30, v0=95069)
- After retessellation of defect 154 (v0=95069), euler #=-51 (90137,268500,178312) : difference with theory (-53) = -2
- CORRECTING DEFECT 155 (vertices=6, convex hull=21, v0=95808)
- After retessellation of defect 155 (v0=95808), euler #=-50 (90139,268513,178324) : difference with theory (-52) = -2
- CORRECTING DEFECT 156 (vertices=91, convex hull=114, v0=95837)
- After retessellation of defect 156 (v0=95837), euler #=-49 (90174,268684,178461) : difference with theory (-51) = -2
- CORRECTING DEFECT 157 (vertices=105, convex hull=97, v0=96418)
- After retessellation of defect 157 (v0=96418), euler #=-48 (90215,268858,178595) : difference with theory (-50) = -2
- CORRECTING DEFECT 158 (vertices=317, convex hull=53, v0=96542)
- After retessellation of defect 158 (v0=96542), euler #=-47 (90252,268994,178695) : difference with theory (-49) = -2
- CORRECTING DEFECT 159 (vertices=47, convex hull=40, v0=97217)
- After retessellation of defect 159 (v0=97217), euler #=-46 (90255,269017,178716) : difference with theory (-48) = -2
- CORRECTING DEFECT 160 (vertices=87, convex hull=88, v0=98054)
- After retessellation of defect 160 (v0=98054), euler #=-45 (90265,269082,178772) : difference with theory (-47) = -2
- CORRECTING DEFECT 161 (vertices=610, convex hull=218, v0=98065)
- After retessellation of defect 161 (v0=98065), euler #=-45 (90381,269548,179122) : difference with theory (-46) = -1
- CORRECTING DEFECT 162 (vertices=338, convex hull=101, v0=98237)
- After retessellation of defect 162 (v0=98237), euler #=-44 (90419,269716,179253) : difference with theory (-45) = -1
- CORRECTING DEFECT 163 (vertices=89, convex hull=34, v0=98382)
- After retessellation of defect 163 (v0=98382), euler #=-43 (90421,269737,179273) : difference with theory (-44) = -1
- CORRECTING DEFECT 164 (vertices=1025, convex hull=351, v0=98466)
- After retessellation of defect 164 (v0=98466), euler #=-42 (90612,270485,179831) : difference with theory (-43) = -1
- CORRECTING DEFECT 165 (vertices=15, convex hull=25, v0=98580)
- After retessellation of defect 165 (v0=98580), euler #=-41 (90617,270506,179848) : difference with theory (-42) = -1
- CORRECTING DEFECT 166 (vertices=71, convex hull=49, v0=100479)
- After retessellation of defect 166 (v0=100479), euler #=-40 (90628,270557,179889) : difference with theory (-41) = -1
- CORRECTING DEFECT 167 (vertices=22, convex hull=46, v0=100701)
- After retessellation of defect 167 (v0=100701), euler #=-39 (90641,270615,179935) : difference with theory (-40) = -1
- CORRECTING DEFECT 168 (vertices=6, convex hull=28, v0=102354)
- After retessellation of defect 168 (v0=102354), euler #=-38 (90643,270629,179948) : difference with theory (-39) = -1
- CORRECTING DEFECT 169 (vertices=1367, convex hull=253, v0=102607)
- After retessellation of defect 169 (v0=102607), euler #=-37 (90754,271092,180301) : difference with theory (-38) = -1
- CORRECTING DEFECT 170 (vertices=22, convex hull=30, v0=103372)
- After retessellation of defect 170 (v0=103372), euler #=-36 (90756,271106,180314) : difference with theory (-37) = -1
- CORRECTING DEFECT 171 (vertices=40, convex hull=55, v0=103924)
- After retessellation of defect 171 (v0=103924), euler #=-35 (90775,271186,180376) : difference with theory (-36) = -1
- CORRECTING DEFECT 172 (vertices=211, convex hull=56, v0=104529)
- After retessellation of defect 172 (v0=104529), euler #=-35 (90791,271262,180436) : difference with theory (-35) = 0
- CORRECTING DEFECT 173 (vertices=67, convex hull=65, v0=105298)
- After retessellation of defect 173 (v0=105298), euler #=-34 (90801,271323,180488) : difference with theory (-34) = 0
- CORRECTING DEFECT 174 (vertices=403, convex hull=210, v0=105336)
- After retessellation of defect 174 (v0=105336), euler #=-33 (90922,271790,180835) : difference with theory (-33) = 0
- CORRECTING DEFECT 175 (vertices=44, convex hull=34, v0=105606)
- After retessellation of defect 175 (v0=105606), euler #=-32 (90938,271851,180881) : difference with theory (-32) = 0
- CORRECTING DEFECT 176 (vertices=130, convex hull=32, v0=105747)
- After retessellation of defect 176 (v0=105747), euler #=-31 (90945,271882,180906) : difference with theory (-31) = 0
- CORRECTING DEFECT 177 (vertices=33, convex hull=48, v0=106197)
- After retessellation of defect 177 (v0=106197), euler #=-30 (90961,271949,180958) : difference with theory (-30) = 0
- CORRECTING DEFECT 178 (vertices=32, convex hull=61, v0=106809)
- After retessellation of defect 178 (v0=106809), euler #=-29 (90980,272030,181021) : difference with theory (-29) = 0
- CORRECTING DEFECT 179 (vertices=32, convex hull=44, v0=106823)
- After retessellation of defect 179 (v0=106823), euler #=-29 (90992,272085,181064) : difference with theory (-28) = 1
- CORRECTING DEFECT 180 (vertices=5, convex hull=29, v0=107336)
- After retessellation of defect 180 (v0=107336), euler #=-28 (90993,272096,181075) : difference with theory (-27) = 1
- CORRECTING DEFECT 181 (vertices=26, convex hull=30, v0=107694)
- After retessellation of defect 181 (v0=107694), euler #=-27 (90998,272124,181099) : difference with theory (-26) = 1
- CORRECTING DEFECT 182 (vertices=664, convex hull=370, v0=107903)
- After retessellation of defect 182 (v0=107903), euler #=-26 (91130,272724,181568) : difference with theory (-25) = 1
- CORRECTING DEFECT 183 (vertices=226, convex hull=133, v0=113015)
- After retessellation of defect 183 (v0=113015), euler #=-24 (91158,272871,181689) : difference with theory (-24) = 0
- CORRECTING DEFECT 184 (vertices=31, convex hull=28, v0=113159)
- After retessellation of defect 184 (v0=113159), euler #=-23 (91163,272896,181710) : difference with theory (-23) = 0
- CORRECTING DEFECT 185 (vertices=18, convex hull=30, v0=113741)
- After retessellation of defect 185 (v0=113741), euler #=-22 (91166,272918,181730) : difference with theory (-22) = 0
- CORRECTING DEFECT 186 (vertices=17, convex hull=31, v0=113829)
- After retessellation of defect 186 (v0=113829), euler #=-21 (91170,272941,181750) : difference with theory (-21) = 0
- CORRECTING DEFECT 187 (vertices=24, convex hull=22, v0=113944)
- After retessellation of defect 187 (v0=113944), euler #=-20 (91173,272957,181764) : difference with theory (-20) = 0
- CORRECTING DEFECT 188 (vertices=5, convex hull=22, v0=116758)
- After retessellation of defect 188 (v0=116758), euler #=-19 (91174,272963,181770) : difference with theory (-19) = 0
- CORRECTING DEFECT 189 (vertices=31, convex hull=26, v0=117653)
- After retessellation of defect 189 (v0=117653), euler #=-18 (91174,272974,181782) : difference with theory (-18) = 0
- CORRECTING DEFECT 190 (vertices=88, convex hull=112, v0=117791)
- After retessellation of defect 190 (v0=117791), euler #=-17 (91217,273148,181914) : difference with theory (-17) = 0
- CORRECTING DEFECT 191 (vertices=153, convex hull=129, v0=117887)
- After retessellation of defect 191 (v0=117887), euler #=-17 (91265,273364,182082) : difference with theory (-16) = 1
- CORRECTING DEFECT 192 (vertices=948, convex hull=254, v0=118379)
- After retessellation of defect 192 (v0=118379), euler #=-16 (91365,273795,182414) : difference with theory (-15) = 1
- CORRECTING DEFECT 193 (vertices=50, convex hull=20, v0=118508)
- After retessellation of defect 193 (v0=118508), euler #=-15 (91369,273812,182428) : difference with theory (-14) = 1
- CORRECTING DEFECT 194 (vertices=8, convex hull=21, v0=118537)
- After retessellation of defect 194 (v0=118537), euler #=-14 (91369,273820,182437) : difference with theory (-13) = 1
- CORRECTING DEFECT 195 (vertices=88, convex hull=54, v0=119162)
- After retessellation of defect 195 (v0=119162), euler #=-13 (91385,273887,182489) : difference with theory (-12) = 1
- CORRECTING DEFECT 196 (vertices=32, convex hull=59, v0=119413)
- After retessellation of defect 196 (v0=119413), euler #=-12 (91397,273944,182535) : difference with theory (-11) = 1
- CORRECTING DEFECT 197 (vertices=26, convex hull=24, v0=119998)
- After retessellation of defect 197 (v0=119998), euler #=-11 (91400,273960,182549) : difference with theory (-10) = 1
- CORRECTING DEFECT 198 (vertices=109, convex hull=35, v0=120103)
- After retessellation of defect 198 (v0=120103), euler #=-10 (91407,273994,182577) : difference with theory (-9) = 1
- CORRECTING DEFECT 199 (vertices=184, convex hull=150, v0=120339)
- After retessellation of defect 199 (v0=120339), euler #=-8 (91460,274219,182751) : difference with theory (-8) = 0
- CORRECTING DEFECT 200 (vertices=47, convex hull=33, v0=120558)
- After retessellation of defect 200 (v0=120558), euler #=-7 (91463,274241,182771) : difference with theory (-7) = 0
- CORRECTING DEFECT 201 (vertices=56, convex hull=82, v0=120840)
- After retessellation of defect 201 (v0=120840), euler #=-6 (91477,274318,182835) : difference with theory (-6) = 0
- CORRECTING DEFECT 202 (vertices=6, convex hull=20, v0=121818)
- After retessellation of defect 202 (v0=121818), euler #=-5 (91478,274326,182843) : difference with theory (-5) = 0
- CORRECTING DEFECT 203 (vertices=34, convex hull=29, v0=121913)
- After retessellation of defect 203 (v0=121913), euler #=-4 (91483,274354,182867) : difference with theory (-4) = 0
- CORRECTING DEFECT 204 (vertices=111, convex hull=53, v0=122012)
- After retessellation of defect 204 (v0=122012), euler #=-3 (91497,274418,182918) : difference with theory (-3) = 0
- CORRECTING DEFECT 205 (vertices=168, convex hull=54, v0=122481)
- After retessellation of defect 205 (v0=122481), euler #=-2 (91509,274478,182967) : difference with theory (-2) = 0
- CORRECTING DEFECT 206 (vertices=51, convex hull=20, v0=122551)
- After retessellation of defect 206 (v0=122551), euler #=-1 (91511,274491,182979) : difference with theory (-1) = 0
- CORRECTING DEFECT 207 (vertices=106, convex hull=36, v0=122907)
- After retessellation of defect 207 (v0=122907), euler #=0 (91520,274535,183015) : difference with theory (0) = 0
- CORRECTING DEFECT 208 (vertices=190, convex hull=30, v0=124028)
- After retessellation of defect 208 (v0=124028), euler #=1 (91528,274569,183042) : difference with theory (1) = 0
- CORRECTING DEFECT 209 (vertices=14, convex hull=24, v0=124230)
- After retessellation of defect 209 (v0=124230), euler #=2 (91530,274584,183056) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.91 +- 0.40 (0.02-->14.82) (max @ vno 81465 --> 82513)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.91 +- 0.40 (0.02-->14.82) (max @ vno 81465 --> 82513)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 725 mutations (35.8%), 1298 crossovers (64.2%), 1941 vertices were eliminated
- building final representation...
- 33384 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=91530, nf=183056, ne=274584, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 263.2 minutes
- 0 defective edges
- removing intersecting faces
- 000: 2813 intersecting
- 001: 223 intersecting
- 002: 62 intersecting
- 003: 12 intersecting
- 004: 6 intersecting
- 005: 4 intersecting
- mris_fix_topology utimesec 15797.101475
- mris_fix_topology stimesec 0.725889
- mris_fix_topology ru_maxrss 563076
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 67467
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 24176
- mris_fix_topology ru_oublock 10408
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 664
- mris_fix_topology ru_nivcsw 44186
- FSRUNTIME@ mris_fix_topology rh 4.3872 hours 1 threads
- PIDs (5409 5412) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 92565 - 277689 + 185126 = 2 --> 0 holes
- F =2V-4: 185126 = 185130-4 (0)
- 2E=3F: 555378 = 555378 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 91530 - 274584 + 183056 = 2 --> 0 holes
- F =2V-4: 183056 = 183060-4 (0)
- 2E=3F: 549168 = 549168 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 1669 intersecting
- 001: 187 intersecting
- 002: 64 intersecting
- 003: 40 intersecting
- 004: 29 intersecting
- expanding nbhd size to 2
- 005: 29 intersecting
- expanding nbhd size to 3
- 006: 39 intersecting
- 007: 26 intersecting
- expanding nbhd size to 4
- 008: 30 intersecting
- 009: 18 intersecting
- expanding nbhd size to 5
- 010: 23 intersecting
- expanding nbhd size to 6
- 011: 23 intersecting
- 012: 14 intersecting
- 013: 5 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 878 intersecting
- 001: 136 intersecting
- 002: 34 intersecting
- 003: 16 intersecting
- 004: 10 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Tue Oct 10 10:31:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050185 lh
- #--------------------------------------------
- #@# Make White Surf rh Tue Oct 10 10:31:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050185 rh
- Waiting for PID 12524 of (12524 12527) to complete...
- Waiting for PID 12527 of (12524 12527) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050185 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-6.0.0/0050185/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- 19675 bright wm thresholded.
- 36 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.orig...
- computing class statistics...
- border white: 240017 voxels (1.43%)
- border gray 321362 voxels (1.92%)
- WM (91.0): 92.4 +- 8.4 [70.0 --> 110.0]
- GM (70.0) : 68.3 +- 11.4 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 58.6 (was 70)
- setting MAX_BORDER_WHITE to 101.4 (was 105)
- setting MIN_BORDER_WHITE to 70.0 (was 85)
- setting MAX_CSF to 47.2 (was 40)
- setting MAX_GRAY to 84.6 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 58.6 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 35.8 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.80 +- 0.32 (0.01-->10.88) (max @ vno 46735 --> 57733)
- face area 0.27 +- 0.19 (0.00-->11.61)
- mean absolute distance = 0.86 +- 1.11
- 3182 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=93+-9.6, GM=70+-9.6
- mean inside = 88.7, mean outside = 73.7
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=80.8, 432 (432) missing vertices, mean dist 0.0 [1.0 (%42.1)->0.8 (%57.9))]
- %59 local maxima, %33 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 0.90 +- 0.35 (0.06-->11.00) (max @ vno 46735 --> 57733)
- face area 0.27 +- 0.19 (0.00-->11.09)
- mean absolute distance = 0.49 +- 0.80
- 3290 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1884885.9, rms=8.859
- 001: dt: 0.5000, sse=1114468.4, rms=6.517 (26.430%)
- 002: dt: 0.5000, sse=820465.4, rms=5.134 (21.226%)
- 003: dt: 0.5000, sse=709942.5, rms=4.463 (13.060%)
- 004: dt: 0.5000, sse=663811.3, rms=4.144 (7.159%)
- 005: dt: 0.5000, sse=642744.1, rms=3.999 (3.486%)
- 006: dt: 0.5000, sse=630731.2, rms=3.897 (2.571%)
- rms = 3.85, time step reduction 1 of 3 to 0.250...
- 007: dt: 0.5000, sse=639123.7, rms=3.854 (1.089%)
- 008: dt: 0.2500, sse=552460.3, rms=3.171 (17.715%)
- 009: dt: 0.2500, sse=525982.2, rms=2.998 (5.476%)
- rms = 2.97, time step reduction 2 of 3 to 0.125...
- 010: dt: 0.2500, sse=523896.0, rms=2.965 (1.081%)
- 011: dt: 0.1250, sse=520000.8, rms=2.908 (1.924%)
- rms = 2.89, time step reduction 3 of 3 to 0.062...
- 012: dt: 0.1250, sse=515341.8, rms=2.894 (0.492%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 1 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
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- mean border=82.8, 596 (157) missing vertices, mean dist -0.2 [0.6 (%59.5)->0.4 (%40.5))]
- %64 local maxima, %27 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 +- 0.35 (0.04-->10.77) (max @ vno 46735 --> 57733)
- face area 0.34 +- 0.24 (0.00-->12.52)
- mean absolute distance = 0.39 +- 0.57
- 2907 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=722676.4, rms=3.901
- 013: dt: 0.5000, sse=685477.1, rms=3.317 (14.955%)
- rms = 3.29, time step reduction 1 of 3 to 0.250...
- 014: dt: 0.5000, sse=657939.8, rms=3.294 (0.708%)
- 015: dt: 0.2500, sse=592047.9, rms=2.688 (18.390%)
- 016: dt: 0.2500, sse=581475.1, rms=2.553 (5.010%)
- rms = 2.53, time step reduction 2 of 3 to 0.125...
- 017: dt: 0.2500, sse=572629.8, rms=2.532 (0.831%)
- 018: dt: 0.1250, sse=563763.4, rms=2.482 (1.979%)
- rms = 2.47, time step reduction 3 of 3 to 0.062...
- 019: dt: 0.1250, sse=564979.8, rms=2.469 (0.532%)
- positioning took 0.5 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 3 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
- removing 3 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 2 vertex label from ripped group
- mean border=83.8, 665 (127) missing vertices, mean dist -0.1 [0.5 (%54.2)->0.3 (%45.8))]
- %69 local maxima, %21 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 0.91 +- 0.35 (0.04-->10.77) (max @ vno 46735 --> 57733)
- face area 0.34 +- 0.24 (0.00-->12.58)
- mean absolute distance = 0.36 +- 0.46
- 2219 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=605974.3, rms=2.886
- rms = 2.84, time step reduction 1 of 3 to 0.250...
- 020: dt: 0.5000, sse=630564.8, rms=2.844 (1.466%)
- 021: dt: 0.2500, sse=566802.7, rms=2.414 (15.126%)
- 022: dt: 0.2500, sse=567563.4, rms=2.326 (3.643%)
- rms = 2.33, time step reduction 2 of 3 to 0.125...
- rms = 2.30, time step reduction 3 of 3 to 0.062...
- 023: dt: 0.1250, sse=555444.5, rms=2.302 (1.009%)
- positioning took 0.3 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 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=84.5, 745 (104) missing vertices, mean dist -0.1 [0.4 (%51.2)->0.3 (%48.8))]
- %74 local maxima, %17 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-6.0.0/0050185/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=565629.0, rms=2.421
- 024: dt: 0.5000, sse=617506.6, rms=2.363 (2.379%)
- rms = 2.80, time step reduction 1 of 3 to 0.250...
- 025: dt: 0.2500, sse=543561.6, rms=1.966 (16.815%)
- rms = 1.92, time step reduction 2 of 3 to 0.125...
- 026: dt: 0.2500, sse=539185.6, rms=1.917 (2.515%)
- 027: dt: 0.1250, sse=518040.4, rms=1.797 (6.216%)
- rms = 1.77, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=518716.1, rms=1.773 (1.367%)
- positioning took 0.4 minutes
- generating cortex label...
- 20 non-cortical segments detected
- only using segment with 7687 vertices
- erasing segment 0 (vno[0] = 11590)
- erasing segment 1 (vno[0] = 12906)
- erasing segment 3 (vno[0] = 28304)
- erasing segment 4 (vno[0] = 28347)
- erasing segment 5 (vno[0] = 29184)
- erasing segment 6 (vno[0] = 29206)
- erasing segment 7 (vno[0] = 32133)
- erasing segment 8 (vno[0] = 32161)
- erasing segment 9 (vno[0] = 32169)
- erasing segment 10 (vno[0] = 38445)
- erasing segment 11 (vno[0] = 44951)
- erasing segment 12 (vno[0] = 44969)
- erasing segment 13 (vno[0] = 45715)
- erasing segment 14 (vno[0] = 50035)
- erasing segment 15 (vno[0] = 52802)
- erasing segment 16 (vno[0] = 54748)
- erasing segment 17 (vno[0] = 55339)
- erasing segment 18 (vno[0] = 55798)
- erasing segment 19 (vno[0] = 56414)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.area
- vertex spacing 0.90 +- 0.35 (0.03-->10.88) (max @ vno 46735 --> 57733)
- face area 0.34 +- 0.24 (0.00-->12.07)
- refinement took 3.2 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050185 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-6.0.0/0050185/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- 19675 bright wm thresholded.
- 36 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.orig...
- computing class statistics...
- border white: 240017 voxels (1.43%)
- border gray 321362 voxels (1.92%)
- WM (91.0): 92.4 +- 8.4 [70.0 --> 110.0]
- GM (70.0) : 68.3 +- 11.4 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 58.6 (was 70)
- setting MAX_BORDER_WHITE to 100.4 (was 105)
- setting MIN_BORDER_WHITE to 70.0 (was 85)
- setting MAX_CSF to 47.2 (was 40)
- setting MAX_GRAY to 83.6 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 58.6 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 35.8 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.80 +- 0.30 (0.01-->5.80) (max @ vno 88519 --> 88563)
- face area 0.27 +- 0.17 (0.00-->5.43)
- mean absolute distance = 0.85 +- 1.07
- 3068 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=92+-7.8, GM=70+-9.6
- mean inside = 87.6, mean outside = 73.5
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- mean border=79.7, 989 (989) missing vertices, mean dist 0.1 [0.9 (%38.7)->0.8 (%61.3))]
- %57 local maxima, %34 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 +- 0.33 (0.05-->6.04) (max @ vno 88519 --> 88563)
- face area 0.27 +- 0.17 (0.00-->4.23)
- mean absolute distance = 0.49 +- 0.79
- 3258 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1629797.9, rms=8.393
- 001: dt: 0.5000, sse=1005751.0, rms=6.193 (26.209%)
- 002: dt: 0.5000, sse=760593.7, rms=4.898 (20.904%)
- 003: dt: 0.5000, sse=661722.6, rms=4.238 (13.478%)
- 004: dt: 0.5000, sse=621595.5, rms=3.949 (6.828%)
- 005: dt: 0.5000, sse=605761.4, rms=3.811 (3.489%)
- 006: dt: 0.5000, sse=597429.8, rms=3.733 (2.040%)
- rms = 3.69, time step reduction 1 of 3 to 0.250...
- 007: dt: 0.5000, sse=607142.7, rms=3.687 (1.229%)
- 008: dt: 0.2500, sse=519541.6, rms=3.042 (17.507%)
- 009: dt: 0.2500, sse=506621.8, rms=2.893 (4.907%)
- rms = 2.86, time step reduction 2 of 3 to 0.125...
- 010: dt: 0.2500, sse=503445.3, rms=2.857 (1.219%)
- rms = 2.81, time step reduction 3 of 3 to 0.062...
- 011: dt: 0.1250, sse=499087.7, rms=2.812 (1.573%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=81.8, 1082 (619) missing vertices, mean dist -0.2 [0.6 (%60.4)->0.4 (%39.6))]
- %64 local maxima, %27 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 +- 0.33 (0.07-->5.87) (max @ vno 86525 --> 86567)
- face area 0.34 +- 0.21 (0.00-->5.31)
- mean absolute distance = 0.40 +- 0.57
- 3061 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=700028.2, rms=3.843
- 012: dt: 0.5000, sse=637466.9, rms=3.174 (17.419%)
- 013: dt: 0.5000, sse=619610.0, rms=3.112 (1.961%)
- rms = 3.18, time step reduction 1 of 3 to 0.250...
- 014: dt: 0.2500, sse=572369.1, rms=2.675 (14.043%)
- 015: dt: 0.2500, sse=583688.2, rms=2.477 (7.402%)
- rms = 2.43, time step reduction 2 of 3 to 0.125...
- 016: dt: 0.2500, sse=570226.9, rms=2.434 (1.718%)
- rms = 2.40, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=559697.4, rms=2.400 (1.394%)
- positioning took 0.5 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=82.9, 1152 (562) missing vertices, mean dist -0.1 [0.5 (%54.6)->0.3 (%45.4))]
- %70 local maxima, %21 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 0.90 +- 0.33 (0.03-->5.85) (max @ vno 86525 --> 86567)
- face area 0.34 +- 0.22 (0.00-->5.38)
- mean absolute distance = 0.36 +- 0.46
- 2304 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=603818.5, rms=2.884
- 018: dt: 0.5000, sse=617410.9, rms=2.722 (5.620%)
- rms = 2.81, time step reduction 1 of 3 to 0.250...
- 019: dt: 0.2500, sse=576678.4, rms=2.416 (11.235%)
- 020: dt: 0.2500, sse=553318.1, rms=2.283 (5.525%)
- rms = 2.26, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=567111.1, rms=2.256 (1.193%)
- rms = 2.22, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=549023.9, rms=2.223 (1.454%)
- positioning took 0.4 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 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=83.6, 1270 (538) missing vertices, mean dist -0.1 [0.4 (%51.3)->0.3 (%48.7))]
- %75 local maxima, %16 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-6.0.0/0050185/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=559974.8, rms=2.370
- 023: dt: 0.5000, sse=543444.3, rms=2.130 (10.116%)
- rms = 2.56, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=510470.1, rms=1.884 (11.529%)
- rms = 1.86, time step reduction 2 of 3 to 0.125...
- 025: dt: 0.2500, sse=515426.5, rms=1.859 (1.359%)
- rms = 1.82, time step reduction 3 of 3 to 0.062...
- 026: dt: 0.1250, sse=502739.9, rms=1.817 (2.267%)
- positioning took 0.3 minutes
- generating cortex label...
- 22 non-cortical segments detected
- only using segment with 7694 vertices
- erasing segment 0 (vno[0] = 14908)
- erasing segment 1 (vno[0] = 17725)
- erasing segment 2 (vno[0] = 19177)
- erasing segment 4 (vno[0] = 24435)
- erasing segment 5 (vno[0] = 25240)
- erasing segment 6 (vno[0] = 26027)
- erasing segment 7 (vno[0] = 30621)
- erasing segment 8 (vno[0] = 36273)
- erasing segment 9 (vno[0] = 36277)
- erasing segment 10 (vno[0] = 38237)
- erasing segment 11 (vno[0] = 38259)
- erasing segment 12 (vno[0] = 39130)
- erasing segment 13 (vno[0] = 39942)
- erasing segment 14 (vno[0] = 46616)
- erasing segment 15 (vno[0] = 55694)
- erasing segment 16 (vno[0] = 55713)
- erasing segment 17 (vno[0] = 62400)
- erasing segment 18 (vno[0] = 63950)
- erasing segment 19 (vno[0] = 67781)
- erasing segment 20 (vno[0] = 68837)
- erasing segment 21 (vno[0] = 90778)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.area
- vertex spacing 0.90 +- 0.32 (0.01-->5.83) (max @ vno 86525 --> 86567)
- face area 0.34 +- 0.21 (0.00-->5.16)
- refinement took 3.0 minutes
- PIDs (12524 12527) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Tue Oct 10 10:34:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Tue Oct 10 10:34:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 12746 of (12746 12749) to complete...
- Waiting for PID 12749 of (12746 12749) 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 (12746 12749) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Tue Oct 10 10:34:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Tue Oct 10 10:34:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 12793 of (12793 12796) to complete...
- Waiting for PID 12796 of (12793 12796) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 43.4 mm, total surface area = 53921 mm^2
- writing inflated surface to ../surf/lh.inflated
- writing sulcal depths to ../surf/lh.sulc
-
step 000: RMS=0.215 (target=0.015)
step 005: RMS=0.153 (target=0.015)
step 010: RMS=0.132 (target=0.015)
step 015: RMS=0.115 (target=0.015)
step 020: RMS=0.101 (target=0.015)
step 025: RMS=0.091 (target=0.015)
step 030: RMS=0.080 (target=0.015)
step 035: RMS=0.071 (target=0.015)
step 040: RMS=0.066 (target=0.015)
step 045: RMS=0.060 (target=0.015)
step 050: RMS=0.055 (target=0.015)
step 055: RMS=0.051 (target=0.015)
step 060: RMS=0.048 (target=0.015)
- inflation complete.
- inflation took 0.5 minutes
- mris_inflate utimesec 31.322238
- mris_inflate stimesec 0.075988
- mris_inflate ru_maxrss 140896
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 21975
- mris_inflate ru_majflt 3
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 9024
- mris_inflate ru_oublock 7256
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 1741
- mris_inflate ru_nivcsw 2463
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 42.4 mm, total surface area = 53469 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.208 (target=0.015)
step 005: RMS=0.149 (target=0.015)
step 010: RMS=0.128 (target=0.015)
step 015: RMS=0.110 (target=0.015)
step 020: RMS=0.098 (target=0.015)
step 025: RMS=0.085 (target=0.015)
step 030: RMS=0.076 (target=0.015)
step 035: RMS=0.067 (target=0.015)
step 040: RMS=0.060 (target=0.015)
step 045: RMS=0.056 (target=0.015)
step 050: RMS=0.053 (target=0.015)
step 055: RMS=0.049 (target=0.015)
step 060: RMS=0.047 (target=0.015)
- inflation complete.
- inflation took 0.5 minutes
- mris_inflate utimesec 30.683335
- mris_inflate stimesec 0.092985
- mris_inflate ru_maxrss 138292
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 20812
- mris_inflate ru_majflt 2
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 3256
- mris_inflate ru_oublock 7176
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 1836
- mris_inflate ru_nivcsw 2286
- PIDs (12793 12796) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Tue Oct 10 10:35:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 Tue Oct 10 10:35:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 12881 of (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) to complete...
- Waiting for PID 12884 of (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) to complete...
- Waiting for PID 12887 of (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) to complete...
- Waiting for PID 12890 of (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) to complete...
- Waiting for PID 12893 of (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) to complete...
- Waiting for PID 12896 of (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) to complete...
- Waiting for PID 12899 of (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) to complete...
- Waiting for PID 12902 of (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) to complete...
- Waiting for PID 12905 of (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) to complete...
- Waiting for PID 12908 of (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) to complete...
- Waiting for PID 12912 of (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) to complete...
- Waiting for PID 12915 of (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = 47.229*4pi (593.492) --> -46 handles
- ICI = 277.5, FI = 1699.3, variation=30393.643
- 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
- 101 vertices thresholded to be in k1 ~ [-0.92 3.02], k2 ~ [-0.39 0.31]
- total integrated curvature = -0.465*4pi (-5.849) --> 1 handles
- ICI = 1.0, FI = 9.5, variation=162.208
- 97 vertices thresholded to be in [-0.14 0.21]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.007
- 66 vertices thresholded to be in [-0.50 0.81]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.027, std = 0.040
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = 42.041*4pi (528.303) --> -41 handles
- ICI = 256.2, FI = 1699.2, variation=29686.199
- 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
- 70 vertices thresholded to be in k1 ~ [-2.18 0.83], k2 ~ [-0.55 0.30]
- total integrated curvature = -0.292*4pi (-3.671) --> 1 handles
- ICI = 1.0, FI = 9.8, variation=163.677
- 85 vertices thresholded to be in [-0.15 0.16]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.005
- 56 vertices thresholded to be in [-0.62 0.37]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.025, std = 0.037
- done.
- PIDs (12881 12884 12887 12890 12893 12896 12899 12902 12905 12908 12912 12915) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Tue Oct 10 10:36:13 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0050185 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 [ 0050185/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 [ 217 ]
- Gb_filter = 0
- WARN: S lookup min: -0.010140
- WARN: S explicit min: 0.000000 vertex = 635
- #-----------------------------------------
- #@# Curvature Stats rh Tue Oct 10 10:36:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0050185 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 [ 0050185/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 [ 215 ]
- Gb_filter = 0
- #--------------------------------------------
- #@# Sphere lh Tue Oct 10 10:36:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Tue Oct 10 10:36:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 13088 of (13088 13091) to complete...
- Waiting for PID 13091 of (13088 13091) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0.329...
- 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 %25.37
- pass 1: epoch 2 of 3 starting distance error %24.82
- unfolding complete - removing small folds...
- starting distance error %23.72
- removing remaining folds...
- final distance error %23.83
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 591 negative triangles
- 412: dt=0.9900, 591 negative triangles
- 413: dt=0.9900, 282 negative triangles
- 414: dt=0.9900, 259 negative triangles
- 415: dt=0.9900, 255 negative triangles
- 416: dt=0.9900, 243 negative triangles
- 417: dt=0.9900, 229 negative triangles
- 418: dt=0.9900, 215 negative triangles
- 419: dt=0.9900, 213 negative triangles
- 420: dt=0.9900, 201 negative triangles
- 421: dt=0.9900, 186 negative triangles
- 422: dt=0.9900, 192 negative triangles
- 423: dt=0.9900, 167 negative triangles
- 424: dt=0.9900, 154 negative triangles
- 425: dt=0.9900, 176 negative triangles
- 426: dt=0.9900, 143 negative triangles
- 427: dt=0.9900, 128 negative triangles
- 428: dt=0.9900, 128 negative triangles
- 429: dt=0.9900, 135 negative triangles
- 430: dt=0.9900, 118 negative triangles
- 431: dt=0.9900, 118 negative triangles
- 432: dt=0.9900, 96 negative triangles
- 433: dt=0.9900, 91 negative triangles
- 434: dt=0.9900, 91 negative triangles
- 435: dt=0.9900, 80 negative triangles
- 436: dt=0.9900, 65 negative triangles
- 437: dt=0.9900, 51 negative triangles
- 438: dt=0.9900, 44 negative triangles
- 439: dt=0.9900, 47 negative triangles
- 440: dt=0.9900, 37 negative triangles
- 441: dt=0.9900, 29 negative triangles
- 442: dt=0.9900, 29 negative triangles
- 443: dt=0.9900, 16 negative triangles
- 444: dt=0.9900, 20 negative triangles
- 445: dt=0.9900, 16 negative triangles
- 446: dt=0.9900, 12 negative triangles
- 447: dt=0.9900, 12 negative triangles
- 448: dt=0.9900, 6 negative triangles
- 449: dt=0.9900, 7 negative triangles
- 450: dt=0.9900, 7 negative triangles
- 451: dt=0.9900, 5 negative triangles
- 452: dt=0.9900, 4 negative triangles
- 453: dt=0.9900, 2 negative triangles
- 454: dt=0.9900, 4 negative triangles
- 455: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 0.77 hours
- mris_sphere utimesec 3359.164329
- mris_sphere stimesec 0.799878
- mris_sphere ru_maxrss 193888
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 35367
- mris_sphere ru_majflt 3
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 8008
- mris_sphere ru_oublock 6552
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 94645
- mris_sphere ru_nivcsw 173929
- FSRUNTIME@ mris_sphere 0.7713 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0.328...
- 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 %44.73
- pass 1: epoch 2 of 3 starting distance error %23.72
- unfolding complete - removing small folds...
- starting distance error %22.64
- removing remaining folds...
- final distance error %22.72
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 325 negative triangles
- 307: dt=0.9900, 325 negative triangles
- 308: dt=0.9900, 98 negative triangles
- 309: dt=0.9900, 84 negative triangles
- 310: dt=0.9900, 63 negative triangles
- 311: dt=0.9900, 59 negative triangles
- 312: dt=0.9900, 45 negative triangles
- 313: dt=0.9900, 49 negative triangles
- 314: dt=0.9900, 33 negative triangles
- 315: dt=0.9900, 41 negative triangles
- 316: dt=0.9900, 33 negative triangles
- 317: dt=0.9900, 39 negative triangles
- 318: dt=0.9900, 37 negative triangles
- 319: dt=0.9900, 28 negative triangles
- 320: dt=0.9900, 29 negative triangles
- 321: dt=0.9900, 27 negative triangles
- 322: dt=0.9900, 24 negative triangles
- 323: dt=0.9900, 20 negative triangles
- 324: dt=0.9900, 16 negative triangles
- 325: dt=0.9900, 21 negative triangles
- 326: dt=0.9900, 19 negative triangles
- 327: dt=0.9900, 11 negative triangles
- 328: dt=0.9900, 11 negative triangles
- 329: dt=0.9900, 8 negative triangles
- 330: dt=0.9900, 10 negative triangles
- 331: dt=0.9900, 8 negative triangles
- 332: dt=0.9900, 5 negative triangles
- 333: dt=0.9900, 5 negative triangles
- 334: dt=0.9900, 3 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 0.57 hours
- mris_sphere utimesec 2047.732697
- mris_sphere stimesec 0.798878
- mris_sphere ru_maxrss 191028
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 34628
- mris_sphere ru_majflt 2
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 4504
- mris_sphere ru_oublock 6480
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 95931
- mris_sphere ru_nivcsw 165248
- FSRUNTIME@ mris_sphere 0.5688 hours 1 threads
- PIDs (13088 13091) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Tue Oct 10 11:22:36 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 Tue Oct 10 11:22:36 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 15032 of (15032 15035) to complete...
- Waiting for PID 15035 of (15032 15035) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 = 5.109
- curvature mean = 0.019, std = 0.805
- curvature mean = 0.015, std = 0.901
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (16.00, 0.00, 16.00) sse = 224649.9, tmin=0.6885
- d=32.00 min @ (-8.00, 0.00, 0.00) sse = 210081.7, tmin=1.3969
- d=16.00 min @ (-4.00, -4.00, -8.00) sse = 204307.7, tmin=2.1085
- d=8.00 min @ (2.00, 0.00, 2.00) sse = 202428.6, tmin=2.8362
- d=4.00 min @ (-1.00, -1.00, -1.00) sse = 202262.0, tmin=3.5706
- d=2.00 min @ (0.50, 0.50, 0.00) sse = 202150.2, tmin=4.3081
- d=1.00 min @ (-0.25, -0.25, 0.00) sse = 202150.2, tmin=5.0401
- d=0.50 min @ (0.12, 0.12, 0.00) sse = 202141.3, tmin=5.7759
- 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 5.78 min
- curvature mean = -0.007, std = 0.848
- curvature mean = 0.008, std = 0.962
- curvature mean = -0.018, std = 0.859
- curvature mean = 0.003, std = 0.983
- curvature mean = -0.023, std = 0.862
- curvature mean = 0.001, std = 0.992
- 2 Reading smoothwm
- curvature mean = -0.059, std = 0.399
- curvature mean = 0.031, std = 0.248
- curvature mean = 0.070, std = 0.275
- curvature mean = 0.015, std = 0.316
- curvature mean = 0.067, std = 0.358
- curvature mean = 0.014, std = 0.344
- curvature mean = 0.040, std = 0.484
- curvature mean = 0.013, std = 0.356
- curvature mean = 0.017, std = 0.613
- MRISregister() return, current seed 0
- -01: dt=0.0000, 387 negative triangles
- 136: dt=0.9900, 387 negative triangles
- expanding nbhd size to 1
- 137: dt=0.9900, 470 negative triangles
- 138: dt=0.9900, 338 negative triangles
- 139: dt=0.9900, 321 negative triangles
- 140: dt=0.9900, 317 negative triangles
- 141: dt=0.9900, 301 negative triangles
- 142: dt=0.9900, 282 negative triangles
- 143: dt=0.9900, 270 negative triangles
- 144: dt=0.9900, 266 negative triangles
- 145: dt=0.9900, 261 negative triangles
- 146: dt=0.9900, 228 negative triangles
- 147: dt=0.9900, 215 negative triangles
- 148: dt=0.9900, 198 negative triangles
- 149: dt=0.9900, 184 negative triangles
- 150: dt=0.9900, 174 negative triangles
- 151: dt=0.9900, 163 negative triangles
- 152: dt=0.9900, 155 negative triangles
- 153: dt=0.9900, 140 negative triangles
- 154: dt=0.9900, 143 negative triangles
- 155: dt=0.9900, 139 negative triangles
- 156: dt=0.9900, 119 negative triangles
- 157: dt=0.9900, 112 negative triangles
- 158: dt=0.9900, 100 negative triangles
- 159: dt=0.9900, 99 negative triangles
- 160: dt=0.9900, 89 negative triangles
- 161: dt=0.9900, 79 negative triangles
- 162: dt=0.9900, 83 negative triangles
- 163: dt=0.9900, 65 negative triangles
- 164: dt=0.9900, 56 negative triangles
- 165: dt=0.9900, 58 negative triangles
- 166: dt=0.9900, 60 negative triangles
- 167: dt=0.9900, 64 negative triangles
- 168: dt=0.9900, 54 negative triangles
- 169: dt=0.9900, 47 negative triangles
- 170: dt=0.9900, 46 negative triangles
- 171: dt=0.9900, 43 negative triangles
- 172: dt=0.9900, 42 negative triangles
- 173: dt=0.9900, 37 negative triangles
- 174: dt=0.9900, 39 negative triangles
- 175: dt=0.9900, 39 negative triangles
- 176: dt=0.9900, 32 negative triangles
- 177: dt=0.9900, 30 negative triangles
- 178: dt=0.9900, 28 negative triangles
- 179: dt=0.9900, 27 negative triangles
- 180: dt=0.9900, 24 negative triangles
- 181: dt=0.9900, 23 negative triangles
- 182: dt=0.9900, 24 negative triangles
- 183: dt=0.9900, 24 negative triangles
- 184: dt=0.9900, 18 negative triangles
- 185: dt=0.9900, 18 negative triangles
- 186: dt=0.9900, 19 negative triangles
- 187: dt=0.9900, 18 negative triangles
- 188: dt=0.9900, 16 negative triangles
- 189: dt=0.9900, 14 negative triangles
- 190: dt=0.9900, 15 negative triangles
- 191: dt=0.9900, 14 negative triangles
- 192: dt=0.9900, 15 negative triangles
- 193: dt=0.9900, 14 negative triangles
- 194: dt=0.9900, 15 negative triangles
- 195: dt=0.9900, 14 negative triangles
- 196: dt=0.9900, 12 negative triangles
- 197: dt=0.9900, 12 negative triangles
- 198: dt=0.9900, 12 negative triangles
- 199: dt=0.9900, 9 negative triangles
- 200: dt=0.9900, 8 negative triangles
- 201: dt=0.9900, 9 negative triangles
- 202: dt=0.9900, 7 negative triangles
- 203: dt=0.9900, 7 negative triangles
- 204: dt=0.9900, 5 negative triangles
- 205: dt=0.9900, 5 negative triangles
- 206: dt=0.9900, 6 negative triangles
- 207: dt=0.9900, 7 negative triangles
- 208: dt=0.9900, 4 negative triangles
- 209: dt=0.9900, 6 negative triangles
- 210: dt=0.9900, 3 negative triangles
- 211: dt=0.9900, 4 negative triangles
- 212: dt=0.9900, 2 negative triangles
- 213: dt=0.9900, 5 negative triangles
- 214: dt=0.9900, 2 negative triangles
- 215: dt=0.9900, 2 negative triangles
- 216: dt=0.9900, 1 negative triangles
- 217: dt=0.9900, 3 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 0.83 hours
- mris_register utimesec 3076.729266
- mris_register stimesec 2.209664
- mris_register ru_maxrss 195620
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 27972
- mris_register ru_majflt 3
- mris_register ru_nswap 0
- mris_register ru_inblock 12024
- mris_register ru_oublock 6616
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 207358
- mris_register ru_nivcsw 137371
- FSRUNTIME@ mris_register 0.8265 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 = 5.149
- curvature mean = 0.035, std = 0.814
- curvature mean = 0.016, std = 0.901
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (0.00, 0.00, 16.00) sse = 206301.3, tmin=0.6799
- d=32.00 min @ (-8.00, -8.00, 0.00) sse = 188429.9, tmin=1.3755
- d=16.00 min @ (0.00, 0.00, 4.00) sse = 180033.5, tmin=2.0793
- d=8.00 min @ (2.00, 2.00, 0.00) sse = 176658.5, tmin=2.7891
- d=2.00 min @ (0.00, -0.50, 0.00) sse = 176567.1, tmin=4.2157
- d=1.00 min @ (0.00, 0.25, 0.25) sse = 176495.5, tmin=4.9283
- d=0.50 min @ (0.12, 0.00, 0.00) sse = 176492.2, tmin=5.6484
- 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 5.65 min
- curvature mean = -0.000, std = 0.853
- curvature mean = 0.006, std = 0.964
- curvature mean = -0.007, std = 0.863
- curvature mean = 0.002, std = 0.985
- curvature mean = -0.011, std = 0.865
- curvature mean = 0.000, std = 0.994
- 2 Reading smoothwm
- curvature mean = -0.059, std = 0.390
- curvature mean = 0.030, std = 0.244
- curvature mean = 0.063, std = 0.296
- curvature mean = 0.017, std = 0.310
- curvature mean = 0.061, std = 0.387
- curvature mean = 0.014, std = 0.339
- curvature mean = 0.035, std = 0.507
- curvature mean = 0.012, std = 0.352
- curvature mean = 0.014, std = 0.628
- MRISregister() return, current seed 0
- -01: dt=0.0000, 234 negative triangles
- 120: dt=0.9900, 234 negative triangles
- expanding nbhd size to 1
- 121: dt=0.9900, 308 negative triangles
- 122: dt=0.9900, 239 negative triangles
- 123: dt=0.9900, 248 negative triangles
- 124: dt=0.9900, 259 negative triangles
- 125: dt=0.9900, 224 negative triangles
- 126: dt=0.9900, 225 negative triangles
- 127: dt=0.9900, 213 negative triangles
- 128: dt=0.9900, 196 negative triangles
- 129: dt=0.9900, 193 negative triangles
- 130: dt=0.9900, 188 negative triangles
- 131: dt=0.9900, 172 negative triangles
- 132: dt=0.9900, 153 negative triangles
- 133: dt=0.9900, 144 negative triangles
- 134: dt=0.9900, 150 negative triangles
- 135: dt=0.9900, 134 negative triangles
- 136: dt=0.9900, 123 negative triangles
- 137: dt=0.9900, 124 negative triangles
- 138: dt=0.9900, 104 negative triangles
- 139: dt=0.9900, 112 negative triangles
- 140: dt=0.9900, 94 negative triangles
- 141: dt=0.9900, 98 negative triangles
- 142: dt=0.9900, 88 negative triangles
- 143: dt=0.9900, 83 negative triangles
- 144: dt=0.9900, 80 negative triangles
- 145: dt=0.9900, 69 negative triangles
- 146: dt=0.9900, 68 negative triangles
- 147: dt=0.9900, 62 negative triangles
- 148: dt=0.9900, 61 negative triangles
- 149: dt=0.9900, 50 negative triangles
- 150: dt=0.9900, 49 negative triangles
- 151: dt=0.9900, 52 negative triangles
- 152: dt=0.9900, 53 negative triangles
- 153: dt=0.9900, 37 negative triangles
- 154: dt=0.9900, 44 negative triangles
- 155: dt=0.9900, 45 negative triangles
- 156: dt=0.9900, 47 negative triangles
- 157: dt=0.9900, 33 negative triangles
- 158: dt=0.9900, 35 negative triangles
- 159: dt=0.9900, 26 negative triangles
- 160: dt=0.9900, 25 negative triangles
- 161: dt=0.9900, 28 negative triangles
- 162: dt=0.9900, 21 negative triangles
- 163: dt=0.9900, 15 negative triangles
- 164: dt=0.9900, 13 negative triangles
- 165: dt=0.9900, 12 negative triangles
- 166: dt=0.9900, 9 negative triangles
- 167: dt=0.9900, 8 negative triangles
- 168: dt=0.9900, 11 negative triangles
- 169: dt=0.9900, 8 negative triangles
- 170: dt=0.9900, 11 negative triangles
- 171: dt=0.9900, 10 negative triangles
- 172: dt=0.9900, 8 negative triangles
- 173: dt=0.9900, 2 negative triangles
- 174: dt=0.9900, 3 negative triangles
- 175: dt=0.9900, 6 negative triangles
- 176: dt=0.9900, 3 negative triangles
- 177: dt=0.9900, 4 negative triangles
- 178: dt=0.9900, 2 negative triangles
- 179: dt=0.9900, 3 negative triangles
- 180: dt=0.9900, 3 negative triangles
- 181: dt=0.9900, 3 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- registration took 0.78 hours
- mris_register utimesec 2802.654931
- mris_register stimesec 2.436629
- mris_register ru_maxrss 192620
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 27324
- mris_register ru_majflt 2
- mris_register ru_nswap 0
- mris_register ru_inblock 11680
- mris_register ru_oublock 6536
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 223340
- mris_register ru_nivcsw 113917
- FSRUNTIME@ mris_register 0.7789 hours 1 threads
- PIDs (15032 15035) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Tue Oct 10 12:12:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Tue Oct 10 12:12:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 17181 of (17181 17184) to complete...
- Waiting for PID 17184 of (17181 17184) 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 (17181 17184) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Tue Oct 10 12:12:13 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 Tue Oct 10 12:12:13 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 17228 of (17228 17231) to complete...
- Waiting for PID 17231 of (17228 17231) 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 (17228 17231) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Tue Oct 10 12:12:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050185 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 Tue Oct 10 12:12:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050185 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 17276 of (17276 17279) to complete...
- Waiting for PID 17279 of (17276 17279) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050185 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...
- 1435 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2357 changed, 92565 examined...
- 001: 525 changed, 10344 examined...
- 002: 161 changed, 2990 examined...
- 003: 50 changed, 914 examined...
- 004: 15 changed, 300 examined...
- 005: 4 changed, 97 examined...
- 006: 1 changed, 26 examined...
- 007: 1 changed, 8 examined...
- 008: 2 changed, 6 examined...
- 009: 0 changed, 11 examined...
- 210 labels changed using aseg
- 000: 141 total segments, 90 labels (487 vertices) changed
- 001: 51 total segments, 4 labels (8 vertices) changed
- 002: 47 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 7 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1746 vertices marked for relabeling...
- 1746 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 13 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050185 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...
- 1249 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2110 changed, 91530 examined...
- 001: 524 changed, 9355 examined...
- 002: 119 changed, 2941 examined...
- 003: 39 changed, 706 examined...
- 004: 18 changed, 217 examined...
- 005: 9 changed, 89 examined...
- 006: 4 changed, 53 examined...
- 007: 1 changed, 29 examined...
- 008: 1 changed, 10 examined...
- 009: 0 changed, 6 examined...
- 227 labels changed using aseg
- 000: 102 total segments, 63 labels (429 vertices) changed
- 001: 42 total segments, 3 labels (3 vertices) changed
- 002: 39 total segments, 1 labels (1 vertices) changed
- 003: 38 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 4 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1150 vertices marked for relabeling...
- 1150 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 13 seconds.
- PIDs (17276 17279) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Tue Oct 10 12:12:28 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050185 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Tue Oct 10 12:12:28 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050185 rh
- Waiting for PID 17334 of (17334 17337) to complete...
- Waiting for PID 17337 of (17334 17337) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050185 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-6.0.0/0050185/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- 19675 bright wm thresholded.
- 36 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.orig...
- computing class statistics...
- border white: 240017 voxels (1.43%)
- border gray 321362 voxels (1.92%)
- WM (91.0): 92.4 +- 8.4 [70.0 --> 110.0]
- GM (70.0) : 68.3 +- 11.4 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 58.6 (was 70)
- setting MAX_BORDER_WHITE to 101.4 (was 105)
- setting MIN_BORDER_WHITE to 70.0 (was 85)
- setting MAX_CSF to 47.2 (was 40)
- setting MAX_GRAY to 84.6 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 58.6 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 35.8 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=93+-9.6, GM=70+-9.6
- mean inside = 88.7, mean outside = 73.7
- 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 0.90 +- 0.35 (0.03-->10.88) (max @ vno 46735 --> 57733)
- face area 0.34 +- 0.24 (0.00-->12.07)
- mean absolute distance = 0.65 +- 1.05
- 3045 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 26 points - only 0.00% unknown
- deleting segment 1 with 24 points - only 0.00% unknown
- deleting segment 2 with 33 points - only 0.00% unknown
- deleting segment 3 with 8 points - only 0.00% unknown
- deleting segment 5 with 957 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 6 with 1 points - only 0.00% unknown
- deleting segment 7 with 9 points - only 0.00% unknown
- deleting segment 8 with 22 points - only 0.00% unknown
- deleting segment 9 with 21 points - only 0.00% unknown
- deleting segment 10 with 8 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 11 with 2 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 12 with 2 points - only 0.00% unknown
- deleting segment 13 with 14 points - only 0.00% unknown
- deleting segment 14 with 69 points - only 0.00% unknown
- deleting segment 15 with 11 points - only 0.00% unknown
- mean border=80.9, 517 (511) missing vertices, mean dist 0.1 [1.0 (%26.0)->0.5 (%74.0))]
- %58 local maxima, %34 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 0.90 +- 0.35 (0.05-->10.61) (max @ vno 46735 --> 57733)
- face area 0.34 +- 0.24 (0.00-->12.21)
- mean absolute distance = 0.47 +- 0.77
- 3180 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=927944.1, rms=5.140
- 001: dt: 0.5000, sse=744911.5, rms=3.921 (23.716%)
- 002: dt: 0.5000, sse=720159.3, rms=3.627 (7.515%)
- rms = 3.66, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.2500, sse=642018.3, rms=3.162 (12.807%)
- 004: dt: 0.2500, sse=626728.5, rms=2.947 (6.811%)
- 005: dt: 0.2500, sse=617125.9, rms=2.869 (2.652%)
- rms = 2.84, time step reduction 2 of 3 to 0.125...
- 006: dt: 0.2500, sse=620927.4, rms=2.844 (0.851%)
- 007: dt: 0.1250, sse=603725.8, rms=2.794 (1.764%)
- rms = 2.79, time step reduction 3 of 3 to 0.062...
- 008: dt: 0.1250, sse=603997.7, rms=2.786 (0.280%)
- positioning took 0.7 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 20 points - only 0.00% unknown
- deleting segment 1 with 24 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 2 with 3 points - only 0.00% unknown
- deleting segment 3 with 32 points - only 0.00% unknown
- deleting segment 4 with 8 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 6 with 540 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 15 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 10 with 10 points - only 0.00% unknown
- deleting segment 11 with 12 points - only 0.00% unknown
- deleting segment 12 with 7 points - only 0.00% unknown
- deleting segment 13 with 10 points - only 0.00% unknown
- deleting segment 14 with 17 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 15 with 2 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 16 with 2 points - only 0.00% unknown
- deleting segment 17 with 52 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- mean border=82.7, 561 (215) missing vertices, mean dist -0.2 [0.6 (%58.1)->0.3 (%41.9))]
- %64 local maxima, %28 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 0.91 +- 0.35 (0.06-->10.64) (max @ vno 46735 --> 57733)
- face area 0.34 +- 0.25 (0.00-->12.51)
- mean absolute distance = 0.39 +- 0.56
- 2811 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=683938.1, rms=3.502
- 009: dt: 0.5000, sse=663520.1, rms=3.087 (11.850%)
- rms = 3.13, time step reduction 1 of 3 to 0.250...
- 010: dt: 0.2500, sse=610553.9, rms=2.693 (12.767%)
- 011: dt: 0.2500, sse=605420.2, rms=2.494 (7.393%)
- rms = 2.45, time step reduction 2 of 3 to 0.125...
- 012: dt: 0.2500, sse=585274.9, rms=2.454 (1.578%)
- rms = 2.41, time step reduction 3 of 3 to 0.062...
- 013: dt: 0.1250, sse=578581.2, rms=2.409 (1.830%)
- positioning took 0.4 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 18 points - only 0.00% unknown
- deleting segment 1 with 17 points - only 0.00% unknown
- deleting segment 2 with 31 points - only 0.00% unknown
- deleting segment 3 with 8 points - only 0.00% unknown
- deleting segment 5 with 665 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 6 with 2 points - only 0.00% unknown
- deleting segment 7 with 12 points - only 0.00% unknown
- deleting segment 8 with 8 points - only 0.00% unknown
- deleting segment 9 with 14 points - only 0.00% unknown
- deleting segment 10 with 15 points - only 0.00% unknown
- deleting segment 11 with 12 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 12 with 2 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 13 with 3 points - only 0.00% unknown
- deleting segment 14 with 52 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- mean border=83.7, 633 (155) missing vertices, mean dist -0.1 [0.5 (%53.6)->0.3 (%46.4))]
- %70 local maxima, %22 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 0.91 +- 0.35 (0.05-->10.80) (max @ vno 46735 --> 57733)
- face area 0.34 +- 0.24 (0.00-->12.35)
- mean absolute distance = 0.36 +- 0.47
- 2254 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=614361.8, rms=2.802
- rms = 2.78, time step reduction 1 of 3 to 0.250...
- 014: dt: 0.5000, sse=618776.2, rms=2.782 (0.715%)
- 015: dt: 0.2500, sse=586216.1, rms=2.361 (15.140%)
- 016: dt: 0.2500, sse=563778.9, rms=2.273 (3.720%)
- rms = 2.28, time step reduction 2 of 3 to 0.125...
- rms = 2.25, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=557434.9, rms=2.249 (1.077%)
- positioning took 0.4 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 11 points - only 0.00% unknown
- deleting segment 1 with 22 points - only 0.00% unknown
- deleting segment 2 with 31 points - only 0.00% unknown
- deleting segment 3 with 8 points - only 0.00% unknown
- deleting segment 4 with 728 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 12 points - only 0.00% unknown
- deleting segment 7 with 11 points - only 0.00% unknown
- deleting segment 8 with 14 points - only 0.00% unknown
- deleting segment 9 with 12 points - only 0.00% unknown
- deleting segment 10 with 14 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 11 with 2 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 12 with 4 points - only 0.00% unknown
- deleting segment 13 with 52 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- mean border=84.3, 772 (132) missing vertices, mean dist -0.1 [0.4 (%51.3)->0.3 (%48.7))]
- %75 local maxima, %17 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-6.0.0/0050185/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=567648.2, rms=2.370
- rms = 2.34, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.5000, sse=585024.1, rms=2.342 (1.167%)
- 019: dt: 0.2500, sse=545590.8, rms=2.026 (13.497%)
- 020: dt: 0.2500, sse=547181.0, rms=1.912 (5.656%)
- rms = 1.92, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.1250, sse=529721.9, rms=1.838 (3.859%)
- 022: dt: 0.1250, sse=533270.4, rms=1.737 (5.505%)
- rms = 1.73, time step reduction 3 of 3 to 0.062...
- 023: dt: 0.1250, sse=514545.7, rms=1.731 (0.341%)
- positioning took 0.5 minutes
- generating cortex label...
- 21 non-cortical segments detected
- only using segment with 7662 vertices
- erasing segment 1 (vno[0] = 28346)
- erasing segment 2 (vno[0] = 29206)
- erasing segment 3 (vno[0] = 29680)
- erasing segment 4 (vno[0] = 31529)
- erasing segment 5 (vno[0] = 33608)
- erasing segment 6 (vno[0] = 38445)
- erasing segment 7 (vno[0] = 39288)
- erasing segment 8 (vno[0] = 41279)
- erasing segment 9 (vno[0] = 44951)
- erasing segment 10 (vno[0] = 44969)
- erasing segment 11 (vno[0] = 46497)
- erasing segment 12 (vno[0] = 50368)
- erasing segment 13 (vno[0] = 50567)
- erasing segment 14 (vno[0] = 52334)
- erasing segment 15 (vno[0] = 52802)
- erasing segment 16 (vno[0] = 54110)
- erasing segment 17 (vno[0] = 54748)
- erasing segment 18 (vno[0] = 55339)
- erasing segment 19 (vno[0] = 55798)
- erasing segment 20 (vno[0] = 56414)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.area
- vertex spacing 0.90 +- 0.35 (0.05-->10.92) (max @ vno 46735 --> 57733)
- face area 0.34 +- 0.24 (0.00-->12.48)
- 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 20 points - only 0.00% unknown
- deleting segment 2 with 25 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 4 with 17 points - only 0.00% unknown
- deleting segment 5 with 12 points - only 0.00% unknown
- deleting segment 6 with 25 points - only 0.00% unknown
- deleting segment 7 with 5 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=57.5, 525 (525) missing vertices, mean dist 2.3 [1.5 (%0.0)->3.4 (%100.0))]
- %19 local maxima, %43 large gradients and %31 min vals, 314 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=13489103.0, rms=27.502
- 001: dt: 0.0500, sse=12082745.0, rms=25.975 (5.554%)
- 002: dt: 0.0500, sse=11059108.0, rms=24.803 (4.509%)
- 003: dt: 0.0500, sse=10263676.0, rms=23.853 (3.831%)
- 004: dt: 0.0500, sse=9613974.0, rms=23.048 (3.376%)
- 005: dt: 0.0500, sse=9062998.0, rms=22.342 (3.062%)
- 006: dt: 0.0500, sse=8583316.0, rms=21.709 (2.834%)
- 007: dt: 0.0500, sse=8156917.0, rms=21.130 (2.666%)
- 008: dt: 0.0500, sse=7772181.0, rms=20.594 (2.538%)
- 009: dt: 0.0500, sse=7421614.0, rms=20.093 (2.434%)
- 010: dt: 0.0500, sse=7099841.5, rms=19.621 (2.346%)
- positioning took 0.7 minutes
- mean border=57.2, 390 (228) missing vertices, mean dist 2.0 [0.3 (%0.2)->2.9 (%99.8))]
- %20 local maxima, %44 large gradients and %29 min vals, 348 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=7772109.0, rms=20.573
- 011: dt: 0.0500, sse=7467857.0, rms=20.139 (2.106%)
- 012: dt: 0.0500, sse=7184507.0, rms=19.727 (2.047%)
- 013: dt: 0.0500, sse=6921212.5, rms=19.336 (1.982%)
- 014: dt: 0.0500, sse=6675996.5, rms=18.965 (1.921%)
- 015: dt: 0.0500, sse=6447158.5, rms=18.611 (1.863%)
- 016: dt: 0.0500, sse=6233416.5, rms=18.275 (1.806%)
- 017: dt: 0.0500, sse=6032518.5, rms=17.953 (1.761%)
- 018: dt: 0.0500, sse=5844137.5, rms=17.646 (1.711%)
- 019: dt: 0.0500, sse=5667959.5, rms=17.354 (1.656%)
- 020: dt: 0.0500, sse=5502849.5, rms=17.076 (1.605%)
- positioning took 0.7 minutes
- mean border=57.1, 419 (171) missing vertices, mean dist 1.8 [0.1 (%3.4)->2.7 (%96.6))]
- %20 local maxima, %44 large gradients and %29 min vals, 367 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=5584175.0, rms=17.214
- 021: dt: 0.0500, sse=5422418.5, rms=16.939 (1.597%)
- 022: dt: 0.0500, sse=5271052.5, rms=16.677 (1.543%)
- 023: dt: 0.0500, sse=5127409.5, rms=16.425 (1.510%)
- 024: dt: 0.0500, sse=4993738.0, rms=16.187 (1.449%)
- 025: dt: 0.0500, sse=4868807.0, rms=15.962 (1.394%)
- 026: dt: 0.0500, sse=4751923.5, rms=15.748 (1.342%)
- 027: dt: 0.0500, sse=4641383.5, rms=15.542 (1.304%)
- 028: dt: 0.0500, sse=4536355.0, rms=15.345 (1.272%)
- 029: dt: 0.0500, sse=4435775.0, rms=15.153 (1.250%)
- 030: dt: 0.0500, sse=4339692.0, rms=14.967 (1.225%)
- positioning took 0.7 minutes
- mean border=57.0, 493 (142) missing vertices, mean dist 1.6 [0.1 (%13.1)->2.6 (%86.9))]
- %20 local maxima, %44 large gradients and %28 min vals, 327 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=4404068.5, rms=15.084
- 031: dt: 0.5000, sse=3701082.2, rms=13.670 (9.376%)
- 032: dt: 0.5000, sse=3246727.5, rms=12.663 (7.367%)
- 033: dt: 0.5000, sse=2915421.8, rms=11.877 (6.207%)
- 034: dt: 0.5000, sse=2682293.2, rms=11.283 (5.000%)
- 035: dt: 0.5000, sse=2488821.5, rms=10.769 (4.559%)
- 036: dt: 0.5000, sse=2344264.2, rms=10.362 (3.773%)
- 037: dt: 0.5000, sse=2210144.0, rms=9.975 (3.735%)
- 038: dt: 0.5000, sse=2108123.2, rms=9.666 (3.105%)
- 039: dt: 0.5000, sse=2012286.5, rms=9.369 (3.068%)
- 040: dt: 0.5000, sse=1944735.1, rms=9.150 (2.340%)
- 041: dt: 0.5000, sse=1880701.4, rms=8.942 (2.268%)
- 042: dt: 0.5000, sse=1839238.6, rms=8.799 (1.598%)
- 043: dt: 0.5000, sse=1798979.5, rms=8.662 (1.554%)
- 044: dt: 0.5000, sse=1770585.2, rms=8.561 (1.170%)
- 045: dt: 0.5000, sse=1740410.2, rms=8.457 (1.222%)
- 046: dt: 0.5000, sse=1723004.9, rms=8.391 (0.773%)
- 047: dt: 0.5000, sse=1701119.5, rms=8.314 (0.916%)
- 048: dt: 0.5000, sse=1688018.8, rms=8.263 (0.612%)
- 049: dt: 0.5000, sse=1670149.9, rms=8.199 (0.781%)
- rms = 8.15, time step reduction 1 of 3 to 0.250...
- 050: dt: 0.5000, sse=1658661.0, rms=8.154 (0.548%)
- 051: dt: 0.2500, sse=1620698.1, rms=7.995 (1.950%)
- rms = 7.95, time step reduction 2 of 3 to 0.125...
- 052: dt: 0.2500, sse=1607683.0, rms=7.946 (0.618%)
- rms = 7.92, time step reduction 3 of 3 to 0.062...
- 053: dt: 0.1250, sse=1601146.1, rms=7.917 (0.360%)
- positioning took 2.0 minutes
- mean border=55.5, 1913 (57) missing vertices, mean dist 0.6 [0.3 (%38.2)->1.5 (%61.8))]
- %34 local maxima, %32 large gradients and %26 min vals, 239 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=1738571.9, rms=7.789
- 054: dt: 0.5000, sse=1630007.4, rms=7.377 (5.295%)
- 055: dt: 0.5000, sse=1572388.9, rms=7.173 (2.765%)
- 056: dt: 0.5000, sse=1550652.6, rms=7.090 (1.156%)
- 057: dt: 0.5000, sse=1519474.9, rms=6.971 (1.670%)
- rms = 6.92, time step reduction 1 of 3 to 0.250...
- 058: dt: 0.5000, sse=1507806.5, rms=6.921 (0.714%)
- 059: dt: 0.2500, sse=1462322.5, rms=6.693 (3.305%)
- 060: dt: 0.2500, sse=1445625.0, rms=6.618 (1.119%)
- rms = 6.59, time step reduction 2 of 3 to 0.125...
- 061: dt: 0.2500, sse=1440199.4, rms=6.593 (0.375%)
- rms = 6.54, time step reduction 3 of 3 to 0.062...
- 062: dt: 0.1250, sse=1430284.4, rms=6.543 (0.758%)
- positioning took 0.9 minutes
- mean border=54.7, 2973 (45) missing vertices, mean dist 0.4 [0.2 (%43.0)->1.1 (%57.0))]
- %42 local maxima, %24 large gradients and %25 min vals, 287 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=1531984.5, rms=6.822
- 063: dt: 0.5000, sse=1507047.8, rms=6.741 (1.193%)
- 064: dt: 0.5000, sse=1472815.6, rms=6.635 (1.577%)
- 065: dt: 0.5000, sse=1453298.9, rms=6.549 (1.286%)
- 066: dt: 0.5000, sse=1430441.6, rms=6.463 (1.327%)
- 067: dt: 0.5000, sse=1413533.0, rms=6.383 (1.235%)
- 068: dt: 0.5000, sse=1397914.9, rms=6.321 (0.967%)
- 069: dt: 0.5000, sse=1385670.8, rms=6.260 (0.963%)
- rms = 6.22, time step reduction 1 of 3 to 0.250...
- 070: dt: 0.5000, sse=1374813.5, rms=6.219 (0.663%)
- 071: dt: 0.2500, sse=1331227.9, rms=5.965 (4.071%)
- 072: dt: 0.2500, sse=1318784.5, rms=5.905 (1.015%)
- rms = 5.89, time step reduction 2 of 3 to 0.125...
- 073: dt: 0.2500, sse=1316496.1, rms=5.894 (0.188%)
- 074: dt: 0.1250, sse=1307511.5, rms=5.843 (0.864%)
- rms = 5.83, time step reduction 3 of 3 to 0.062...
- 075: dt: 0.1250, sse=1305031.2, rms=5.831 (0.196%)
- positioning took 1.4 minutes
- mean border=54.0, 5165 (35) missing vertices, mean dist 0.3 [0.2 (%43.2)->0.8 (%56.8))]
- %46 local maxima, %18 large gradients and %24 min vals, 312 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-6.0.0/0050185/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1361181.9, rms=5.925
- rms = 5.90, time step reduction 1 of 3 to 0.250...
- 076: dt: 0.5000, sse=1348979.2, rms=5.901 (0.404%)
- 077: dt: 0.2500, sse=1305366.0, rms=5.676 (3.819%)
- 078: dt: 0.2500, sse=1287618.6, rms=5.591 (1.485%)
- rms = 5.55, time step reduction 2 of 3 to 0.125...
- 079: dt: 0.2500, sse=1278664.2, rms=5.550 (0.738%)
- 080: dt: 0.1250, sse=1265152.4, rms=5.472 (1.401%)
- rms = 5.44, time step reduction 3 of 3 to 0.062...
- 081: dt: 0.1250, sse=1259293.4, rms=5.444 (0.518%)
- positioning took 0.6 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.area.pial
- vertex spacing 1.10 +- 0.58 (0.06-->10.99) (max @ vno 46735 --> 57733)
- face area 0.49 +- 0.52 (0.00-->21.40)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 92565 vertices processed
- 25000 of 92565 vertices processed
- 50000 of 92565 vertices processed
- 75000 of 92565 vertices processed
- 0 of 92565 vertices processed
- 25000 of 92565 vertices processed
- 50000 of 92565 vertices processed
- 75000 of 92565 vertices processed
- thickness calculation complete, 980:4254 truncations.
- 11391 vertices at 0 distance
- 40423 vertices at 1 distance
- 51519 vertices at 2 distance
- 37587 vertices at 3 distance
- 18722 vertices at 4 distance
- 7546 vertices at 5 distance
- 2932 vertices at 6 distance
- 1296 vertices at 7 distance
- 667 vertices at 8 distance
- 369 vertices at 9 distance
- 226 vertices at 10 distance
- 161 vertices at 11 distance
- 96 vertices at 12 distance
- 84 vertices at 13 distance
- 69 vertices at 14 distance
- 42 vertices at 15 distance
- 47 vertices at 16 distance
- 27 vertices at 17 distance
- 16 vertices at 18 distance
- 18 vertices at 19 distance
- 28 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.thickness
- positioning took 12.1 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050185 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-6.0.0/0050185/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- 19675 bright wm thresholded.
- 36 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.orig...
- computing class statistics...
- border white: 240017 voxels (1.43%)
- border gray 321362 voxels (1.92%)
- WM (91.0): 92.4 +- 8.4 [70.0 --> 110.0]
- GM (70.0) : 68.3 +- 11.4 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 58.6 (was 70)
- setting MAX_BORDER_WHITE to 100.4 (was 105)
- setting MIN_BORDER_WHITE to 70.0 (was 85)
- setting MAX_CSF to 47.2 (was 40)
- setting MAX_GRAY to 83.6 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 58.6 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 35.8 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=92+-7.8, GM=70+-9.6
- mean inside = 87.6, mean outside = 73.5
- 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 0.90 +- 0.32 (0.01-->5.83) (max @ vno 86525 --> 86567)
- face area 0.34 +- 0.21 (0.00-->5.17)
- mean absolute distance = 0.66 +- 1.02
- 2879 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 104 points - only 0.00% unknown
- deleting segment 1 with 8 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 3 with 3 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 4 with 1 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 6 with 654 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 7 with 4 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 8 with 3 points - only 0.00% unknown
- deleting segment 9 with 14 points - only 0.00% unknown
- deleting segment 10 with 9 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 11 with 2 points - only 0.00% unknown
- deleting segment 12 with 27 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 13 with 2 points - only 0.00% unknown
- deleting segment 14 with 7 points - only 0.00% unknown
- deleting segment 15 with 36 points - only 0.00% unknown
- deleting segment 16 with 17 points - only 0.00% unknown
- mean border=79.9, 1065 (1063) missing vertices, mean dist 0.2 [1.0 (%23.7)->0.6 (%76.3))]
- %57 local maxima, %35 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 +- 0.33 (0.06-->5.72) (max @ vno 86525 --> 86567)
- face area 0.34 +- 0.22 (0.00-->5.30)
- mean absolute distance = 0.47 +- 0.77
- 3224 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=930564.1, rms=5.308
- 001: dt: 0.5000, sse=725167.3, rms=3.923 (26.102%)
- 002: dt: 0.5000, sse=681150.8, rms=3.558 (9.309%)
- rms = 3.56, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.2500, sse=624679.2, rms=3.163 (11.088%)
- 004: dt: 0.2500, sse=611921.5, rms=2.960 (6.423%)
- 005: dt: 0.2500, sse=605339.9, rms=2.882 (2.628%)
- rms = 2.84, time step reduction 2 of 3 to 0.125...
- 006: dt: 0.2500, sse=610029.9, rms=2.842 (1.377%)
- rms = 2.80, time step reduction 3 of 3 to 0.062...
- 007: dt: 0.1250, sse=590367.6, rms=2.802 (1.432%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 115 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 1 with 1 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 2 with 2 points - only 0.00% unknown
- deleting segment 3 with 5 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- deleting segment 6 with 396 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 8 points - only 0.00% unknown
- deleting segment 9 with 8 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 10 with 2 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 11 with 4 points - only 0.00% unknown
- deleting segment 12 with 14 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 24 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 15 with 3 points - only 0.00% unknown
- deleting segment 17 with 20 points - only 0.00% unknown
- mean border=81.7, 1022 (678) missing vertices, mean dist -0.2 [0.6 (%58.8)->0.3 (%41.2))]
- %65 local maxima, %28 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 +- 0.33 (0.07-->5.68) (max @ vno 86525 --> 86567)
- face area 0.34 +- 0.22 (0.00-->5.50)
- mean absolute distance = 0.40 +- 0.58
- 2602 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=675204.5, rms=3.553
- 008: dt: 0.5000, sse=645595.3, rms=3.012 (15.235%)
- rms = 3.02, time step reduction 1 of 3 to 0.250...
- 009: dt: 0.2500, sse=601092.2, rms=2.689 (10.721%)
- 010: dt: 0.2500, sse=578666.0, rms=2.513 (6.537%)
- rms = 2.47, time step reduction 2 of 3 to 0.125...
- 011: dt: 0.2500, sse=566553.9, rms=2.469 (1.777%)
- rms = 2.44, time step reduction 3 of 3 to 0.062...
- 012: dt: 0.1250, sse=560144.3, rms=2.438 (1.230%)
- positioning took 0.4 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 116 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 1 with 2 points - only 0.00% unknown
- deleting segment 2 with 5 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- deleting segment 5 with 2 points - only 0.00% unknown
- deleting segment 6 with 414 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 7 with 2 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 8 with 1 points - only 0.00% unknown
- deleting segment 9 with 7 points - only 0.00% unknown
- deleting segment 10 with 20 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 11 with 2 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 12 with 2 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 13 with 4 points - only 0.00% unknown
- deleting segment 14 with 6 points - only 0.00% unknown
- deleting segment 15 with 14 points - only 0.00% unknown
- deleting segment 16 with 24 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 17 with 3 points - only 0.00% unknown
- deleting segment 18 with 19 points - only 0.00% unknown
- mean border=82.9, 1078 (592) missing vertices, mean dist -0.1 [0.5 (%54.6)->0.3 (%45.4))]
- %71 local maxima, %21 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 0.90 +- 0.33 (0.03-->5.64) (max @ vno 86525 --> 86567)
- face area 0.34 +- 0.22 (0.00-->5.86)
- mean absolute distance = 0.36 +- 0.47
- 2308 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=599744.4, rms=2.880
- 013: dt: 0.5000, sse=622494.0, rms=2.719 (5.602%)
- rms = 2.81, time step reduction 1 of 3 to 0.250...
- 014: dt: 0.2500, sse=580194.6, rms=2.421 (10.979%)
- 015: dt: 0.2500, sse=582414.6, rms=2.290 (5.384%)
- rms = 2.26, time step reduction 2 of 3 to 0.125...
- 016: dt: 0.2500, sse=573076.9, rms=2.263 (1.177%)
- rms = 2.23, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=558514.2, rms=2.231 (1.423%)
- positioning took 0.4 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 119 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 1 with 2 points - only 0.00% unknown
- deleting segment 2 with 8 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- deleting segment 5 with 541 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 6 with 3 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 7 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
- removing 2 vertex label from ripped group
- deleting segment 11 with 2 points - only 0.00% unknown
- deleting segment 12 with 24 points - only 0.00% unknown
- deleting segment 13 with 15 points - only 0.00% unknown
- deleting segment 14 with 23 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 15 with 3 points - only 0.00% unknown
- deleting segment 17 with 16 points - only 0.00% unknown
- mean border=83.5, 1289 (563) missing vertices, mean dist -0.1 [0.4 (%51.5)->0.3 (%48.5))]
- %75 local maxima, %16 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-6.0.0/0050185/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=567868.1, rms=2.357
- 018: dt: 0.5000, sse=575283.2, rms=2.115 (10.268%)
- rms = 2.55, time step reduction 1 of 3 to 0.250...
- 019: dt: 0.2500, sse=523765.8, rms=1.873 (11.482%)
- rms = 1.83, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=544161.0, rms=1.834 (2.042%)
- rms = 1.79, time step reduction 3 of 3 to 0.062...
- 021: dt: 0.1250, sse=514310.6, rms=1.788 (2.530%)
- positioning took 0.4 minutes
- generating cortex label...
- 23 non-cortical segments detected
- only using segment with 7689 vertices
- erasing segment 0 (vno[0] = 14143)
- erasing segment 1 (vno[0] = 17744)
- erasing segment 2 (vno[0] = 19167)
- erasing segment 4 (vno[0] = 25238)
- erasing segment 5 (vno[0] = 29980)
- erasing segment 6 (vno[0] = 30621)
- erasing segment 7 (vno[0] = 31778)
- erasing segment 8 (vno[0] = 35341)
- erasing segment 9 (vno[0] = 38237)
- erasing segment 10 (vno[0] = 38259)
- erasing segment 11 (vno[0] = 40810)
- erasing segment 12 (vno[0] = 49921)
- erasing segment 13 (vno[0] = 51175)
- erasing segment 14 (vno[0] = 53627)
- erasing segment 15 (vno[0] = 55713)
- erasing segment 16 (vno[0] = 58006)
- erasing segment 17 (vno[0] = 62400)
- erasing segment 18 (vno[0] = 63950)
- erasing segment 19 (vno[0] = 65955)
- erasing segment 20 (vno[0] = 67772)
- erasing segment 21 (vno[0] = 71035)
- erasing segment 22 (vno[0] = 90778)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.area
- vertex spacing 0.90 +- 0.33 (0.02-->5.66) (max @ vno 86525 --> 86567)
- face area 0.34 +- 0.22 (0.00-->6.18)
- 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 109 points - only 0.00% unknown
- deleting segment 1 with 6 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 3 with 3 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 5 with 7 points - only 0.00% unknown
- deleting segment 7 with 13 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 8 with 3 points - only 0.00% unknown
- deleting segment 9 with 72 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=57.1, 599 (599) missing vertices, mean dist 2.5 [1.9 (%0.2)->3.5 (%99.8))]
- %20 local maxima, %44 large gradients and %29 min vals, 399 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=12739220.0, rms=26.877
- 001: dt: 0.0500, sse=11456161.0, rms=25.435 (5.365%)
- 002: dt: 0.0500, sse=10522086.0, rms=24.331 (4.340%)
- 003: dt: 0.0500, sse=9794206.0, rms=23.435 (3.684%)
- 004: dt: 0.0500, sse=9198181.0, rms=22.674 (3.245%)
- 005: dt: 0.0500, sse=8692092.0, rms=22.008 (2.939%)
- 006: dt: 0.0500, sse=8249597.5, rms=21.408 (2.725%)
- 007: dt: 0.0500, sse=7854748.0, rms=20.858 (2.568%)
- 008: dt: 0.0500, sse=7497325.0, rms=20.348 (2.448%)
- 009: dt: 0.0500, sse=7170618.0, rms=19.869 (2.350%)
- 010: dt: 0.0500, sse=6869130.0, rms=19.417 (2.274%)
- positioning took 0.7 minutes
- mean border=56.9, 458 (263) missing vertices, mean dist 2.1 [0.7 (%0.4)->3.0 (%99.6))]
- %21 local maxima, %44 large gradients and %27 min vals, 388 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=7521572.0, rms=20.355
- 011: dt: 0.0500, sse=7235713.0, rms=19.939 (2.044%)
- 012: dt: 0.0500, sse=6969523.0, rms=19.543 (1.983%)
- 013: dt: 0.0500, sse=6720914.0, rms=19.166 (1.928%)
- 014: dt: 0.0500, sse=6488949.0, rms=18.808 (1.870%)
- 015: dt: 0.0500, sse=6271880.5, rms=18.466 (1.817%)
- 016: dt: 0.0500, sse=6068989.0, rms=18.141 (1.762%)
- 017: dt: 0.0500, sse=5878289.5, rms=17.830 (1.716%)
- 018: dt: 0.0500, sse=5699556.0, rms=17.533 (1.665%)
- 019: dt: 0.0500, sse=5531218.5, rms=17.249 (1.621%)
- 020: dt: 0.0500, sse=5372685.0, rms=16.976 (1.578%)
- positioning took 0.7 minutes
- mean border=56.7, 464 (184) missing vertices, mean dist 1.9 [0.1 (%3.0)->2.8 (%97.0))]
- %22 local maxima, %45 large gradients and %27 min vals, 371 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=5446909.0, rms=17.102
- 021: dt: 0.0500, sse=5292577.0, rms=16.835 (1.561%)
- 022: dt: 0.0500, sse=5148122.5, rms=16.581 (1.508%)
- 023: dt: 0.0500, sse=5011334.0, rms=16.337 (1.472%)
- 024: dt: 0.0500, sse=4882835.5, rms=16.104 (1.424%)
- 025: dt: 0.0500, sse=4762975.5, rms=15.884 (1.367%)
- 026: dt: 0.0500, sse=4650041.0, rms=15.673 (1.324%)
- 027: dt: 0.0500, sse=4543666.0, rms=15.473 (1.281%)
- 028: dt: 0.0500, sse=4442258.5, rms=15.279 (1.254%)
- 029: dt: 0.0500, sse=4345380.0, rms=15.091 (1.229%)
- 030: dt: 0.0500, sse=4253214.5, rms=14.910 (1.199%)
- positioning took 0.7 minutes
- mean border=56.6, 510 (157) missing vertices, mean dist 1.7 [0.1 (%11.8)->2.7 (%88.2))]
- %22 local maxima, %45 large gradients and %26 min vals, 349 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=4318209.0, rms=15.031
- 031: dt: 0.5000, sse=3640486.2, rms=13.647 (9.208%)
- 032: dt: 0.5000, sse=3189130.2, rms=12.631 (7.439%)
- 033: dt: 0.5000, sse=2856439.5, rms=11.830 (6.345%)
- 034: dt: 0.5000, sse=2622745.2, rms=11.224 (5.123%)
- 035: dt: 0.5000, sse=2438870.2, rms=10.726 (4.436%)
- 036: dt: 0.5000, sse=2305559.5, rms=10.343 (3.568%)
- 037: dt: 0.5000, sse=2187090.5, rms=9.995 (3.364%)
- 038: dt: 0.5000, sse=2096079.6, rms=9.716 (2.798%)
- 039: dt: 0.5000, sse=2012995.1, rms=9.456 (2.674%)
- 040: dt: 0.5000, sse=1947753.9, rms=9.244 (2.242%)
- 041: dt: 0.5000, sse=1886048.9, rms=9.041 (2.193%)
- 042: dt: 0.5000, sse=1841019.4, rms=8.889 (1.688%)
- 043: dt: 0.5000, sse=1792653.8, rms=8.724 (1.852%)
- 044: dt: 0.5000, sse=1760801.9, rms=8.611 (1.294%)
- 045: dt: 0.5000, sse=1729952.8, rms=8.502 (1.270%)
- 046: dt: 0.5000, sse=1709355.8, rms=8.426 (0.886%)
- 047: dt: 0.5000, sse=1684744.2, rms=8.338 (1.052%)
- rms = 8.29, time step reduction 1 of 3 to 0.250...
- 048: dt: 0.5000, sse=1672194.4, rms=8.289 (0.590%)
- 049: dt: 0.2500, sse=1638289.1, rms=8.146 (1.719%)
- rms = 8.10, time step reduction 2 of 3 to 0.125...
- 050: dt: 0.2500, sse=1625280.5, rms=8.097 (0.602%)
- rms = 8.07, time step reduction 3 of 3 to 0.062...
- 051: dt: 0.1250, sse=1619022.6, rms=8.070 (0.331%)
- positioning took 1.8 minutes
- mean border=55.3, 1741 (58) missing vertices, mean dist 0.7 [0.3 (%37.9)->1.6 (%62.1))]
- %35 local maxima, %32 large gradients and %25 min vals, 353 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=1699331.1, rms=7.732
- 052: dt: 0.5000, sse=1591297.0, rms=7.309 (5.477%)
- 053: dt: 0.5000, sse=1534921.5, rms=7.100 (2.859%)
- 054: dt: 0.5000, sse=1503643.4, rms=6.977 (1.727%)
- 055: dt: 0.5000, sse=1470431.8, rms=6.844 (1.910%)
- 056: dt: 0.5000, sse=1450786.2, rms=6.760 (1.229%)
- 057: dt: 0.5000, sse=1426434.4, rms=6.654 (1.569%)
- 058: dt: 0.5000, sse=1411749.8, rms=6.588 (0.997%)
- 059: dt: 0.5000, sse=1394211.0, rms=6.509 (1.199%)
- 060: dt: 0.5000, sse=1382233.1, rms=6.453 (0.858%)
- 061: dt: 0.5000, sse=1368828.0, rms=6.390 (0.973%)
- rms = 6.35, time step reduction 1 of 3 to 0.250...
- 062: dt: 0.5000, sse=1360094.8, rms=6.348 (0.656%)
- 063: dt: 0.2500, sse=1328088.6, rms=6.157 (3.015%)
- 064: dt: 0.2500, sse=1316331.4, rms=6.099 (0.935%)
- rms = 6.10, time step reduction 2 of 3 to 0.125...
- 065: dt: 0.2500, sse=1316108.0, rms=6.096 (0.056%)
- rms = 6.06, time step reduction 3 of 3 to 0.062...
- 066: dt: 0.1250, sse=1309812.0, rms=6.060 (0.590%)
- positioning took 1.4 minutes
- mean border=54.4, 2761 (45) missing vertices, mean dist 0.4 [0.3 (%42.4)->1.1 (%57.6))]
- %44 local maxima, %23 large gradients and %24 min vals, 387 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=1429011.5, rms=6.372
- 067: dt: 0.5000, sse=1411141.0, rms=6.308 (1.002%)
- 068: dt: 0.5000, sse=1382958.2, rms=6.221 (1.371%)
- rms = 6.20, time step reduction 1 of 3 to 0.250...
- 069: dt: 0.5000, sse=1377594.9, rms=6.196 (0.406%)
- 070: dt: 0.2500, sse=1340544.2, rms=5.988 (3.350%)
- 071: dt: 0.2500, sse=1325128.1, rms=5.914 (1.243%)
- rms = 5.90, time step reduction 2 of 3 to 0.125...
- 072: dt: 0.2500, sse=1322352.9, rms=5.900 (0.238%)
- 073: dt: 0.1250, sse=1313133.9, rms=5.849 (0.866%)
- rms = 5.83, time step reduction 3 of 3 to 0.062...
- 074: dt: 0.1250, sse=1309875.1, rms=5.833 (0.270%)
- positioning took 0.8 minutes
- mean border=53.7, 4871 (35) missing vertices, mean dist 0.3 [0.3 (%43.1)->0.8 (%56.9))]
- %48 local maxima, %17 large gradients and %23 min vals, 416 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-6.0.0/0050185/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1352291.5, rms=5.928
- 075: dt: 0.5000, sse=1325754.2, rms=5.835 (1.558%)
- 076: dt: 0.5000, sse=1297290.5, rms=5.733 (1.746%)
- rms = 5.68, time step reduction 1 of 3 to 0.250...
- 077: dt: 0.5000, sse=1286426.4, rms=5.684 (0.856%)
- 078: dt: 0.2500, sse=1247831.5, rms=5.449 (4.142%)
- 079: dt: 0.2500, sse=1233073.9, rms=5.372 (1.416%)
- rms = 5.35, time step reduction 2 of 3 to 0.125...
- 080: dt: 0.2500, sse=1229931.2, rms=5.355 (0.316%)
- 081: dt: 0.1250, sse=1220156.5, rms=5.294 (1.133%)
- rms = 5.28, time step reduction 3 of 3 to 0.062...
- 082: dt: 0.1250, sse=1216605.8, rms=5.277 (0.324%)
- positioning took 0.8 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.area.pial
- vertex spacing 1.11 +- 0.58 (0.04-->8.20) (max @ vno 19010 --> 19026)
- face area 0.49 +- 0.50 (0.00-->11.10)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 91530 vertices processed
- 25000 of 91530 vertices processed
- 50000 of 91530 vertices processed
- 75000 of 91530 vertices processed
- 0 of 91530 vertices processed
- 25000 of 91530 vertices processed
- 50000 of 91530 vertices processed
- 75000 of 91530 vertices processed
- thickness calculation complete, 1801:5760 truncations.
- 11526 vertices at 0 distance
- 38696 vertices at 1 distance
- 50304 vertices at 2 distance
- 37305 vertices at 3 distance
- 19000 vertices at 4 distance
- 7700 vertices at 5 distance
- 3257 vertices at 6 distance
- 1491 vertices at 7 distance
- 795 vertices at 8 distance
- 401 vertices at 9 distance
- 262 vertices at 10 distance
- 137 vertices at 11 distance
- 121 vertices at 12 distance
- 85 vertices at 13 distance
- 79 vertices at 14 distance
- 62 vertices at 15 distance
- 47 vertices at 16 distance
- 26 vertices at 17 distance
- 16 vertices at 18 distance
- 18 vertices at 19 distance
- 30 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.thickness
- positioning took 11.7 minutes
- PIDs (17334 17337) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Tue Oct 10 12:24:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0050185 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/label/lh.cortex.label
- Total face volume 192910
- Total vertex volume 189329 (mask=0)
- #@# 0050185 lh 189329
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Tue Oct 10 12:24:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0050185 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/label/rh.cortex.label
- Total face volume 203604
- Total vertex volume 199888 (mask=0)
- #@# 0050185 rh 199888
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Tue Oct 10 12:24:37 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0050185
- 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 = 6
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/ribbon.mgz
- mris_volmask took 6.29 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Tue Oct 10 12:30:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0050185 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 0050185 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Tue Oct 10 12:30:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0050185 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 0050185 rh pial
- Waiting for PID 18048 of (18048 18051 18054 18057) to complete...
- Waiting for PID 18051 of (18048 18051 18054 18057) to complete...
- Waiting for PID 18054 of (18048 18051 18054 18057) to complete...
- Waiting for PID 18057 of (18048 18051 18054 18057) 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 0050185 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 192910
- Total vertex volume 189329 (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) = 1582637 mm^3 (det: 1.230924 )
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 1139 788 1804 2.064 0.585 0.163 0.065 16 3.4 bankssts
- 952 590 1920 3.063 0.732 0.169 0.096 24 4.0 caudalanteriorcingulate
- 2747 1871 5217 2.452 0.782 0.140 0.055 38 6.7 caudalmiddlefrontal
- 1353 962 3984 2.964 0.936 0.184 0.081 27 5.1 cuneus
- 550 355 1290 2.560 0.977 0.174 0.085 18 1.7 entorhinal
- 2356 1641 4990 2.479 0.791 0.143 0.053 39 5.7 fusiform
- 3757 2589 9292 2.798 0.847 0.168 0.080 71 12.8 inferiorparietal
- 3051 2044 7642 2.597 0.944 0.161 0.071 69 9.3 inferiortemporal
- 1357 863 2482 2.419 0.998 0.139 0.059 24 2.8 isthmuscingulate
- 4217 2919 11172 2.895 0.848 0.179 0.081 90 16.2 lateraloccipital
- 2717 1834 5653 2.664 0.755 0.168 0.080 55 9.4 lateralorbitofrontal
- 1617 1082 3831 2.924 0.879 0.144 0.061 27 4.6 lingual
- 1774 1258 5175 3.347 0.856 0.158 0.067 36 5.1 medialorbitofrontal
- 3263 2216 6941 2.304 0.813 0.165 0.072 85 10.2 middletemporal
- 793 513 1195 1.844 0.769 0.103 0.034 6 1.2 parahippocampal
- 1379 963 4202 3.265 0.968 0.140 0.060 18 3.3 paracentral
- 1898 1225 3806 2.569 0.729 0.150 0.070 32 5.7 parsopercularis
- 767 551 1675 2.273 0.807 0.181 0.094 15 3.5 parsorbitalis
- 1380 1045 3478 2.836 0.877 0.166 0.068 20 3.5 parstriangularis
- 845 600 1389 2.282 0.775 0.179 0.064 16 2.5 pericalcarine
- 3629 2717 7709 2.336 0.790 0.175 0.083 85 15.1 postcentral
- 1490 939 2934 2.719 0.946 0.161 0.075 36 4.4 posteriorcingulate
- 4708 3283 9872 2.374 0.775 0.174 0.092 114 17.0 precentral
- 3159 2091 7377 2.968 0.922 0.146 0.074 57 9.8 precuneus
- 1113 709 2190 2.577 0.799 0.174 0.079 23 3.9 rostralanteriorcingulate
- 4960 3224 8098 2.396 0.714 0.157 0.071 83 14.8 rostralmiddlefrontal
- 8870 6005 20839 2.728 0.903 0.170 0.077 213 30.8 superiorfrontal
- 5502 3767 13063 2.629 0.805 0.164 0.077 113 18.7 superiorparietal
- 3979 2784 8509 2.386 0.780 0.151 0.061 74 11.6 superiortemporal
- 4131 2794 9555 2.664 0.822 0.165 0.085 92 15.1 supramarginal
- 261 281 1112 2.740 0.786 0.265 0.088 7 1.2 frontalpole
- 617 514 2235 2.894 0.981 0.199 0.073 17 2.1 temporalpole
- 573 373 1214 2.629 0.673 0.146 0.065 12 1.7 transversetemporal
- 3493 2368 7419 2.839 0.979 0.130 0.055 41 8.1 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 0050185 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 192910
- Total vertex volume 189329 (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) = 1582637 mm^3 (det: 1.230924 )
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 1139 999 1804 2.064 0.585 0.199 0.065 19 3.5 bankssts
- 952 734 1920 3.063 0.732 0.184 0.078 33 3.1 caudalanteriorcingulate
- 2747 2473 5217 2.452 0.782 0.187 0.067 70 8.4 caudalmiddlefrontal
- 1353 1711 3984 2.964 0.936 0.254 0.079 37 5.1 cuneus
- 550 644 1290 2.560 0.977 0.201 0.046 6 1.4 entorhinal
- 2356 2292 4990 2.479 0.791 0.210 0.071 59 9.1 fusiform
- 3757 4235 9292 2.798 0.847 0.222 0.082 97 15.5 inferiorparietal
- 3051 3439 7642 2.597 0.944 0.215 0.066 52 9.3 inferiortemporal
- 1357 1122 2482 2.419 0.998 0.189 0.386 61 38.3 isthmuscingulate
- 4217 4633 11172 2.895 0.848 0.216 0.068 92 13.4 lateraloccipital
- 2717 2428 5653 2.664 0.755 0.190 0.069 82 8.7 lateralorbitofrontal
- 1617 1483 3831 2.924 0.879 0.218 0.075 37 5.7 lingual
- 1774 1845 5175 3.347 0.856 0.194 0.057 41 4.9 medialorbitofrontal
- 3263 3784 6941 2.304 0.813 0.211 0.058 48 8.8 middletemporal
- 793 806 1195 1.844 0.769 0.168 0.043 7 1.6 parahippocampal
- 1379 1467 4202 3.265 0.968 0.192 0.062 33 4.0 paracentral
- 1898 1812 3806 2.569 0.729 0.192 0.058 32 5.6 parsopercularis
- 767 956 1675 2.273 0.807 0.209 0.055 11 2.0 parsorbitalis
- 1380 1434 3478 2.836 0.877 0.183 0.052 23 2.9 parstriangularis
- 845 670 1389 2.282 0.775 0.195 0.070 38 2.7 pericalcarine
- 3629 3997 7709 2.336 0.790 0.208 0.063 78 10.0 postcentral
- 1490 1206 2934 2.719 0.946 0.187 0.057 52 3.9 posteriorcingulate
- 4708 5034 9872 2.374 0.775 0.196 0.061 161 13.8 precentral
- 3159 2907 7377 2.968 0.922 0.218 0.075 75 11.6 precuneus
- 1113 978 2190 2.577 0.799 0.198 0.074 38 4.1 rostralanteriorcingulate
- 4960 3723 8098 2.396 0.714 0.187 1.674 967 649.0 rostralmiddlefrontal
- 8870 8998 20839 2.728 0.903 0.215 0.080 274 36.3 superiorfrontal
- 5502 6324 13063 2.629 0.805 0.227 0.091 154 28.2 superiorparietal
- 3979 4063 8509 2.386 0.780 0.197 0.060 60 11.2 superiortemporal
- 4131 4323 9555 2.664 0.822 0.209 0.066 76 12.1 supramarginal
- 261 540 1112 2.740 0.786 0.263 0.055 4 0.5 frontalpole
- 617 1015 2235 2.894 0.981 0.267 0.063 9 1.9 temporalpole
- 573 529 1214 2.629 0.673 0.195 0.065 10 1.8 transversetemporal
- 3493 2716 7419 2.839 0.979 0.183 0.063 74 10.3 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 0050185 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 203604
- Total vertex volume 199888 (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) = 1582637 mm^3 (det: 1.230924 )
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 871 576 1434 2.458 0.655 0.098 0.028 4 0.9 bankssts
- 925 549 1345 2.498 0.649 0.131 0.051 11 2.1 caudalanteriorcingulate
- 2414 1581 5217 2.563 0.649 0.159 0.076 45 7.7 caudalmiddlefrontal
- 1425 1003 4210 2.948 0.896 0.194 0.088 34 5.2 cuneus
- 595 408 1204 2.211 0.723 0.207 0.076 16 2.4 entorhinal
- 2813 1967 5465 2.385 0.660 0.152 0.058 61 7.7 fusiform
- 4537 3015 12106 2.892 0.853 0.158 0.066 79 12.9 inferiorparietal
- 2615 1776 7375 2.999 0.836 0.158 0.068 57 7.4 inferiortemporal
- 1133 739 2177 2.595 0.979 0.121 0.045 15 1.8 isthmuscingulate
- 4219 2964 12515 3.020 0.937 0.171 0.077 78 13.9 lateraloccipital
- 2384 1580 5663 2.978 0.927 0.145 0.063 35 5.9 lateralorbitofrontal
- 2529 2041 7487 2.919 0.972 0.179 0.059 40 7.1 lingual
- 1992 1329 5705 3.475 0.991 0.140 0.062 28 5.1 medialorbitofrontal
- 3554 2341 9157 2.482 0.884 0.161 0.078 87 12.9 middletemporal
- 952 650 1496 1.940 0.768 0.132 0.050 12 2.0 parahippocampal
- 1487 1084 3759 2.870 1.016 0.144 0.054 21 3.3 paracentral
- 1599 1077 4165 2.925 0.685 0.140 0.054 22 3.9 parsopercularis
- 711 485 2648 3.156 0.823 0.167 0.089 15 2.8 parsorbitalis
- 1278 845 3341 2.931 0.846 0.138 0.058 20 2.9 parstriangularis
- 1071 711 1747 2.557 0.743 0.153 0.063 17 2.6 pericalcarine
- 4177 2995 9176 2.413 0.770 0.167 0.079 87 14.4 postcentral
- 1328 904 2206 2.325 0.725 0.153 0.051 23 2.8 posteriorcingulate
- 5619 3782 10769 2.431 0.805 0.158 0.084 137 22.6 precentral
- 3187 2138 7026 2.779 0.785 0.149 0.061 47 8.0 precuneus
- 608 379 1272 2.898 0.690 0.159 0.065 12 1.8 rostralanteriorcingulate
- 5458 3564 13025 2.929 0.875 0.160 0.075 99 18.1 rostralmiddlefrontal
- 7292 4865 19338 3.045 0.935 0.158 0.072 132 22.6 superiorfrontal
- 4705 3236 10470 2.605 0.828 0.166 0.078 92 16.7 superiorparietal
- 3581 2539 8584 2.571 0.793 0.139 0.052 59 8.7 superiortemporal
- 3886 2709 8038 2.464 0.694 0.151 0.067 77 11.3 supramarginal
- 463 341 1762 3.231 0.981 0.188 0.141 18 3.3 frontalpole
- 596 439 1846 2.980 0.886 0.210 0.097 16 2.7 temporalpole
- 457 296 973 2.598 0.769 0.123 0.043 6 0.7 transversetemporal
- 2827 1932 7123 3.247 0.968 0.131 0.056 48 6.0 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 0050185 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 203604
- Total vertex volume 199888 (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) = 1582637 mm^3 (det: 1.230924 )
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 871 580 1434 2.458 0.655 0.140 0.048 9 1.8 bankssts
- 925 677 1345 2.498 0.649 0.183 0.082 40 2.8 caudalanteriorcingulate
- 2414 2376 5217 2.563 0.649 0.206 0.074 61 8.5 caudalmiddlefrontal
- 1425 1820 4210 2.948 0.896 0.238 0.074 36 5.7 cuneus
- 595 681 1204 2.211 0.723 0.213 0.057 8 1.6 entorhinal
- 2813 2646 5465 2.385 0.660 0.191 0.070 90 9.3 fusiform
- 4537 5360 12106 2.892 0.853 0.231 0.071 81 15.1 inferiorparietal
- 2615 3032 7375 2.999 0.836 0.225 0.064 44 8.1 inferiortemporal
- 1133 968 2177 2.595 0.979 0.184 0.080 32 5.1 isthmuscingulate
- 4219 4987 12515 3.020 0.937 0.221 0.069 118 14.4 lateraloccipital
- 2384 2081 5663 2.978 0.927 0.190 0.072 55 7.0 lateralorbitofrontal
- 2529 2765 7487 2.919 0.972 0.201 0.057 43 6.8 lingual
- 1992 1918 5705 3.475 0.991 0.211 0.071 42 6.5 medialorbitofrontal
- 3554 4598 9157 2.482 0.884 0.239 0.066 65 11.4 middletemporal
- 952 875 1496 1.940 0.768 0.151 0.036 7 1.9 parahippocampal
- 1487 1553 3759 2.870 1.016 0.209 0.065 27 4.8 paracentral
- 1599 1721 4165 2.925 0.685 0.202 0.050 21 3.9 parsopercularis
- 711 1086 2648 3.156 0.823 0.307 0.335 27 17.2 parsorbitalis
- 1278 1315 3341 2.931 0.846 0.211 0.060 23 3.5 parstriangularis
- 1071 682 1747 2.557 0.743 0.158 0.055 21 2.6 pericalcarine
- 4177 4619 9176 2.413 0.770 0.208 0.062 78 12.2 postcentral
- 1328 1056 2206 2.325 0.725 0.168 0.054 22 3.3 posteriorcingulate
- 5619 5292 10769 2.431 0.805 0.189 0.077 146 21.4 precentral
- 3187 2816 7026 2.779 0.785 0.194 0.062 64 9.0 precuneus
- 608 527 1272 2.898 0.690 0.209 0.068 13 2.2 rostralanteriorcingulate
- 5458 5326 13025 2.929 0.875 0.217 0.073 123 19.0 rostralmiddlefrontal
- 7292 7610 19338 3.045 0.935 0.217 0.066 140 23.5 superiorfrontal
- 4705 4860 10470 2.605 0.828 0.214 0.073 136 17.1 superiorparietal
- 3581 4011 8584 2.571 0.793 0.213 0.055 57 9.5 superiortemporal
- 3886 3671 8038 2.464 0.694 0.197 0.064 71 12.1 supramarginal
- 463 772 1762 3.231 0.981 0.268 0.070 8 1.6 frontalpole
- 596 829 1846 2.980 0.886 0.228 0.059 12 1.5 temporalpole
- 457 462 973 2.598 0.769 0.248 0.069 9 1.7 transversetemporal
- 2827 2157 7123 3.247 0.968 0.172 0.055 63 7.1 insula
- PIDs (18048 18051 18054 18057) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Tue Oct 10 12:32:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050185 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 Tue Oct 10 12:32:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050185 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 18144 of (18144 18148) to complete...
- Waiting for PID 18148 of (18144 18148) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050185 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...
- 48 labels changed using aseg
- relabeling using gibbs priors...
- 000: 5872 changed, 92565 examined...
- 001: 1371 changed, 23341 examined...
- 002: 376 changed, 7158 examined...
- 003: 146 changed, 2141 examined...
- 004: 62 changed, 832 examined...
- 005: 33 changed, 361 examined...
- 006: 14 changed, 192 examined...
- 007: 5 changed, 72 examined...
- 008: 1 changed, 27 examined...
- 009: 0 changed, 7 examined...
- 8 labels changed using aseg
- 000: 250 total segments, 169 labels (1669 vertices) changed
- 001: 88 total segments, 7 labels (47 vertices) changed
- 002: 81 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 27 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1255 vertices marked for relabeling...
- 1255 labels changed in reclassification.
- writing output to ../label/lh.aparc.a2009s.annot...
- classification took 0 minutes and 15 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050185 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...
- 144 labels changed using aseg
- relabeling using gibbs priors...
- 000: 5919 changed, 91530 examined...
- 001: 1414 changed, 23674 examined...
- 002: 462 changed, 7423 examined...
- 003: 180 changed, 2555 examined...
- 004: 82 changed, 1046 examined...
- 005: 43 changed, 493 examined...
- 006: 28 changed, 224 examined...
- 007: 18 changed, 125 examined...
- 008: 5 changed, 87 examined...
- 009: 1 changed, 34 examined...
- 010: 0 changed, 7 examined...
- 57 labels changed using aseg
- 000: 217 total segments, 134 labels (2023 vertices) changed
- 001: 89 total segments, 7 labels (39 vertices) changed
- 002: 82 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 32 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 878 vertices marked for relabeling...
- 878 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 15 seconds.
- PIDs (18144 18148) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Tue Oct 10 12:32:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0050185 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Tue Oct 10 12:32:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0050185 rh white
- Waiting for PID 18211 of (18211 18214) to complete...
- Waiting for PID 18214 of (18211 18214) 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 0050185 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 192910
- Total vertex volume 189329 (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) = 1582637 mm^3 (det: 1.230924 )
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 665 440 1276 2.673 0.774 0.161 0.077 12 2.2 G&S_frontomargin
- 843 578 2802 3.237 0.902 0.163 0.069 16 2.2 G&S_occipital_inf
- 1831 1308 5076 2.620 1.027 0.180 0.116 50 6.5 G&S_paracentral
- 1269 906 3326 2.686 0.868 0.149 0.066 24 3.9 G&S_subcentral
- 320 304 1306 2.571 0.861 0.188 0.049 5 0.7 G&S_transv_frontopol
- 2105 1396 4552 2.811 0.850 0.164 0.067 41 5.8 G&S_cingul-Ant
- 1187 794 2374 2.817 0.820 0.191 0.105 34 5.7 G&S_cingul-Mid-Ant
- 1063 671 2257 3.015 0.808 0.162 0.087 26 3.6 G&S_cingul-Mid-Post
- 551 357 1418 2.896 0.953 0.166 0.070 11 1.6 G_cingul-Post-dorsal
- 221 128 529 3.044 0.944 0.177 0.088 7 0.6 G_cingul-Post-ventral
- 1458 1058 4354 2.800 0.871 0.196 0.086 30 6.2 G_cuneus
- 1153 730 2699 2.603 0.693 0.169 0.078 27 4.0 G_front_inf-Opercular
- 411 270 1065 2.800 0.755 0.187 0.093 10 1.7 G_front_inf-Orbital
- 781 611 2364 2.843 0.877 0.167 0.069 11 1.6 G_front_inf-Triangul
- 3444 2281 6874 2.403 0.735 0.163 0.072 65 10.4 G_front_middle
- 6136 4095 16219 2.817 0.992 0.179 0.087 169 24.7 G_front_sup
- 799 512 1743 2.874 0.836 0.171 0.098 19 3.2 G_Ins_lg&S_cent_ins
- 677 454 2007 3.339 1.022 0.135 0.056 8 1.6 G_insular_short
- 1354 957 4671 2.956 0.823 0.190 0.087 32 5.8 G_occipital_middle
- 1032 764 3226 2.983 0.866 0.194 0.085 23 4.2 G_occipital_sup
- 961 601 2372 2.600 0.702 0.141 0.056 21 2.4 G_oc-temp_lat-fusifor
- 1039 680 2816 3.142 0.866 0.164 0.076 24 3.6 G_oc-temp_med-Lingual
- 1118 726 2289 2.341 0.866 0.150 0.066 26 3.0 G_oc-temp_med-Parahip
- 1998 1355 4723 2.631 0.865 0.185 0.090 44 8.2 G_orbital
- 1456 992 4137 2.800 0.797 0.179 0.091 31 5.6 G_pariet_inf-Angular
- 2707 1782 6785 2.681 0.783 0.178 0.097 66 11.9 G_pariet_inf-Supramar
- 2059 1416 5420 2.543 0.737 0.183 0.099 50 8.7 G_parietal_sup
- 977 731 1945 2.284 0.825 0.185 0.086 26 4.4 G_postcentral
- 1885 1326 4424 2.390 0.761 0.200 0.103 51 9.6 G_precentral
- 1733 1104 4752 2.915 0.875 0.168 0.100 45 7.9 G_precuneus
- 693 522 2443 3.344 0.862 0.195 0.089 21 2.5 G_rectus
- 674 388 1157 2.671 1.159 0.088 0.036 9 1.0 G_subcallosal
- 423 261 949 2.471 0.886 0.192 0.092 20 1.7 G_temp_sup-G_T_transv
- 1546 1045 4228 2.513 0.857 0.167 0.079 36 5.7 G_temp_sup-Lateral
- 536 462 1848 2.875 0.773 0.192 0.063 20 1.4 G_temp_sup-Plan_polar
- 816 552 1462 2.424 0.604 0.137 0.056 8 2.2 G_temp_sup-Plan_tempo
- 1852 1220 5502 2.781 1.008 0.177 0.086 57 7.1 G_temporal_inf
- 2094 1351 4961 2.451 0.861 0.175 0.085 71 7.7 G_temporal_middle
- 243 184 469 2.781 1.066 0.131 0.030 2 0.3 Lat_Fis-ant-Horizont
- 123 85 252 2.937 0.937 0.100 0.021 1 0.1 Lat_Fis-ant-Vertical
- 879 602 1150 2.205 0.535 0.113 0.037 6 1.4 Lat_Fis-post
- 1202 806 2703 2.573 0.763 0.187 0.095 33 5.9 Pole_occipital
- 1135 814 3775 2.970 0.881 0.176 0.070 21 3.6 Pole_temporal
- 954 662 1583 2.411 0.806 0.156 0.057 14 2.4 S_calcarine
- 1390 1052 2045 2.167 0.623 0.175 0.093 34 6.3 S_central
- 627 449 1123 2.617 0.776 0.142 0.057 11 1.3 S_cingul-Marginalis
- 472 289 776 2.785 0.816 0.114 0.045 5 0.8 S_circular_insula_ant
- 826 595 1627 2.744 0.884 0.103 0.025 5 1.0 S_circular_insula_inf
- 1484 1047 2261 2.525 0.705 0.130 0.045 11 3.2 S_circular_insula_sup
- 489 398 813 2.431 0.757 0.169 0.065 6 1.7 S_collat_transv_ant
- 101 67 167 3.159 0.486 0.144 0.043 1 0.2 S_collat_transv_post
- 1395 937 2151 2.426 0.774 0.136 0.054 16 3.1 S_front_inf
- 807 567 1149 2.491 0.565 0.143 0.056 8 1.9 S_front_middle
- 2386 1640 4678 2.651 0.734 0.145 0.058 31 5.9 S_front_sup
- 109 97 398 3.389 0.820 0.148 0.035 1 0.2 S_interm_prim-Jensen
- 1666 1124 2757 2.628 0.909 0.125 0.057 28 3.0 S_intrapariet&P_trans
- 499 342 1075 3.010 0.820 0.130 0.056 6 1.0 S_oc_middle&Lunatus
- 797 543 1109 2.553 0.748 0.149 0.050 9 1.9 S_oc_sup&transversal
- 353 240 511 2.505 0.471 0.135 0.050 3 0.7 S_occipital_ant
- 702 468 946 2.133 0.623 0.124 0.038 6 1.1 S_oc-temp_lat
- 1162 816 1678 2.073 0.866 0.109 0.032 9 1.7 S_oc-temp_med&Lingual
- 163 108 226 2.130 0.652 0.115 0.036 1 0.2 S_orbital_lateral
- 360 245 643 2.689 0.711 0.142 0.062 5 0.9 S_orbital_med-olfact
- 727 533 1177 2.431 0.589 0.193 0.106 19 3.7 S_orbital-H_Shaped
- 1187 810 2353 2.997 0.880 0.121 0.037 11 1.7 S_parieto_occipital
- 1404 847 1422 2.152 0.820 0.105 0.035 15 1.5 S_pericallosal
- 1445 1007 3029 2.626 0.785 0.156 0.073 31 4.9 S_postcentral
- 1174 796 1848 2.269 0.533 0.133 0.054 17 2.9 S_precentral-inf-part
- 704 474 931 1.914 0.675 0.171 0.064 15 1.9 S_precentral-sup-part
- 431 325 965 3.316 0.871 0.126 0.039 3 0.6 S_suborbital
- 706 479 1890 3.282 1.126 0.154 0.065 12 2.1 S_subparietal
- 703 518 1010 2.086 0.642 0.135 0.041 6 1.2 S_temporal_inf
- 3521 2511 5936 2.293 0.868 0.155 0.062 47 9.6 S_temporal_sup
- 232 173 354 2.043 0.446 0.123 0.030 1 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 0050185 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 203604
- Total vertex volume 199888 (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) = 1582637 mm^3 (det: 1.230924 )
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 583 404 2218 3.909 0.918 0.153 0.077 12 1.7 G&S_frontomargin
- 754 494 3442 3.649 0.863 0.159 0.085 16 2.5 G&S_occipital_inf
- 1201 838 2846 2.436 0.985 0.169 0.076 23 4.0 G&S_paracentral
- 1641 1122 4343 2.754 0.784 0.151 0.077 34 5.1 G&S_subcentral
- 862 562 2661 3.006 0.969 0.154 0.092 18 3.6 G&S_transv_frontopol
- 2072 1344 4466 2.994 0.986 0.129 0.050 25 4.3 G&S_cingul-Ant
- 1016 660 1886 2.519 0.761 0.136 0.052 12 2.3 G&S_cingul-Mid-Ant
- 912 637 1715 2.493 0.691 0.131 0.046 12 1.6 G&S_cingul-Mid-Post
- 456 299 1081 2.555 0.599 0.172 0.067 11 1.3 G_cingul-Post-dorsal
- 256 164 806 3.451 0.905 0.126 0.063 4 0.5 G_cingul-Post-ventral
- 1314 916 3899 2.908 0.906 0.195 0.092 31 5.1 G_cuneus
- 1308 865 3772 2.938 0.678 0.162 0.081 30 4.6 G_front_inf-Opercular
- 321 193 1308 3.320 0.846 0.168 0.101 8 1.3 G_front_inf-Orbital
- 544 375 2166 3.205 0.936 0.186 0.098 16 2.5 G_front_inf-Triangul
- 2714 1736 7225 2.665 0.719 0.174 0.090 60 10.8 G_front_middle
- 5153 3369 15507 3.267 0.929 0.174 0.085 118 19.1 G_front_sup
- 678 496 2274 3.629 1.028 0.153 0.059 10 1.8 G_Ins_lg&S_cent_ins
- 488 328 1812 3.785 0.906 0.142 0.090 25 1.1 G_insular_short
- 1591 1080 5113 2.855 0.960 0.183 0.082 35 5.7 G_occipital_middle
- 991 733 2974 2.796 0.891 0.190 0.083 19 3.7 G_occipital_sup
- 1162 709 2622 2.467 0.667 0.165 0.072 42 4.1 G_oc-temp_lat-fusifor
- 1445 1113 5699 3.390 0.914 0.180 0.064 27 4.1 G_oc-temp_med-Lingual
- 1159 793 2305 2.213 0.701 0.183 0.071 26 3.9 G_oc-temp_med-Parahip
- 1919 1275 5729 2.995 0.872 0.173 0.092 42 7.2 G_orbital
- 1610 1093 5375 2.955 0.861 0.174 0.074 34 5.1 G_pariet_inf-Angular
- 2415 1682 5545 2.433 0.659 0.182 0.086 69 9.6 G_pariet_inf-Supramar
- 1438 958 3302 2.639 0.814 0.169 0.086 32 5.4 G_parietal_sup
- 1629 1228 3965 2.366 0.736 0.210 0.102 48 7.9 G_postcentral
- 2238 1470 4972 2.372 0.878 0.168 0.102 79 11.8 G_precentral
- 1647 1072 4828 2.950 0.848 0.180 0.095 40 7.4 G_precuneus
- 529 403 1990 3.301 0.903 0.167 0.072 9 1.5 G_rectus
- 360 216 678 2.896 1.110 0.082 0.040 3 0.5 G_subcallosal
- 239 162 629 2.534 0.866 0.134 0.046 4 0.4 G_temp_sup-G_T_transv
- 1305 917 4021 2.836 0.759 0.159 0.065 31 4.0 G_temp_sup-Lateral
- 581 393 1292 2.811 0.778 0.167 0.079 10 2.1 G_temp_sup-Plan_polar
- 534 418 1046 2.089 0.646 0.123 0.034 4 0.8 G_temp_sup-Plan_tempo
- 1621 1097 4917 3.111 0.798 0.171 0.075 41 4.9 G_temporal_inf
- 2203 1401 6520 2.540 0.934 0.178 0.096 68 9.9 G_temporal_middle
- 260 172 401 2.680 0.650 0.101 0.029 1 0.3 Lat_Fis-ant-Horizont
- 129 81 187 3.270 0.677 0.157 0.057 2 0.4 Lat_Fis-ant-Vertical
- 1296 888 2262 2.560 0.700 0.104 0.030 10 1.7 Lat_Fis-post
- 1854 1413 5361 2.907 0.894 0.193 0.081 41 6.9 Pole_occipital
- 1417 980 4292 2.954 0.853 0.183 0.087 36 5.4 Pole_temporal
- 1632 1210 2465 2.434 0.701 0.158 0.056 20 4.2 S_calcarine
- 1642 1199 2079 2.185 0.604 0.162 0.069 22 5.2 S_central
- 748 536 1091 2.137 0.683 0.117 0.037 5 1.1 S_cingul-Marginalis
- 532 350 1305 3.646 0.850 0.116 0.045 4 1.0 S_circular_insula_ant
- 884 595 1651 2.920 0.737 0.112 0.047 8 2.0 S_circular_insula_inf
- 1239 843 2089 2.826 0.704 0.109 0.036 8 1.9 S_circular_insula_sup
- 497 398 1427 2.807 0.921 0.145 0.049 6 1.2 S_collat_transv_ant
- 331 219 516 3.055 0.674 0.149 0.056 4 0.6 S_collat_transv_post
- 1016 688 1788 2.602 0.638 0.140 0.056 12 2.2 S_front_inf
- 1496 969 2930 3.126 0.849 0.136 0.053 18 3.5 S_front_middle
- 2128 1498 4558 2.636 0.765 0.168 0.077 41 7.6 S_front_sup
- 98 63 175 2.720 0.367 0.095 0.029 0 0.1 S_interm_prim-Jensen
- 1825 1217 3404 2.708 0.783 0.130 0.053 23 3.9 S_intrapariet&P_trans
- 265 208 647 3.053 0.798 0.186 0.065 4 0.7 S_oc_middle&Lunatus
- 809 519 1123 2.612 0.879 0.126 0.048 8 1.6 S_oc_sup&transversal
- 446 312 728 2.860 0.532 0.149 0.054 5 1.1 S_occipital_ant
- 555 375 978 2.696 0.625 0.121 0.047 8 1.1 S_oc-temp_lat
- 1420 1080 1853 1.933 0.632 0.120 0.031 9 2.1 S_oc-temp_med&Lingual
- 262 166 336 2.430 0.541 0.135 0.038 2 0.5 S_orbital_lateral
- 498 345 1346 3.490 0.939 0.143 0.052 6 1.0 S_orbital_med-olfact
- 427 277 730 2.585 0.716 0.140 0.059 5 0.9 S_orbital-H_Shaped
- 1031 749 1818 2.512 0.686 0.147 0.051 15 2.0 S_parieto_occipital
- 1285 806 1367 2.360 0.814 0.127 0.042 17 2.1 S_pericallosal
- 1081 729 1702 2.371 0.590 0.128 0.052 12 1.9 S_postcentral
- 1261 826 2003 2.535 0.627 0.119 0.044 14 2.2 S_precentral-inf-part
- 793 551 1169 2.588 0.908 0.131 0.050 9 1.8 S_precentral-sup-part
- 127 73 287 4.069 0.681 0.126 0.050 2 0.2 S_suborbital
- 760 511 1423 2.769 0.654 0.123 0.040 6 1.2 S_subparietal
- 578 391 826 2.288 0.566 0.106 0.033 3 0.7 S_temporal_inf
- 3558 2444 6026 2.447 0.814 0.119 0.041 32 6.3 S_temporal_sup
- 260 180 594 2.275 0.861 0.129 0.039 3 0.4 S_temporal_transverse
- PIDs (18211 18214) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Tue Oct 10 12:32:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050185 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 Tue Oct 10 12:32:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050185 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 18272 of (18272 18276) to complete...
- Waiting for PID 18276 of (18272 18276) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050185 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...
- 1485 labels changed using aseg
- relabeling using gibbs priors...
- 000: 1483 changed, 92565 examined...
- 001: 353 changed, 7152 examined...
- 002: 111 changed, 2014 examined...
- 003: 50 changed, 622 examined...
- 004: 26 changed, 282 examined...
- 005: 17 changed, 145 examined...
- 006: 20 changed, 95 examined...
- 007: 25 changed, 106 examined...
- 008: 16 changed, 113 examined...
- 009: 11 changed, 91 examined...
- 010: 7 changed, 65 examined...
- 011: 6 changed, 46 examined...
- 012: 6 changed, 31 examined...
- 013: 7 changed, 35 examined...
- 014: 5 changed, 38 examined...
- 015: 8 changed, 31 examined...
- 016: 6 changed, 36 examined...
- 017: 8 changed, 32 examined...
- 018: 7 changed, 39 examined...
- 019: 7 changed, 42 examined...
- 020: 5 changed, 35 examined...
- 021: 3 changed, 22 examined...
- 022: 3 changed, 21 examined...
- 023: 3 changed, 19 examined...
- 024: 2 changed, 19 examined...
- 025: 2 changed, 14 examined...
- 026: 3 changed, 12 examined...
- 027: 3 changed, 16 examined...
- 028: 4 changed, 14 examined...
- 029: 3 changed, 12 examined...
- 030: 1 changed, 13 examined...
- 031: 1 changed, 7 examined...
- 032: 1 changed, 6 examined...
- 033: 0 changed, 10 examined...
- 324 labels changed using aseg
- 000: 76 total segments, 43 labels (343 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 1 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 937 vertices marked for relabeling...
- 937 labels changed in reclassification.
- writing output to ../label/lh.aparc.DKTatlas.annot...
- classification took 0 minutes and 12 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050185 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...
- 1411 labels changed using aseg
- relabeling using gibbs priors...
- 000: 1547 changed, 91530 examined...
- 001: 387 changed, 7263 examined...
- 002: 120 changed, 2123 examined...
- 003: 56 changed, 713 examined...
- 004: 25 changed, 315 examined...
- 005: 6 changed, 125 examined...
- 006: 1 changed, 37 examined...
- 007: 2 changed, 10 examined...
- 008: 3 changed, 12 examined...
- 009: 5 changed, 21 examined...
- 010: 5 changed, 25 examined...
- 011: 7 changed, 26 examined...
- 012: 4 changed, 40 examined...
- 013: 5 changed, 24 examined...
- 014: 4 changed, 23 examined...
- 015: 4 changed, 19 examined...
- 016: 4 changed, 22 examined...
- 017: 8 changed, 25 examined...
- 018: 5 changed, 31 examined...
- 019: 3 changed, 20 examined...
- 020: 4 changed, 20 examined...
- 021: 4 changed, 20 examined...
- 022: 2 changed, 20 examined...
- 023: 4 changed, 11 examined...
- 024: 4 changed, 16 examined...
- 025: 3 changed, 20 examined...
- 026: 2 changed, 16 examined...
- 027: 4 changed, 16 examined...
- 028: 5 changed, 19 examined...
- 029: 6 changed, 24 examined...
- 030: 6 changed, 29 examined...
- 031: 5 changed, 30 examined...
- 032: 7 changed, 21 examined...
- 033: 2 changed, 28 examined...
- 034: 2 changed, 13 examined...
- 035: 2 changed, 12 examined...
- 036: 2 changed, 12 examined...
- 037: 2 changed, 11 examined...
- 038: 2 changed, 11 examined...
- 039: 3 changed, 10 examined...
- 040: 3 changed, 10 examined...
- 041: 1 changed, 16 examined...
- 042: 0 changed, 7 examined...
- 333 labels changed using aseg
- 000: 62 total segments, 29 labels (341 vertices) changed
- 001: 34 total segments, 1 labels (11 vertices) changed
- 002: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 4 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 545 vertices marked for relabeling...
- 545 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 12 seconds.
- PIDs (18272 18276) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Tue Oct 10 12:33:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0050185 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Tue Oct 10 12:33:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0050185 rh white
- Waiting for PID 18326 of (18326 18329) to complete...
- Waiting for PID 18329 of (18326 18329) 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 0050185 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 192910
- Total vertex volume 189329 (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) = 1582637 mm^3 (det: 1.230924 )
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 1576 1002 2967 2.841 0.771 0.174 0.093 45 6.5 caudalanteriorcingulate
- 2868 1953 5459 2.441 0.792 0.142 0.055 41 7.1 caudalmiddlefrontal
- 2050 1481 5586 2.841 0.895 0.176 0.076 39 7.5 cuneus
- 511 329 1173 2.529 0.994 0.178 0.087 18 1.7 entorhinal
- 2127 1455 4254 2.414 0.755 0.139 0.047 34 4.7 fusiform
- 3731 2569 9217 2.811 0.857 0.165 0.078 69 12.4 inferiorparietal
- 3098 2088 8065 2.659 0.963 0.161 0.074 72 9.8 inferiortemporal
- 1316 837 2442 2.447 1.003 0.142 0.061 24 2.7 isthmuscingulate
- 4209 2930 11424 2.906 0.863 0.177 0.079 87 15.7 lateraloccipital
- 3207 2171 6657 2.681 0.774 0.178 0.088 70 12.4 lateralorbitofrontal
- 1639 1080 3740 2.957 0.858 0.143 0.061 28 4.6 lingual
- 1689 1189 5012 3.327 0.871 0.148 0.061 34 4.2 medialorbitofrontal
- 4159 2832 8492 2.295 0.796 0.163 0.068 95 12.3 middletemporal
- 804 523 1247 1.859 0.782 0.106 0.037 7 1.3 parahippocampal
- 1660 1213 5612 3.288 0.936 0.151 0.096 33 4.1 paracentral
- 1884 1205 3745 2.570 0.734 0.152 0.071 33 5.8 parsopercularis
- 952 664 2069 2.663 0.819 0.153 0.061 12 2.6 parsorbitalis
- 1470 1128 3566 2.737 0.816 0.167 0.068 22 3.7 parstriangularis
- 831 607 1489 2.300 0.784 0.184 0.064 16 2.4 pericalcarine
- 4300 3221 9069 2.320 0.787 0.174 0.081 98 17.2 postcentral
- 1733 1084 3369 2.740 0.959 0.156 0.079 44 5.3 posteriorcingulate
- 4768 3287 9620 2.373 0.754 0.173 0.081 106 17.6 precentral
- 3251 2140 7878 2.934 0.920 0.154 0.077 63 10.7 precuneus
- 1616 1022 3237 2.623 0.972 0.156 0.068 28 4.6 rostralanteriorcingulate
- 3545 2275 5364 2.262 0.647 0.160 0.076 64 11.8 rostralmiddlefrontal
- 8994 6157 20945 2.695 0.896 0.167 0.074 198 30.0 superiorfrontal
- 4010 2687 9349 2.682 0.807 0.157 0.076 81 13.3 superiorparietal
- 5526 3972 12305 2.417 0.801 0.161 0.065 107 16.7 superiortemporal
- 3985 2687 9109 2.635 0.807 0.166 0.085 90 14.6 supramarginal
- 547 360 1190 2.652 0.673 0.148 0.066 12 1.7 transversetemporal
- 2369 1631 5675 2.996 0.960 0.133 0.056 28 6.0 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 0050185 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 203604
- Total vertex volume 199888 (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) = 1582637 mm^3 (det: 1.230924 )
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 1006 601 1446 2.459 0.645 0.128 0.050 12 2.2 caudalanteriorcingulate
- 2524 1668 5477 2.559 0.648 0.165 0.079 48 8.6 caudalmiddlefrontal
- 1723 1213 4826 2.874 0.868 0.192 0.088 41 6.4 cuneus
- 571 383 1081 2.150 0.652 0.207 0.076 15 2.4 entorhinal
- 2483 1740 4959 2.379 0.687 0.147 0.054 54 6.4 fusiform
- 4446 2948 11902 2.887 0.854 0.158 0.069 79 13.1 inferiorparietal
- 2983 2032 7995 2.939 0.817 0.162 0.071 64 8.9 inferiortemporal
- 1153 750 2245 2.620 0.953 0.124 0.046 15 2.0 isthmuscingulate
- 4235 2965 12421 3.018 0.935 0.171 0.077 80 14.0 lateraloccipital
- 2467 1650 6143 3.046 0.964 0.152 0.071 42 6.6 lateralorbitofrontal
- 2520 2019 7485 2.939 0.969 0.178 0.059 39 7.0 lingual
- 1493 1031 4939 3.493 1.003 0.147 0.066 22 3.8 medialorbitofrontal
- 4179 2747 10207 2.480 0.869 0.153 0.072 91 13.7 middletemporal
- 965 662 1504 1.928 0.760 0.131 0.049 12 2.0 parahippocampal
- 1538 1117 3894 2.912 0.987 0.142 0.053 21 3.3 paracentral
- 1758 1196 4524 2.904 0.689 0.140 0.053 24 4.2 parsopercularis
- 744 526 2984 3.290 0.890 0.169 0.085 16 2.9 parsorbitalis
- 1204 798 3147 2.933 0.838 0.137 0.056 18 2.7 parstriangularis
- 1015 686 1692 2.562 0.739 0.154 0.062 16 2.4 pericalcarine
- 4722 3344 10015 2.356 0.776 0.168 0.080 100 16.3 postcentral
- 1380 942 2302 2.340 0.760 0.154 0.054 24 3.1 posteriorcingulate
- 5480 3685 10552 2.444 0.783 0.156 0.083 133 21.7 precentral
- 3363 2312 7688 2.784 0.789 0.151 0.064 50 8.9 precuneus
- 763 482 1548 2.937 0.708 0.149 0.058 13 2.0 rostralanteriorcingulate
- 3919 2523 8727 2.846 0.827 0.159 0.077 71 13.3 rostralmiddlefrontal
- 9265 6139 24420 3.060 0.940 0.156 0.073 171 29.7 superiorfrontal
- 3812 2593 8564 2.642 0.849 0.163 0.076 73 13.3 superiorparietal
- 4839 3436 11527 2.612 0.791 0.146 0.056 81 12.5 superiortemporal
- 3762 2620 7825 2.482 0.694 0.151 0.066 74 11.0 supramarginal
- 423 276 935 2.606 0.785 0.129 0.045 6 0.7 transversetemporal
- 2594 1789 6915 3.356 0.961 0.129 0.053 44 5.3 insula
- PIDs (18326 18329) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Tue Oct 10 12:33:28 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- pctsurfcon --s 0050185 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Tue Oct 10 12:33:28 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts
- pctsurfcon --s 0050185 --rh-only
- Waiting for PID 18388 of (18388 18391) to complete...
- Waiting for PID 18391 of (18388 18391) to complete...
- pctsurfcon --s 0050185 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts/pctsurfcon.log
- Tue Oct 10 12:33:28 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-6.0.0/0050185/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-581 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-6.0.0/0050185/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/tmp.pctsurfcon.18388/lh.wm.mgh --regheader 0050185 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/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-6.0.0/0050185/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 = 47694
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/tmp.pctsurfcon.18388/lh.wm.mgh
- Dim: 92565 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/tmp.pctsurfcon.18388/lh.gm.mgh --projfrac 0.3 --regheader 0050185 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/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-6.0.0/0050185/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 = 57867
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/tmp.pctsurfcon.18388/lh.gm.mgh
- Dim: 92565 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/tmp.pctsurfcon.18388/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/tmp.pctsurfcon.18388/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.w-g.pct.mgh --annot 0050185 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/surf/lh.w-g.pct.mgh --annot 0050185 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-581
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/surf/lh.w-g.pct.mgh
- Vertex Area is 0.681942 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 0050185 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/scripts/pctsurfcon.log
- Tue Oct 10 12:33:28 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-6.0.0/0050185/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-581 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-6.0.0/0050185/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/tmp.pctsurfcon.18391/rh.wm.mgh --regheader 0050185 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/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-6.0.0/0050185/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 = 47639
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/tmp.pctsurfcon.18391/rh.wm.mgh
- Dim: 91530 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/tmp.pctsurfcon.18391/rh.gm.mgh --projfrac 0.3 --regheader 0050185 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/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-6.0.0/0050185/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 = 57621
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/tmp.pctsurfcon.18391/rh.gm.mgh
- Dim: 91530 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/tmp.pctsurfcon.18391/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/tmp.pctsurfcon.18391/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.w-g.pct.mgh --annot 0050185 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/surf/rh.w-g.pct.mgh --annot 0050185 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-581
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/surf/rh.w-g.pct.mgh
- Vertex Area is 0.679065 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 (18388 18391) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Tue Oct 10 12:33:33 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 1377 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 1091 voxels changed to hypointensity...
- 2575 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Tue Oct 10 12:33:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185
- mri_aparc2aseg --s 0050185 --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 Tue Oct 10 12:33:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185
- mri_aparc2aseg --s 0050185 --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 Tue Oct 10 12:33:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185
- mri_aparc2aseg --s 0050185 --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 18561 of (18561 18564 18567) to complete...
- Waiting for PID 18564 of (18561 18564 18567) to complete...
- Waiting for PID 18567 of (18561 18564 18567) to complete...
- mri_aparc2aseg --s 0050185 --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 0050185
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/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-6.0.0/0050185/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 7.05
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 109
- rescaling Left_Cerebral_Cortex from 61 --> 60
- rescaling Left_Lateral_Ventricle from 13 --> 13
- rescaling Left_Inf_Lat_Vent from 34 --> 30
- rescaling Left_Cerebellum_White_Matter from 86 --> 82
- rescaling Left_Cerebellum_Cortex from 60 --> 56
- rescaling Left_Thalamus from 94 --> 99
- rescaling Left_Thalamus_Proper from 84 --> 92
- rescaling Left_Caudate from 75 --> 71
- rescaling Left_Putamen from 80 --> 74
- rescaling Left_Pallidum from 98 --> 97
- rescaling Third_Ventricle from 25 --> 25
- rescaling Fourth_Ventricle from 22 --> 17
- rescaling Brain_Stem from 81 --> 89
- rescaling Left_Hippocampus from 57 --> 63
- rescaling Left_Amygdala from 56 --> 64
- rescaling CSF from 32 --> 36
- rescaling Left_Accumbens_area from 62 --> 64
- rescaling Left_VentralDC from 87 --> 92
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- 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 --> 82
- rescaling Right_Cerebellum_Cortex from 59 --> 55
- rescaling Right_Thalamus_Proper from 85 --> 89
- rescaling Right_Caudate from 62 --> 69
- rescaling Right_Putamen from 80 --> 72
- rescaling Right_Pallidum from 97 --> 93
- rescaling Right_Hippocampus from 53 --> 53
- rescaling Right_Amygdala from 55 --> 59
- rescaling Right_Accumbens_area from 65 --> 68
- rescaling Right_VentralDC from 86 --> 95
- rescaling Fifth_Ventricle from 40 --> 32
- rescaling WM_hypointensities from 78 --> 79
- rescaling non_WM_hypointensities from 40 --> 45
- 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 = 378925
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 104 changed.
- pass 2: 5 changed.
- pass 3: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0050185 --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 0050185
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/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-6.0.0/0050185/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 7.05
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 109
- rescaling Left_Cerebral_Cortex from 61 --> 60
- rescaling Left_Lateral_Ventricle from 13 --> 13
- rescaling Left_Inf_Lat_Vent from 34 --> 30
- rescaling Left_Cerebellum_White_Matter from 86 --> 82
- rescaling Left_Cerebellum_Cortex from 60 --> 56
- rescaling Left_Thalamus from 94 --> 99
- rescaling Left_Thalamus_Proper from 84 --> 92
- rescaling Left_Caudate from 75 --> 71
- rescaling Left_Putamen from 80 --> 74
- rescaling Left_Pallidum from 98 --> 97
- rescaling Third_Ventricle from 25 --> 25
- rescaling Fourth_Ventricle from 22 --> 17
- rescaling Brain_Stem from 81 --> 89
- rescaling Left_Hippocampus from 57 --> 63
- rescaling Left_Amygdala from 56 --> 64
- rescaling CSF from 32 --> 36
- rescaling Left_Accumbens_area from 62 --> 64
- rescaling Left_VentralDC from 87 --> 92
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- 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 --> 82
- rescaling Right_Cerebellum_Cortex from 59 --> 55
- rescaling Right_Thalamus_Proper from 85 --> 89
- rescaling Right_Caudate from 62 --> 69
- rescaling Right_Putamen from 80 --> 72
- rescaling Right_Pallidum from 97 --> 93
- rescaling Right_Hippocampus from 53 --> 53
- rescaling Right_Amygdala from 55 --> 59
- rescaling Right_Accumbens_area from 65 --> 68
- rescaling Right_VentralDC from 86 --> 95
- rescaling Fifth_Ventricle from 40 --> 32
- rescaling WM_hypointensities from 78 --> 79
- rescaling non_WM_hypointensities from 40 --> 45
- 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 = 379013
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 104 changed.
- pass 2: 5 changed.
- pass 3: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0050185 --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 0050185
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/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-6.0.0/0050185/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 7.05
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 109
- rescaling Left_Cerebral_Cortex from 61 --> 60
- rescaling Left_Lateral_Ventricle from 13 --> 13
- rescaling Left_Inf_Lat_Vent from 34 --> 30
- rescaling Left_Cerebellum_White_Matter from 86 --> 82
- rescaling Left_Cerebellum_Cortex from 60 --> 56
- rescaling Left_Thalamus from 94 --> 99
- rescaling Left_Thalamus_Proper from 84 --> 92
- rescaling Left_Caudate from 75 --> 71
- rescaling Left_Putamen from 80 --> 74
- rescaling Left_Pallidum from 98 --> 97
- rescaling Third_Ventricle from 25 --> 25
- rescaling Fourth_Ventricle from 22 --> 17
- rescaling Brain_Stem from 81 --> 89
- rescaling Left_Hippocampus from 57 --> 63
- rescaling Left_Amygdala from 56 --> 64
- rescaling CSF from 32 --> 36
- rescaling Left_Accumbens_area from 62 --> 64
- rescaling Left_VentralDC from 87 --> 92
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- 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 --> 82
- rescaling Right_Cerebellum_Cortex from 59 --> 55
- rescaling Right_Thalamus_Proper from 85 --> 89
- rescaling Right_Caudate from 62 --> 69
- rescaling Right_Putamen from 80 --> 72
- rescaling Right_Pallidum from 97 --> 93
- rescaling Right_Hippocampus from 53 --> 53
- rescaling Right_Amygdala from 55 --> 59
- rescaling Right_Accumbens_area from 65 --> 68
- rescaling Right_VentralDC from 86 --> 95
- rescaling Fifth_Ventricle from 40 --> 32
- rescaling WM_hypointensities from 78 --> 79
- rescaling non_WM_hypointensities from 40 --> 45
- 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 = 379013
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 104 changed.
- pass 2: 5 changed.
- pass 3: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (18561 18564 18567) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Tue Oct 10 12:40:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Tue Oct 10 12:40:19 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-6.0.0/0050185/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-581 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-6.0.0/0050185/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-581
- 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 Tue Oct 10 12:40:19 CEST 2017
- Ended at Tue Oct 10 12:40:25 CEST 2017
- Apas2aseg-Run-Time-Sec 6
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Tue Oct 10 12:40:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185
- 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 0050185
- $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 0050185
- sysname Linux
- hostname tars-581
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1582637 mm^3 (det: 1.230924 )
- Computing euler number
- orig.nofix lheno = -736, rheno = -560
- orig.nofix lhholes = 369, rhholes = 281
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 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 Tue Oct 10 12:41:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185
- mri_aparc2aseg --s 0050185 --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 0050185
- 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-6.0.0/0050185/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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-6.0.0/0050185/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 8168 vertices from left hemi
- Ripped 8242 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-6.0.0/0050185/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 = 666664
- Used brute-force search on 33 voxels
- Fixing Parahip LH WM
- Found 30 clusters
- 0 k 2.000000
- 1 k 2.000000
- 2 k 4.000000
- 3 k 1.000000
- 4 k 1.000000
- 5 k 6.000000
- 6 k 2.000000
- 7 k 2.000000
- 8 k 2.000000
- 9 k 1.000000
- 10 k 1.000000
- 11 k 1.000000
- 12 k 1.000000
- 13 k 1.000000
- 14 k 2.000000
- 15 k 1.000000
- 16 k 1.000000
- 17 k 1.000000
- 18 k 3.000000
- 19 k 1.000000
- 20 k 1.000000
- 21 k 1.000000
- 22 k 2.000000
- 23 k 605.000000
- 24 k 1.000000
- 25 k 1.000000
- 26 k 3.000000
- 27 k 1.000000
- 28 k 1.000000
- 29 k 1.000000
- Fixing Parahip RH WM
- Found 17 clusters
- 0 k 2.000000
- 1 k 1.000000
- 2 k 2.000000
- 3 k 1.000000
- 4 k 1.000000
- 5 k 1.000000
- 6 k 3.000000
- 7 k 2.000000
- 8 k 5.000000
- 9 k 756.000000
- 10 k 4.000000
- 11 k 1.000000
- 12 k 3.000000
- 13 k 48.000000
- 14 k 4.000000
- 15 k 1.000000
- 16 k 1.000000
- 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 0050185 --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 0050185 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-581
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1582637 mm^3 (det: 1.230924 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 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-6.0.0/0050185/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Tue Oct 10 12:48:43 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 0050185 --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 0050185 --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 0050185 --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 0050185 --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 0050185 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 19266 of (19266 19271 19278 19284 19290) to complete...
- Waiting for PID 19271 of (19266 19271 19278 19284 19290) to complete...
- Waiting for PID 19278 of (19266 19271 19278 19284 19290) to complete...
- Waiting for PID 19284 of (19266 19271 19278 19284 19290) to complete...
- Waiting for PID 19290 of (19266 19271 19278 19284 19290) 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 179
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 4308
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 364
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 8273
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 367
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4444
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 583
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 6566
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 720
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 6504
- mri_label2label: Done
- PIDs (19266 19271 19278 19284 19290) 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 0050185 --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 0050185 --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 0050185 --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 0050185 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 19338 of (19338 19344 19350 19356) to complete...
- Waiting for PID 19344 of (19338 19344 19350 19356) to complete...
- Waiting for PID 19350 of (19338 19344 19350 19356) to complete...
- Waiting for PID 19356 of (19338 19344 19350 19356) 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 252
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4322
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 1871
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 15460
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 492
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 4673
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 492
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 3914
- mri_label2label: Done
- PIDs (19338 19344 19350 19356) 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 0050185 --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 0050185 --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 0050185 --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 0050185 --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 0050185 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 19396 of (19396 19402 19408 19414 19420) to complete...
- Waiting for PID 19402 of (19396 19402 19408 19414 19420) to complete...
- Waiting for PID 19408 of (19396 19402 19408 19414 19420) to complete...
- Waiting for PID 19414 of (19396 19402 19408 19414 19420) to complete...
- Waiting for PID 19420 of (19396 19402 19408 19414 19420) 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 381
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 5022
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 990
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 9104
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 207
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 2225
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 161
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1451
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 59
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1258
- mri_label2label: Done
- PIDs (19396 19402 19408 19414 19420) 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 0050185 --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 0050185 --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 0050185 --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 0050185 --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 0050185 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 19482 of (19482 19488 19494 19500 19506) to complete...
- Waiting for PID 19488 of (19482 19488 19494 19500 19506) to complete...
- Waiting for PID 19494 of (19482 19488 19494 19500 19506) to complete...
- Waiting for PID 19500 of (19482 19488 19494 19500 19506) to complete...
- Waiting for PID 19506 of (19482 19488 19494 19500 19506) 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 8
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.thresh.label 1022
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 27
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 2119
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 98
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1602
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 143
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2139
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 206
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 2525
- mri_label2label: Done
- PIDs (19482 19488 19494 19500 19506) 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 0050185 --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 0050185 --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 0050185 --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 0050185 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 19549 of (19549 19555 19561 19567) to complete...
- Waiting for PID 19555 of (19549 19555 19561 19567) to complete...
- Waiting for PID 19561 of (19549 19555 19561 19567) to complete...
- Waiting for PID 19567 of (19549 19555 19561 19567) 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 138
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1687
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 859
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 7894
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 258
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 2170
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 137
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1288
- mri_label2label: Done
- PIDs (19549 19555 19561 19567) 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 0050185 --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 0050185 --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 0050185 --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 0050185 --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 0050185 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 19624 of (19624 19630 19636 19642 19648) to complete...
- Waiting for PID 19630 of (19624 19630 19636 19642 19648) to complete...
- Waiting for PID 19636 of (19624 19630 19636 19642 19648) to complete...
- Waiting for PID 19642 of (19624 19630 19636 19642 19648) to complete...
- Waiting for PID 19648 of (19624 19630 19636 19642 19648) 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 244
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 3649
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 505
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 3839
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 39
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 552
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 86
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 556
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 92565
- Number of reverse mapping hits = 11
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 461
- mri_label2label: Done
- PIDs (19624 19630 19636 19642 19648) completed and logs appended.
- mris_label2annot --s 0050185 --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-6.0.0/0050185/label
- cmdline mris_label2annot --s 0050185 --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-581
- machine x86_64
- user ntraut
- subject 0050185
- 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-6.0.0/0050185/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 66782 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/label/lh.BA_exvivo.annot
- mris_label2annot --s 0050185 --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-6.0.0/0050185/label
- cmdline mris_label2annot --s 0050185 --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-581
- machine x86_64
- user ntraut
- subject 0050185
- 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-6.0.0/0050185/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 78136 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0050185 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 192910
- Total vertex volume 189329 (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) = 1582637 mm^3 (det: 1.230924 )
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 538 433 1359 2.184 0.886 0.180 0.067 14 1.6 BA1_exvivo
- 2096 1455 4714 2.674 0.787 0.157 0.075 43 7.1 BA2_exvivo
- 688 538 1337 2.175 0.757 0.180 0.104 18 3.8 BA3a_exvivo
- 1640 1155 3737 2.330 0.768 0.195 0.097 47 8.1 BA3b_exvivo
- 1160 766 3435 3.065 1.172 0.161 0.138 31 4.4 BA4a_exvivo
- 604 457 1053 2.334 0.612 0.170 0.096 16 3.0 BA4p_exvivo
- 7181 5095 17663 2.607 0.914 0.185 0.082 170 26.4 BA6_exvivo
- 1832 1228 3904 2.527 0.579 0.152 0.069 37 5.5 BA44_exvivo
- 1998 1449 4621 2.643 0.857 0.168 0.071 31 5.7 BA45_exvivo
- 1573 1107 3118 2.514 0.892 0.187 0.081 39 5.9 V1_exvivo
- 4134 2868 11071 2.934 0.835 0.179 0.080 86 15.8 V2_exvivo
- 1238 870 3747 2.932 0.777 0.148 0.062 18 3.0 MT_exvivo
- 650 393 1196 2.357 0.895 0.163 0.075 21 1.8 perirhinal_exvivo
- 451 328 878 2.362 0.872 0.128 0.042 4 0.9 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 0050185 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 192910
- Total vertex volume 189329 (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) = 1582637 mm^3 (det: 1.230924 )
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 201 137 463 2.272 1.066 0.172 0.058 7 0.5 BA1_exvivo
- 637 493 1343 2.489 0.696 0.145 0.050 6 1.4 BA2_exvivo
- 493 356 880 2.189 0.758 0.171 0.117 13 3.2 BA3a_exvivo
- 812 619 1406 2.069 0.627 0.213 0.107 27 4.5 BA3b_exvivo
- 1021 691 3068 3.102 1.169 0.172 0.141 28 4.2 BA4a_exvivo
- 634 466 1033 2.170 0.617 0.173 0.106 21 3.1 BA4p_exvivo
- 3834 2655 8558 2.431 0.802 0.192 0.090 100 15.6 BA6_exvivo
- 1251 834 2868 2.525 0.560 0.165 0.078 29 4.4 BA44_exvivo
- 801 638 2260 2.632 0.874 0.172 0.058 11 1.9 BA45_exvivo
- 1619 1132 3254 2.527 0.896 0.187 0.082 40 6.2 V1_exvivo
- 2183 1482 5690 2.869 0.851 0.180 0.082 47 8.7 V2_exvivo
- 337 241 675 2.458 0.526 0.124 0.054 3 0.6 MT_exvivo
- 340 200 660 2.378 1.012 0.167 0.066 9 1.1 perirhinal_exvivo
- 266 191 636 2.623 0.866 0.127 0.041 2 0.5 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Tue Oct 10 12:51:03 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 0050185 --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 0050185 --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 0050185 --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 0050185 --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 0050185 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 19764 of (19764 19770 19776 19782 19788) to complete...
- Waiting for PID 19770 of (19764 19770 19776 19782 19788) to complete...
- Waiting for PID 19776 of (19764 19770 19776 19782 19788) to complete...
- Waiting for PID 19782 of (19764 19770 19776 19782 19788) to complete...
- Waiting for PID 19788 of (19764 19770 19776 19782 19788) 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 434
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 4396
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 443
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 7130
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 206
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4186
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 384
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 4906
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 542
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 6289
- mri_label2label: Done
- PIDs (19764 19770 19776 19782 19788) 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 0050185 --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 0050185 --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 0050185 --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 0050185 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 19827 of (19827 19833 19839 19845) to complete...
- Waiting for PID 19833 of (19827 19833 19839 19845) to complete...
- Waiting for PID 19839 of (19827 19833 19839 19845) to complete...
- Waiting for PID 19845 of (19827 19833 19839 19845) 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 295
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 4768
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 1008
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 13264
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 659
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 7571
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 536
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 5891
- mri_label2label: Done
- PIDs (19827 19833 19839 19845) 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 0050185 --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 0050185 --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 0050185 --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 0050185 --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 0050185 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 19904 of (19904 19910 19916 19922 19928) to complete...
- Waiting for PID 19910 of (19904 19910 19916 19922 19928) to complete...
- Waiting for PID 19916 of (19904 19910 19916 19922 19928) to complete...
- Waiting for PID 19922 of (19904 19910 19916 19922 19928) to complete...
- Waiting for PID 19928 of (19904 19910 19916 19922 19928) 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 567
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 5294
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 1036
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 9052
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 110
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.label 2042
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 184
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1222
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 77
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 829
- mri_label2label: Done
- PIDs (19904 19910 19916 19922 19928) 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 0050185 --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 0050185 --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 0050185 --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 0050185 --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 0050185 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 19979 of (19979 19985 19991 19997 20003) to complete...
- Waiting for PID 19985 of (19979 19985 19991 19997 20003) to complete...
- Waiting for PID 19991 of (19979 19985 19991 19997 20003) to complete...
- Waiting for PID 19997 of (19979 19985 19991 19997 20003) to complete...
- Waiting for PID 20003 of (19979 19985 19991 19997 20003) 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 112
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 988
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 106
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 2794
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 80
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1778
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 153
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2336
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 111
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1499
- mri_label2label: Done
- PIDs (19979 19985 19991 19997 20003) 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 0050185 --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 0050185 --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 0050185 --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 0050185 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 20045 of (20045 20051 20057 20063) to complete...
- Waiting for PID 20051 of (20045 20051 20057 20063) to complete...
- Waiting for PID 20057 of (20045 20051 20057 20063) to complete...
- Waiting for PID 20063 of (20045 20051 20057 20063) 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 80
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1569
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 574
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 7533
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 126
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1138
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 77
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1255
- mri_label2label: Done
- PIDs (20045 20051 20057 20063) 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 0050185 --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 0050185 --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 0050185 --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 0050185 --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 0050185 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 20112 of (20112 20118 20124 20130 20136) to complete...
- Waiting for PID 20118 of (20112 20118 20124 20130 20136) to complete...
- Waiting for PID 20124 of (20112 20118 20124 20130 20136) to complete...
- Waiting for PID 20130 of (20112 20118 20124 20130 20136) to complete...
- Waiting for PID 20136 of (20112 20118 20124 20130 20136) 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 255
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 3487
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 480
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 3917
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 7
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 275
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 114
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.thresh.label 808
- 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 0050185 --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 = 0050185
- 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-6.0.0/0050185/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 91530
- Number of reverse mapping hits = 41
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 332
- mri_label2label: Done
- PIDs (20112 20118 20124 20130 20136) completed and logs appended.
- mris_label2annot --s 0050185 --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-6.0.0/0050185/label
- cmdline mris_label2annot --s 0050185 --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-581
- machine x86_64
- user ntraut
- subject 0050185
- 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-6.0.0/0050185/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 65035 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/label/rh.BA_exvivo.annot
- mris_label2annot --s 0050185 --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-6.0.0/0050185/label
- cmdline mris_label2annot --s 0050185 --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-581
- machine x86_64
- user ntraut
- subject 0050185
- 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-6.0.0/0050185/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 76804 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/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 0050185 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 203604
- Total vertex volume 199888 (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) = 1582637 mm^3 (det: 1.230924 )
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 701 525 2036 2.314 0.943 0.218 0.117 26 3.7 BA1_exvivo
- 1893 1266 3317 2.339 0.610 0.160 0.068 36 5.5 BA2_exvivo
- 703 466 862 2.086 0.621 0.156 0.073 13 2.3 BA3a_exvivo
- 1344 993 2568 2.178 0.734 0.181 0.085 27 5.1 BA3b_exvivo
- 1217 855 3065 2.722 1.052 0.153 0.058 19 2.8 BA4a_exvivo
- 891 621 1303 2.253 0.624 0.176 0.078 15 3.9 BA4p_exvivo
- 5502 3662 12775 2.763 0.891 0.156 0.079 137 20.4 BA6_exvivo
- 2838 1884 5922 2.682 0.675 0.142 0.065 48 8.0 BA44_exvivo
- 2592 1790 8391 3.000 0.893 0.160 0.071 45 7.8 BA45_exvivo
- 1878 1462 5585 2.865 0.906 0.185 0.069 34 6.1 V1_exvivo
- 4940 3582 13032 2.873 0.932 0.180 0.077 95 16.5 V2_exvivo
- 1055 724 3059 3.165 0.707 0.144 0.059 17 2.2 MT_exvivo
- 645 414 1270 2.342 0.696 0.210 0.087 18 2.7 perirhinal_exvivo
- 296 238 578 2.006 0.842 0.160 0.053 6 0.6 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 0050185 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050185/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 203604
- Total vertex volume 199888 (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) = 1582637 mm^3 (det: 1.230924 )
- lhCtxGM: 186096.600 185411.000 diff= 685.6 pctdiff= 0.368
- rhCtxGM: 196353.707 195678.000 diff= 675.7 pctdiff= 0.344
- lhCtxWM: 144555.384 145179.000 diff= -623.6 pctdiff=-0.431
- rhCtxWM: 142725.168 144524.000 diff=-1798.8 pctdiff=-1.260
- SubCortGMVol 65114.000
- SupraTentVol 746375.859 (745598.000) diff=777.859 pctdiff=0.104
- SupraTentVolNotVent 736722.859 (735945.000) diff=777.859 pctdiff=0.106
- BrainSegVol 908750.000 (906719.000) diff=2031.000 pctdiff=0.223
- BrainSegVolNotVent 895983.000 (894780.859) diff=1202.141 pctdiff=0.134
- BrainSegVolNotVent 895983.000
- CerebellumVol 159897.000
- VentChorVol 9653.000
- 3rd4th5thCSF 3114.000
- CSFVol 1083.000, OptChiasmVol 141.000
- MaskVol 1677443.000
- 445 343 1350 2.418 0.823 0.243 0.136 20 2.6 BA1_exvivo
- 1094 780 2207 2.446 0.645 0.171 0.071 20 3.4 BA2_exvivo
- 621 407 665 2.101 0.635 0.166 0.079 12 2.2 BA3a_exvivo
- 1021 779 1705 2.059 0.626 0.178 0.084 20 4.2 BA3b_exvivo
- 750 520 2214 3.180 0.978 0.155 0.056 12 1.6 BA4a_exvivo
- 686 506 941 2.104 0.604 0.172 0.078 12 2.8 BA4p_exvivo
- 3590 2429 8293 2.687 0.913 0.161 0.083 95 13.8 BA6_exvivo
- 783 526 1908 2.839 0.623 0.140 0.052 12 1.9 BA44_exvivo
- 621 440 2517 3.269 0.887 0.156 0.063 10 1.3 BA45_exvivo
- 1821 1361 4870 2.840 0.891 0.181 0.068 33 6.0 V1_exvivo
- 2565 1995 8312 3.078 1.000 0.192 0.079 51 8.6 V2_exvivo
- 131 93 291 3.078 0.537 0.142 0.045 2 0.2 MT_exvivo
- 354 226 709 2.203 0.668 0.212 0.081 10 1.5 perirhinal_exvivo
- 244 183 399 2.084 0.651 0.166 0.063 5 0.8 entorhinal_exvivo
- Started at Mon Oct 9 14:29:43 CEST 2017
- Ended at Tue Oct 10 12:53:19 CEST 2017
- #@#%# recon-all-run-time-hours 22.393
- recon-all -s 0050185 finished without error at Tue Oct 10 12:53:19 CEST 2017
|
