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- Sat Oct 7 21:25:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0051266 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/UCLA_1/0051266/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0051266
- 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-116 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: 264574092 259308092 5266000 1734984 0 253563904
- -/+ buffers/cache: 5744188 258829904
- Swap: 0 0 0
- ########################################
- program versions used
- $Id: recon-all,v 1.580.2.16 2017/01/18 14:11:24 zkaufman Exp $
- $Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $
- mri_convert.bin -all-info
- ProgramName: mri_convert.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- FLIRT version 5.5
- $Id: talairach_avi,v 1.13 2015/12/23 04:25:17 greve Exp $
- mri_convert.bin --version
- stable6
- ProgramName: tkregister2_cmdl ProgramArguments: --all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- Program nu_correct, built from:
- Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
- ProgramName: mri_make_uchar ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_label2label.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_pretess ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_concatenate_lta.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_inflate ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_volmask ProgramArguments: --all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $
- ProgramName: mri_robust_register.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $
- ProgramName: mri_robust_template ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:38-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-116 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_relabel_hypointensities ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-19:25:39-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-116 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-6.0.0/0051266
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/UCLA_1/0051266/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/UCLA_1/0051266/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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/UCLA_1/0051266/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-6.0.0/0051266/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Sat Oct 7 21:25:41 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/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-6.0.0/0051266/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Sat Oct 7 21:25:50 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/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-116 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
- Sat Oct 7 21:25:50 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.8202
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.8202/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.8202/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.8202/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 21:25:52 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.8202/nu0.mnc ./tmp.mri_nu_correct.mni.8202/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.8202/0/ -iterations 1000 -distance 50
- [ntraut@tars-116:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/] [2017-10-07 21:25:52] 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.8202/0/ ./tmp.mri_nu_correct.mni.8202/nu0.mnc ./tmp.mri_nu_correct.mni.8202/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
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- 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: 34
- CV of field change: 0.000997699
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.8202/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.8202/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.8202/nu1.mnc...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-1, 0, 0)
- j_ras = (0, 0, -1)
- k_ras = (0, 1, 0)
- INFO: transform src into the like-volume: orig.mgz
- changing data type from float to uchar (noscale = 0)...
- MRIchangeType: Building histogram
- writing to orig_nu.mgz...
-
-
- Sat Oct 7 21:26:56 CEST 2017
- mri_nu_correct.mni done
- talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm
- talairach_avi log file is transforms/talairach_avi.log...
- Started at Sat Oct 7 21:26:56 CEST 2017
- Ended at Sat Oct 7 21:27:43 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Sat Oct 7 21:27:45 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.6073, pval=0.2817 >= 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-6.0.0/0051266/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/transforms/talairach_avi.log
- TalAviQA: 0.98019
- z-score: 0
- #--------------------------------------------
- #@# Nu Intensity Correction Sat Oct 7 21:27:45 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-6.0.0/0051266/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-116 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
- Sat Oct 7 21:27:45 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.8901
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.8901/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.8901/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.8901/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 21:27:47 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.8901/nu0.mnc ./tmp.mri_nu_correct.mni.8901/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.8901/0/
- [ntraut@tars-116:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/] [2017-10-07 21:27:47] 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.8901/0/ ./tmp.mri_nu_correct.mni.8901/nu0.mnc ./tmp.mri_nu_correct.mni.8901/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: 0.000994025
-
-
- --------------------------------------------------------
- Iteration 2 Sat Oct 7 21:28:35 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.8901/nu1.mnc ./tmp.mri_nu_correct.mni.8901/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.8901/1/
- [ntraut@tars-116:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/] [2017-10-07 21:28:35] 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.8901/1/ ./tmp.mri_nu_correct.mni.8901/nu1.mnc ./tmp.mri_nu_correct.mni.8901/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
- Number of iterations: 16
- CV of field change: 0.000995894
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.8901/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.8901/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-6.0.0/0051266/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.8901/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.8901/ones.mgz
- sysname Linux
- hostname tars-116
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.8901/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.8901/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.8901/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.8901/sum.junk --avgwf ./tmp.mri_nu_correct.mni.8901/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.8901/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.8901/sum.junk --avgwf ./tmp.mri_nu_correct.mni.8901/input.mean.dat
- sysname Linux
- hostname tars-116
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.8901/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.8901/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.8901/ones.mgz --i ./tmp.mri_nu_correct.mni.8901/nu2.mnc --sum ./tmp.mri_nu_correct.mni.8901/sum.junk --avgwf ./tmp.mri_nu_correct.mni.8901/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.8901/ones.mgz --i ./tmp.mri_nu_correct.mni.8901/nu2.mnc --sum ./tmp.mri_nu_correct.mni.8901/sum.junk --avgwf ./tmp.mri_nu_correct.mni.8901/output.mean.dat
- sysname Linux
- hostname tars-116
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.8901/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.8901/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.8901/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.8901/nu2.mnc ./tmp.mri_nu_correct.mni.8901/nu2.mnc mul 1.03149575673316037521
- Saving result to './tmp.mri_nu_correct.mni.8901/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.8901/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.8901/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.8901/nu2.mnc...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-1, 0, 0)
- j_ras = (0, 0, -1)
- k_ras = (0, 1, 0)
- INFO: transform src into the like-volume: orig.mgz
- writing to nu.mgz...
- mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz
- type change took 0 minutes and 9 seconds.
- mapping (11, 108) to ( 3, 110)
-
-
- Sat Oct 7 21:30:00 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Sat Oct 7 21:30:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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
- 1.13208 -0.21722 -0.07439 17.17500;
- 0.17886 0.99413 0.26708 -7.26881;
- 0.02033 -0.29358 1.11732 24.00114;
- 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 = 19
- Starting OpenSpline(): npoints = 19
- 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 109
- gm peak at 57 (57), valley at 25 (25)
- csf peak at 29, setting threshold to 47
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- ---------------------------------
- 3d normalization pass 2 of 2
- white matter peak found at 110
- white matter peak found at 110
- gm peak at 57 (57), valley at 25 (25)
- csf peak at 29, setting threshold to 47
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to T1.mgz
- 3D bias adjustment took 2 minutes and 1 seconds.
- #--------------------------------------------
- #@# Skull Stripping Sat Oct 7 21:32:02 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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=5.0
- skull bounding box = (47, 43, 28) --> (205, 194, 230)
- using (100, 93, 129) as brain centroid...
- mean wm in atlas = 108, using box (81,74,104) --> (119, 111,153) to find MRI wm
- before smoothing, mri peak at 109
- robust fit to distribution - 109 +- 5.6
- after smoothing, mri peak at 109, scaling input intensities by 0.991
- scaling channel 0 by 0.990826
- initial log_p = -4.524
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.470810 @ (-9.091, -9.091, -9.091)
- max log p = -4.372661 @ (13.636, 13.636, -4.545)
- max log p = -4.361522 @ (-11.364, -2.273, -6.818)
- max log p = -4.319717 @ (5.682, -5.682, 5.682)
- max log p = -4.319717 @ (0.000, 0.000, 0.000)
- max log p = -4.319717 @ (0.000, 0.000, 0.000)
- Found translation: (-1.1, -3.4, -14.8): log p = -4.320
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.783, old_max_log_p =-4.320 (thresh=-4.3)
- 1.11081 -0.07704 0.28750 -40.02280;
- 0.00000 1.19413 0.31997 -63.26386;
- -0.27532 -0.26594 0.99249 52.08040;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.783, old_max_log_p =-3.783 (thresh=-3.8)
- 1.11081 -0.07704 0.28750 -40.02280;
- 0.00000 1.19413 0.31997 -63.26386;
- -0.27532 -0.26594 0.99249 52.08040;
- 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=-3.650, old_max_log_p =-3.783 (thresh=-3.8)
- 1.08420 -0.05725 0.21365 -29.79512;
- 0.00000 1.19413 0.31997 -63.26386;
- -0.19450 -0.26027 0.97133 47.77785;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.650, old_max_log_p =-3.650 (thresh=-3.6)
- 1.08420 -0.05725 0.21365 -29.79512;
- 0.00000 1.19413 0.31997 -63.26386;
- -0.19450 -0.26027 0.97133 47.77785;
- 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=-3.631, old_max_log_p =-3.650 (thresh=-3.6)
- 1.08787 -0.07705 0.20912 -27.88397;
- 0.01940 1.19932 0.31657 -65.03469;
- -0.19480 -0.25108 0.97622 46.40320;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.623, old_max_log_p =-3.631 (thresh=-3.6)
- 1.08914 -0.07714 0.20936 -28.06257;
- 0.01940 1.19932 0.31657 -65.03469;
- -0.19549 -0.25197 0.97966 46.17620;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.621, old_max_log_p =-3.623 (thresh=-3.6)
- 1.09042 -0.07723 0.20961 -28.24179;
- 0.01938 1.19792 0.31620 -64.79187;
- -0.19572 -0.25226 0.98081 46.10033;
- 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
- 1.09042 -0.07723 0.20961 -28.24179;
- 0.01938 1.19792 0.31620 -64.79187;
- -0.19572 -0.25226 0.98081 46.10033;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 1.09042 -0.07723 0.20961 -28.24179;
- 0.01938 1.19792 0.31620 -64.79187;
- -0.19572 -0.25226 0.98081 46.10033;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 009: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.09042 -0.07723 0.20961 -28.24179;
- 0.01938 1.19792 0.31620 -64.79187;
- -0.19572 -0.25226 0.98081 46.10033;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.621 (old=-4.524)
- transform before final EM align:
- 1.09042 -0.07723 0.20961 -28.24179;
- 0.01938 1.19792 0.31620 -64.79187;
- -0.19572 -0.25226 0.98081 46.10033;
- 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
- 1.09042 -0.07723 0.20961 -28.24179;
- 0.01938 1.19792 0.31620 -64.79187;
- -0.19572 -0.25226 0.98081 46.10033;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 1.09042 -0.07723 0.20961 -28.24179;
- 0.01938 1.19792 0.31620 -64.79187;
- -0.19572 -0.25226 0.98081 46.10033;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 011: -log(p) = 4.1 tol 0.000000
- final transform:
- 1.09042 -0.07723 0.20961 -28.24179;
- 0.01938 1.19792 0.31620 -64.79187;
- -0.19572 -0.25226 0.98081 46.10033;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 1283.092940
- mri_em_register stimesec 1.204816
- 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 157572
- 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 131
- mri_em_register ru_nivcsw 7403
- registration took 11 minutes and 9 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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=126 y=114 z=120 r=67
- first estimation of the main basin volume: 1298664 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 16 found in the rest of the brain
- global maximum in x=152, y=108, z=89, Imax=255
- CSF=19, 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=8792384639 voxels, voxel volume =1.000
- = 8792384639 mmm3 = 8792384.512 cm3
- done.
- PostAnalyze...Basin Prior
- 36 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=119, z=118, r=9461 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=0, CSF_intensity=19, CSF_MAX=49 , nb = 44613
- RIGHT_CER CSF_MIN=0, CSF_intensity=6, CSF_MAX=37 , nb = -1029607414
- LEFT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=31 , nb = -1061710279
- RIGHT_BRAIN CSF_MIN=0, CSF_intensity=18, CSF_MAX=49 , nb = -1048517406
- LEFT_BRAIN CSF_MIN=0, CSF_intensity=23, CSF_MAX=50 , nb = 1076578948
- OTHER CSF_MIN=0, CSF_intensity=16, CSF_MAX=26 , nb = 1075518325
- Problem with the least square interpolation in GM_MIN calculation.
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 49, 38, 32, 52
- after analyzing : 33, 38, 38, 41
- RIGHT_CER
- before analyzing : 37, 35, 35, 62
- after analyzing : 27, 35, 35, 41
- LEFT_CER
- before analyzing : 31, 32, 34, 60
- after analyzing : 31, 33, 34, 39
- RIGHT_BRAIN
- before analyzing : 49, 38, 32, 52
- after analyzing : 33, 38, 38, 41
- LEFT_BRAIN
- before analyzing : 50, 39, 32, 52
- after analyzing : 34, 39, 39, 42
- OTHER
- before analyzing : 26, 37, 68, 94
- after analyzing : 26, 57, 68, 66
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...69 iterations
- *********************VALIDATION*********************
- curvature mean = -0.013, std = 0.011
- curvature mean = 68.625, std = 8.245
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 3.15, sigma = 5.32
- after rotation: sse = 3.15, sigma = 5.32
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 3.37, its var is 4.53
- before Erosion-Dilatation 0.67% of inacurate vertices
- after Erosion-Dilatation 0.00% of inacurate vertices
- Validation of the shape of the surface done.
- Scaling of atlas fields onto current surface fields
- ********FINAL ITERATIVE TEMPLATE DEFORMATION********
- Compute Local values csf/gray
- Fine Segmentation...34 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1563513 voxels, voxel volume = 1.000 mm3
- = 1563513 mmm3 = 1563.513 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 25.488125
- mri_watershed stimesec 0.486925
- mri_watershed ru_maxrss 824716
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 213519
- mri_watershed ru_majflt 0
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 0
- mri_watershed ru_oublock 2584
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 1923
- mri_watershed ru_nivcsw 111
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Sat Oct 7 21:43:37 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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=23.1
- skull bounding box = (63, 60, 40) --> (192, 187, 210)
- using (106, 102, 125) as brain centroid...
- mean wm in atlas = 107, using box (90,86,104) --> (121, 117,145) to find MRI wm
- before smoothing, mri peak at 109
- robust fit to distribution - 109 +- 5.4
- after smoothing, mri peak at 109, scaling input intensities by 0.982
- scaling channel 0 by 0.981651
- initial log_p = -4.204
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.088652 @ (-9.091, -9.091, -9.091)
- max log p = -3.919314 @ (13.636, 13.636, -4.545)
- max log p = -3.853148 @ (-6.818, -2.273, -2.273)
- max log p = -3.842872 @ (3.409, -1.136, 1.136)
- max log p = -3.828275 @ (-0.568, 2.841, -0.568)
- max log p = -3.828275 @ (0.000, 0.000, 0.000)
- Found translation: (0.6, 4.0, -15.3): log p = -3.828
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.436, old_max_log_p =-3.828 (thresh=-3.8)
- 1.13481 -0.06295 0.15923 -28.41368;
- 0.03378 1.13394 0.17331 -44.16404;
- -0.10121 -0.10364 0.91867 19.20329;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.436, old_max_log_p =-3.436 (thresh=-3.4)
- 1.13481 -0.06295 0.15923 -28.41368;
- 0.03378 1.13394 0.17331 -44.16404;
- -0.10121 -0.10364 0.91867 19.20329;
- 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=-3.149, old_max_log_p =-3.436 (thresh=-3.4)
- 1.08341 -0.07164 0.20992 -27.02013;
- 0.02758 1.14503 0.23723 -48.82014;
- -0.18730 -0.18294 0.94388 40.50216;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.147, old_max_log_p =-3.149 (thresh=-3.1)
- 1.06310 -0.07029 0.20599 -24.13718;
- 0.02103 1.11709 0.26296 -47.66476;
- -0.19163 -0.22444 0.95315 44.92347;
- 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=-3.123, old_max_log_p =-3.147 (thresh=-3.1)
- 1.06381 -0.08872 0.20215 -22.51147;
- 0.04156 1.11931 0.25067 -48.16103;
- -0.19058 -0.20541 0.95397 42.42207;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.123, old_max_log_p =-3.123 (thresh=-3.1)
- 1.06381 -0.08872 0.20215 -22.51147;
- 0.04156 1.11931 0.25067 -48.16103;
- -0.19058 -0.20541 0.95397 42.42207;
- 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
- 1.06381 -0.08872 0.20215 -22.51147;
- 0.04156 1.11931 0.25067 -48.16103;
- -0.19058 -0.20541 0.95397 42.42207;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 1.06381 -0.08872 0.20215 -22.51147;
- 0.04156 1.11931 0.25067 -48.16103;
- -0.19058 -0.20541 0.95397 42.42207;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 008: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.06381 -0.08872 0.20215 -22.51147;
- 0.04156 1.11931 0.25067 -48.16103;
- -0.19058 -0.20541 0.95397 42.42207;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.123 (old=-4.204)
- transform before final EM align:
- 1.06381 -0.08872 0.20215 -22.51147;
- 0.04156 1.11931 0.25067 -48.16103;
- -0.19058 -0.20541 0.95397 42.42207;
- 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
- 1.06381 -0.08872 0.20215 -22.51147;
- 0.04156 1.11931 0.25067 -48.16103;
- -0.19058 -0.20541 0.95397 42.42207;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 1.06381 -0.08872 0.20215 -22.51147;
- 0.04156 1.11931 0.25067 -48.16103;
- -0.19058 -0.20541 0.95397 42.42207;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = 3.6 tol 0.000000
- final transform:
- 1.06381 -0.08872 0.20215 -22.51147;
- 0.04156 1.11931 0.25067 -48.16103;
- -0.19058 -0.20541 0.95397 42.42207;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 975.978628
- mri_em_register stimesec 1.798726
- 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 158972
- 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 242
- mri_em_register ru_nivcsw 8891
- registration took 8 minutes and 33 seconds.
- #--------------------------------------
- #@# CA Normalize Sat Oct 7 21:52:09 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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=24.1
- skull bounding box = (63, 60, 40) --> (191, 187, 210)
- using (106, 102, 125) as brain centroid...
- mean wm in atlas = 107, using box (90,86,104) --> (121, 117,145) to find MRI wm
- before smoothing, mri peak at 109
- robust fit to distribution - 109 +- 5.4
- after smoothing, mri peak at 109, scaling input intensities by 0.982
- scaling channel 0 by 0.981651
- using 246344 sample points...
- INFO: compute sample coordinates transform
- 1.06381 -0.08872 0.20215 -22.51147;
- 0.04156 1.11931 0.25067 -48.16103;
- -0.19058 -0.20541 0.95397 42.42207;
- 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 (117, 59, 43) --> (191, 161, 207)
- Left_Cerebral_White_Matter: limiting intensities to 95.0 --> 132.0
- 0 of 131 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (67, 61, 38) --> (136, 163, 204)
- Right_Cerebral_White_Matter: limiting intensities to 93.0 --> 132.0
- 0 of 100 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (135, 141, 73) --> (181, 176, 126)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 0 of 12 (0.0%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (95, 141, 64) --> (138, 179, 121)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 0 of 8 (0.0%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (114, 128, 104) --> (146, 190, 135)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 5 of 17 (29.4%) samples deleted
- using 268 total control points for intensity normalization...
- bias field = 0.965 +- 0.071
- 0 of 263 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (117, 59, 43) --> (191, 161, 207)
- Left_Cerebral_White_Matter: limiting intensities to 92.0 --> 132.0
- 0 of 242 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (67, 61, 38) --> (136, 163, 204)
- Right_Cerebral_White_Matter: limiting intensities to 91.0 --> 132.0
- 0 of 157 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (135, 141, 73) --> (181, 176, 126)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 5 of 58 (8.6%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (95, 141, 64) --> (138, 179, 121)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 23 of 56 (41.1%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (114, 128, 104) --> (146, 190, 135)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 62 of 89 (69.7%) samples deleted
- using 602 total control points for intensity normalization...
- bias field = 0.988 +- 0.064
- 0 of 502 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (117, 59, 43) --> (191, 161, 207)
- Left_Cerebral_White_Matter: limiting intensities to 90.0 --> 132.0
- 0 of 324 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (67, 61, 38) --> (136, 163, 204)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 0 of 238 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (135, 141, 73) --> (181, 176, 126)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 60 of 90 (66.7%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (95, 141, 64) --> (138, 179, 121)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 67 of 80 (83.8%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (114, 128, 104) --> (146, 190, 135)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 213 of 257 (82.9%) samples deleted
- using 989 total control points for intensity normalization...
- bias field = 1.006 +- 0.054
- 0 of 634 control points discarded
- writing normalized volume to norm.mgz...
- writing control points to ctrl_pts.mgz
- freeing GCA...done.
- normalization took 1 minutes and 45 seconds.
- #--------------------------------------
- #@# CA Reg Sat Oct 7 21:53:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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) = 1.24 (predicted orig area = 6.5)
- 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=0.788, neg=0, invalid=762
- 0001: dt=164.132635, rms=0.732 (7.160%), neg=0, invalid=762
- 0002: dt=168.871287, rms=0.720 (1.566%), neg=0, invalid=762
- 0003: dt=171.180723, rms=0.715 (0.749%), neg=0, invalid=762
- 0004: dt=295.936000, rms=0.711 (0.599%), neg=0, invalid=762
- 0005: dt=129.472000, rms=0.707 (0.568%), neg=0, invalid=762
- 0006: dt=369.920000, rms=0.703 (0.471%), neg=0, invalid=762
- 0007: dt=129.472000, rms=0.701 (0.363%), neg=0, invalid=762
- 0008: dt=369.920000, rms=0.698 (0.315%), neg=0, invalid=762
- 0009: dt=129.472000, rms=0.697 (0.251%), neg=0, invalid=762
- 0010: dt=369.920000, rms=0.695 (0.230%), neg=0, invalid=762
- 0011: dt=369.920000, rms=0.695 (-0.413%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.696, neg=0, invalid=762
- 0012: dt=129.472000, rms=0.693 (0.333%), neg=0, invalid=762
- 0013: dt=887.808000, rms=0.690 (0.507%), neg=0, invalid=762
- 0014: dt=129.472000, rms=0.689 (0.150%), neg=0, invalid=762
- 0015: dt=129.472000, rms=0.688 (0.071%), neg=0, invalid=762
- 0016: dt=129.472000, rms=0.687 (0.110%), neg=0, invalid=762
- 0017: dt=129.472000, rms=0.686 (0.141%), neg=0, invalid=762
- 0018: dt=129.472000, rms=0.685 (0.167%), neg=0, invalid=762
- 0019: dt=129.472000, rms=0.684 (0.196%), neg=0, invalid=762
- 0020: dt=129.472000, rms=0.683 (0.218%), neg=0, invalid=762
- 0021: dt=129.472000, rms=0.681 (0.209%), neg=0, invalid=762
- 0022: dt=129.472000, rms=0.680 (0.187%), neg=0, invalid=762
- 0023: dt=129.472000, rms=0.679 (0.166%), neg=0, invalid=762
- 0024: dt=129.472000, rms=0.678 (0.167%), neg=0, invalid=762
- 0025: dt=129.472000, rms=0.676 (0.172%), neg=0, invalid=762
- 0026: dt=129.472000, rms=0.675 (0.154%), neg=0, invalid=762
- 0027: dt=129.472000, rms=0.674 (0.150%), neg=0, invalid=762
- 0028: dt=129.472000, rms=0.673 (0.138%), neg=0, invalid=762
- 0029: dt=129.472000, rms=0.672 (0.142%), neg=0, invalid=762
- 0030: dt=129.472000, rms=0.671 (0.142%), neg=0, invalid=762
- 0031: dt=129.472000, rms=0.671 (0.139%), neg=0, invalid=762
- 0032: dt=129.472000, rms=0.670 (0.129%), neg=0, invalid=762
- 0033: dt=129.472000, rms=0.669 (0.121%), neg=0, invalid=762
- 0034: dt=129.472000, rms=0.668 (0.109%), neg=0, invalid=762
- 0035: dt=517.888000, rms=0.668 (0.038%), neg=0, invalid=762
- 0036: dt=517.888000, rms=0.668 (-0.076%), neg=0, invalid=762
- setting smoothness coefficient to 0.154
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.672, neg=0, invalid=762
- 0037: dt=253.693694, rms=0.659 (1.902%), neg=0, invalid=762
- 0038: dt=126.671855, rms=0.647 (1.724%), neg=0, invalid=762
- 0039: dt=85.049834, rms=0.643 (0.714%), neg=0, invalid=762
- 0040: dt=165.987097, rms=0.639 (0.619%), neg=0, invalid=762
- 0041: dt=74.136646, rms=0.635 (0.615%), neg=0, invalid=762
- 0042: dt=145.152000, rms=0.632 (0.395%), neg=0, invalid=762
- 0043: dt=78.048780, rms=0.630 (0.445%), neg=0, invalid=762
- 0044: dt=102.054054, rms=0.628 (0.254%), neg=0, invalid=762
- 0045: dt=103.680000, rms=0.626 (0.343%), neg=0, invalid=762
- 0046: dt=70.037736, rms=0.625 (0.208%), neg=0, invalid=762
- 0047: dt=70.037736, rms=0.623 (0.222%), neg=0, invalid=762
- 0048: dt=70.037736, rms=0.621 (0.305%), neg=0, invalid=762
- 0049: dt=70.037736, rms=0.619 (0.417%), neg=0, invalid=762
- 0050: dt=70.037736, rms=0.616 (0.436%), neg=0, invalid=762
- 0051: dt=70.037736, rms=0.613 (0.521%), neg=0, invalid=762
- 0052: dt=70.037736, rms=0.610 (0.479%), neg=0, invalid=762
- 0053: dt=70.037736, rms=0.607 (0.441%), neg=0, invalid=762
- 0054: dt=70.037736, rms=0.605 (0.393%), neg=0, invalid=762
- 0055: dt=70.037736, rms=0.602 (0.385%), neg=0, invalid=762
- 0056: dt=70.037736, rms=0.600 (0.360%), neg=0, invalid=762
- 0057: dt=70.037736, rms=0.598 (0.317%), neg=0, invalid=762
- 0058: dt=70.037736, rms=0.597 (0.265%), neg=0, invalid=762
- 0059: dt=70.037736, rms=0.595 (0.251%), neg=0, invalid=762
- 0060: dt=70.037736, rms=0.594 (0.214%), neg=0, invalid=762
- 0061: dt=70.037736, rms=0.593 (0.187%), neg=0, invalid=762
- 0062: dt=70.037736, rms=0.592 (0.150%), neg=0, invalid=762
- 0063: dt=70.037736, rms=0.591 (0.132%), neg=0, invalid=762
- 0064: dt=70.037736, rms=0.591 (0.113%), neg=0, invalid=762
- 0065: dt=70.037736, rms=0.590 (0.101%), neg=0, invalid=762
- 0066: dt=103.680000, rms=0.590 (0.018%), neg=0, invalid=762
- 0067: dt=103.680000, rms=0.590 (0.014%), neg=0, invalid=762
- 0068: dt=103.680000, rms=0.590 (0.025%), neg=0, invalid=762
- 0069: dt=103.680000, rms=0.589 (0.027%), neg=0, invalid=762
- 0070: dt=103.680000, rms=0.589 (0.019%), neg=0, invalid=762
- 0071: dt=103.680000, rms=0.589 (0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.590, neg=0, invalid=762
- 0072: dt=103.680000, rms=0.588 (0.280%), neg=0, invalid=762
- 0073: dt=62.208000, rms=0.588 (0.042%), neg=0, invalid=762
- 0074: dt=62.208000, rms=0.588 (0.004%), neg=0, invalid=762
- 0075: dt=62.208000, rms=0.588 (-0.003%), neg=0, invalid=762
- setting smoothness coefficient to 0.588
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.612, neg=0, invalid=762
- 0076: dt=0.000000, rms=0.611 (0.097%), neg=0, invalid=762
- 0077: dt=0.000000, rms=0.611 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.612, neg=0, invalid=762
- 0078: dt=0.000000, rms=0.611 (0.097%), neg=0, invalid=762
- 0079: dt=0.000000, rms=0.611 (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=0.682, neg=0, invalid=762
- 0080: dt=5.329843, rms=0.661 (3.125%), neg=0, invalid=762
- 0081: dt=2.687500, rms=0.660 (0.150%), neg=0, invalid=762
- 0082: dt=2.687500, rms=0.660 (-0.031%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.660, neg=0, invalid=762
- 0083: dt=0.144000, rms=0.660 (0.064%), neg=0, invalid=762
- 0084: dt=0.144000, rms=0.660 (-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=0.721, neg=0, invalid=762
- 0085: dt=1.536000, rms=0.716 (0.696%), neg=0, invalid=762
- 0086: dt=2.354839, rms=0.708 (1.078%), neg=0, invalid=762
- 0087: dt=0.320000, rms=0.708 (0.033%), neg=0, invalid=762
- 0088: dt=0.320000, rms=0.708 (0.012%), neg=0, invalid=762
- 0089: dt=0.320000, rms=0.708 (-0.010%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.708, neg=0, invalid=762
- 0090: dt=1.024000, rms=0.707 (0.201%), neg=0, invalid=762
- 0091: dt=1.792000, rms=0.705 (0.228%), neg=0, invalid=762
- 0092: dt=1.024000, rms=0.705 (0.034%), neg=0, invalid=762
- 0093: dt=1.024000, rms=0.704 (0.069%), neg=0, invalid=762
- 0094: dt=1.024000, rms=0.704 (0.045%), neg=0, invalid=762
- 0095: dt=1.024000, rms=0.704 (-0.082%), 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=0.676, neg=0, invalid=762
- 0096: dt=0.893898, rms=0.656 (2.919%), neg=0, invalid=762
- 0097: dt=0.080000, rms=0.655 (0.166%), neg=0, invalid=762
- 0098: dt=0.080000, rms=0.655 (-0.073%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.656, neg=0, invalid=762
- 0099: dt=0.028000, rms=0.655 (0.082%), neg=0, invalid=762
- 0100: dt=0.007000, rms=0.655 (0.000%), neg=0, invalid=762
- 0101: dt=0.007000, rms=0.655 (-0.000%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.09014 ( 9)
- Left_Lateral_Ventricle (4): linear fit = 0.41 x + 0.0 (706 voxels, overlap=0.279)
- Left_Lateral_Ventricle (4): linear fit = 0.41 x + 0.0 (706 voxels, peak = 8), gca=8.1
- gca peak = 0.15565 (16)
- mri peak = 0.09686 (12)
- Right_Lateral_Ventricle (43): linear fit = 0.56 x + 0.0 (747 voxels, overlap=0.301)
- Right_Lateral_Ventricle (43): linear fit = 0.56 x + 0.0 (747 voxels, peak = 9), gca=8.9
- gca peak = 0.26829 (96)
- mri peak = 0.09084 (90)
- Right_Pallidum (52): linear fit = 0.93 x + 0.0 (710 voxels, overlap=0.984)
- Right_Pallidum (52): linear fit = 0.93 x + 0.0 (710 voxels, peak = 89), gca=88.8
- gca peak = 0.20183 (93)
- mri peak = 0.07860 (91)
- Left_Pallidum (13): linear fit = 0.95 x + 0.0 (550 voxels, overlap=0.930)
- Left_Pallidum (13): linear fit = 0.95 x + 0.0 (550 voxels, peak = 89), gca=88.8
- gca peak = 0.21683 (55)
- mri peak = 0.08178 (56)
- Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (734 voxels, overlap=0.992)
- Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (734 voxels, peak = 54), gca=54.2
- gca peak = 0.30730 (58)
- mri peak = 0.10919 (56)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (673 voxels, overlap=0.963)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (673 voxels, peak = 55), gca=54.8
- gca peak = 0.11430 (101)
- mri peak = 0.11413 (106)
- Right_Cerebral_White_Matter (41): linear fit = 1.04 x + 0.0 (51135 voxels, overlap=0.619)
- Right_Cerebral_White_Matter (41): linear fit = 1.04 x + 0.0 (51135 voxels, peak = 106), gca=105.5
- gca peak = 0.12076 (102)
- mri peak = 0.09366 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (48720 voxels, overlap=0.719)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (48720 voxels, peak = 107), gca=106.6
- gca peak = 0.14995 (59)
- mri peak = 0.05916 (51)
- Left_Cerebral_Cortex (3): linear fit = 0.87 x + 0.0 (17144 voxels, overlap=0.316)
- Left_Cerebral_Cortex (3): linear fit = 0.87 x + 0.0 (17144 voxels, peak = 51), gca=51.0
- gca peak = 0.15082 (58)
- mri peak = 0.05387 (52)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (18709 voxels, overlap=0.755)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (18709 voxels, peak = 52), gca=51.9
- gca peak = 0.14161 (67)
- mri peak = 0.09024 (64)
- Right_Caudate (50): linear fit = 0.94 x + 0.0 (475 voxels, overlap=0.900)
- Right_Caudate (50): linear fit = 0.94 x + 0.0 (475 voxels, peak = 63), gca=62.6
- gca peak = 0.15243 (71)
- mri peak = 0.09135 (68)
- Left_Caudate (11): linear fit = 0.94 x + 0.0 (831 voxels, overlap=0.764)
- Left_Caudate (11): linear fit = 0.94 x + 0.0 (831 voxels, peak = 67), gca=67.1
- gca peak = 0.13336 (57)
- mri peak = 0.04620 (47)
- Left_Cerebellum_Cortex (8): linear fit = 0.88 x + 0.0 (21398 voxels, overlap=0.680)
- Left_Cerebellum_Cortex (8): linear fit = 0.88 x + 0.0 (21398 voxels, peak = 50), gca=49.9
- gca peak = 0.13252 (56)
- mri peak = 0.05631 (51)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (21700 voxels, overlap=0.962)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (21700 voxels, peak = 53), gca=52.9
- gca peak = 0.18181 (84)
- mri peak = 0.05378 (87)
- Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (5635 voxels, overlap=0.893)
- Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (5635 voxels, peak = 88), gca=87.8
- gca peak = 0.20573 (83)
- mri peak = 0.06749 (83)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (6085 voxels, overlap=0.972)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (6085 voxels, peak = 83), gca=82.6
- gca peak = 0.21969 (57)
- mri peak = 0.09385 (57)
- Left_Amygdala (18): linear fit = 1.02 x + 0.0 (323 voxels, overlap=0.998)
- Left_Amygdala (18): linear fit = 1.02 x + 0.0 (323 voxels, peak = 58), gca=58.4
- gca peak = 0.39313 (56)
- mri peak = 0.11164 (55)
- Right_Amygdala (54): linear fit = 0.96 x + 0.0 (461 voxels, overlap=1.003)
- Right_Amygdala (54): linear fit = 0.96 x + 0.0 (461 voxels, peak = 54), gca=54.0
- gca peak = 0.14181 (85)
- mri peak = 0.06031 (84)
- Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (4619 voxels, overlap=0.986)
- Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (4619 voxels, peak = 83), gca=82.9
- gca peak = 0.11978 (83)
- mri peak = 0.06685 (81)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (3923 voxels, overlap=0.926)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (3923 voxels, peak = 84), gca=84.2
- gca peak = 0.13399 (79)
- mri peak = 0.07050 (72)
- Left_Putamen (12): linear fit = 0.93 x + 0.0 (1961 voxels, overlap=0.848)
- Left_Putamen (12): linear fit = 0.93 x + 0.0 (1961 voxels, peak = 73), gca=73.1
- gca peak = 0.14159 (79)
- mri peak = 0.06136 (70)
- Right_Putamen (51): linear fit = 0.94 x + 0.0 (2068 voxels, overlap=0.889)
- Right_Putamen (51): linear fit = 0.94 x + 0.0 (2068 voxels, peak = 74), gca=73.9
- gca peak = 0.10025 (80)
- mri peak = 0.09540 (81)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (10022 voxels, overlap=0.402)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (10022 voxels, peak = 88), gca=87.6
- gca peak = 0.13281 (86)
- mri peak = 0.06881 (84)
- Right_VentralDC (60): linear fit = 1.09 x + 0.0 (925 voxels, overlap=0.727)
- Right_VentralDC (60): linear fit = 1.09 x + 0.0 (925 voxels, peak = 93), gca=93.3
- gca peak = 0.12801 (89)
- mri peak = 0.07762 (91)
- Left_VentralDC (28): linear fit = 1.02 x + 0.0 (1059 voxels, overlap=0.850)
- Left_VentralDC (28): linear fit = 1.02 x + 0.0 (1059 voxels, peak = 91), gca=91.2
- gca peak = 0.20494 (23)
- mri peak = 0.28571 (53)
- gca peak = 0.15061 (21)
- mri peak = 0.09341 (11)
- Fourth_Ventricle (15): linear fit = 0.62 x + 0.0 (182 voxels, overlap=0.496)
- Fourth_Ventricle (15): linear fit = 0.62 x + 0.0 (182 voxels, peak = 13), gca=12.9
- 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_Accumbens_area = 0.30312 (64)
- gca peak Right_vessel = 0.46315 (51)
- gca peak Right_choroid_plexus = 0.14086 (44)
- gca peak Fifth_Ventricle = 0.51669 (36)
- gca peak WM_hypointensities = 0.09722 (76)
- gca peak non_WM_hypointensities = 0.11899 (47)
- gca peak Optic_Chiasm = 0.39033 (72)
- label assignment complete, 0 changed (0.00%)
- not using caudate to estimate GM means
- estimating mean gm scale to be 0.95 x + 0.0
- estimating mean wm scale to be 1.04 x + 0.0
- estimating mean csf scale to be 0.48 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=0.687, neg=0, invalid=762
- 0102: dt=153.000000, rms=0.683 (0.574%), neg=0, invalid=762
- 0103: dt=295.936000, rms=0.681 (0.370%), neg=0, invalid=762
- 0104: dt=73.984000, rms=0.679 (0.191%), neg=0, invalid=762
- 0105: dt=1183.744000, rms=0.676 (0.523%), neg=0, invalid=762
- 0106: dt=129.472000, rms=0.675 (0.158%), neg=0, invalid=762
- 0107: dt=129.472000, rms=0.675 (0.053%), neg=0, invalid=762
- 0108: dt=369.920000, rms=0.674 (0.091%), neg=0, invalid=762
- 0109: dt=73.984000, rms=0.673 (0.071%), neg=0, invalid=762
- 0110: dt=2071.552000, rms=0.671 (0.382%), neg=0, invalid=762
- 0111: dt=73.984000, rms=0.671 (0.051%), neg=0, invalid=762
- 0112: dt=295.936000, rms=0.670 (0.019%), neg=0, invalid=762
- 0113: dt=295.936000, rms=0.670 (0.043%), neg=0, invalid=762
- 0114: dt=295.936000, rms=0.670 (0.053%), neg=0, invalid=762
- 0115: dt=295.936000, rms=0.669 (0.094%), neg=0, invalid=762
- 0116: dt=295.936000, rms=0.668 (0.111%), neg=0, invalid=762
- 0117: dt=295.936000, rms=0.668 (0.060%), neg=0, invalid=762
- 0118: dt=295.936000, rms=0.667 (0.131%), neg=0, invalid=762
- 0119: dt=295.936000, rms=0.667 (0.072%), neg=0, invalid=762
- 0120: dt=295.936000, rms=0.666 (0.073%), neg=0, invalid=762
- 0121: dt=295.936000, rms=0.666 (0.059%), neg=0, invalid=762
- 0122: dt=295.936000, rms=0.665 (0.109%), neg=0, invalid=762
- 0123: dt=295.936000, rms=0.665 (-0.008%), neg=0, invalid=762
- 0124: dt=32.368000, rms=0.665 (0.007%), neg=0, invalid=762
- 0125: dt=27.744000, rms=0.665 (0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.666, neg=0, invalid=762
- 0126: dt=443.904000, rms=0.664 (0.240%), neg=0, invalid=762
- 0127: dt=129.472000, rms=0.664 (0.059%), neg=0, invalid=762
- 0128: dt=129.472000, rms=0.663 (0.043%), neg=0, invalid=762
- 0129: dt=129.472000, rms=0.663 (0.021%), neg=0, invalid=762
- 0130: dt=129.472000, rms=0.663 (0.036%), neg=0, invalid=762
- 0131: dt=129.472000, rms=0.662 (0.055%), neg=0, invalid=762
- 0132: dt=129.472000, rms=0.662 (0.059%), neg=0, invalid=762
- 0133: dt=129.472000, rms=0.662 (0.061%), neg=0, invalid=762
- 0134: dt=129.472000, rms=0.661 (0.061%), neg=0, invalid=762
- 0135: dt=129.472000, rms=0.661 (0.062%), neg=0, invalid=762
- 0136: dt=129.472000, rms=0.660 (0.067%), neg=0, invalid=762
- 0137: dt=129.472000, rms=0.660 (0.062%), neg=0, invalid=762
- 0138: dt=129.472000, rms=0.660 (0.053%), neg=0, invalid=762
- 0139: dt=129.472000, rms=0.659 (0.045%), neg=0, invalid=762
- 0140: dt=129.472000, rms=0.659 (0.047%), neg=0, invalid=762
- 0141: dt=129.472000, rms=0.659 (0.047%), neg=0, invalid=762
- 0142: dt=129.472000, rms=0.658 (0.046%), neg=0, invalid=762
- 0143: dt=129.472000, rms=0.658 (0.041%), neg=0, invalid=762
- 0144: dt=129.472000, rms=0.658 (0.040%), neg=0, invalid=762
- 0145: dt=129.472000, rms=0.658 (0.040%), neg=0, invalid=762
- 0146: dt=129.472000, rms=0.657 (0.034%), neg=0, invalid=762
- 0147: dt=129.472000, rms=0.657 (0.033%), neg=0, invalid=762
- 0148: dt=129.472000, rms=0.657 (0.032%), neg=0, invalid=762
- 0149: dt=129.472000, rms=0.657 (0.035%), neg=0, invalid=762
- 0150: dt=129.472000, rms=0.657 (0.036%), neg=0, invalid=762
- 0151: dt=129.472000, rms=0.656 (0.034%), neg=0, invalid=762
- 0152: dt=129.472000, rms=0.656 (0.033%), neg=0, invalid=762
- 0153: dt=129.472000, rms=0.656 (0.032%), neg=0, invalid=762
- 0154: dt=129.472000, rms=0.656 (0.033%), neg=0, invalid=762
- 0155: dt=129.472000, rms=0.655 (0.033%), neg=0, invalid=762
- 0156: dt=129.472000, rms=0.655 (0.031%), neg=0, invalid=762
- 0157: dt=129.472000, rms=0.655 (0.029%), neg=0, invalid=762
- 0158: dt=129.472000, rms=0.655 (0.030%), neg=0, invalid=762
- 0159: dt=129.472000, rms=0.655 (0.027%), neg=0, invalid=762
- 0160: dt=129.472000, rms=0.655 (0.026%), neg=0, invalid=762
- 0161: dt=129.472000, rms=0.654 (0.025%), neg=0, invalid=762
- 0162: dt=129.472000, rms=0.654 (0.025%), neg=0, invalid=762
- 0163: dt=129.472000, rms=0.654 (0.027%), neg=0, invalid=762
- 0164: dt=129.472000, rms=0.654 (0.026%), neg=0, invalid=762
- 0165: dt=129.472000, rms=0.654 (0.024%), neg=0, invalid=762
- 0166: dt=129.472000, rms=0.654 (0.024%), neg=0, invalid=762
- 0167: dt=129.472000, rms=0.653 (0.025%), neg=0, invalid=762
- 0168: dt=129.472000, rms=0.653 (0.022%), neg=0, invalid=762
- 0169: dt=129.472000, rms=0.653 (0.020%), neg=0, invalid=762
- 0170: dt=2071.552000, rms=0.653 (0.031%), neg=0, invalid=762
- 0171: dt=32.368000, rms=0.653 (0.005%), neg=0, invalid=762
- 0172: dt=32.368000, rms=0.653 (0.000%), neg=0, invalid=762
- 0173: dt=32.368000, rms=0.653 (-0.001%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.654, neg=0, invalid=762
- 0174: dt=144.533333, rms=0.649 (0.839%), neg=0, invalid=762
- 0175: dt=124.416000, rms=0.643 (0.915%), neg=0, invalid=762
- 0176: dt=65.777778, rms=0.640 (0.476%), neg=0, invalid=762
- 0177: dt=111.030303, rms=0.636 (0.508%), neg=0, invalid=762
- 0178: dt=66.526316, rms=0.634 (0.360%), neg=0, invalid=762
- 0179: dt=91.103203, rms=0.632 (0.376%), neg=0, invalid=762
- 0180: dt=36.288000, rms=0.630 (0.234%), neg=0, invalid=762
- 0181: dt=580.608000, rms=0.620 (1.611%), neg=0, invalid=762
- 0182: dt=62.208000, rms=0.619 (0.243%), neg=0, invalid=762
- 0183: dt=124.416000, rms=0.617 (0.190%), neg=0, invalid=762
- 0184: dt=69.603687, rms=0.616 (0.216%), neg=0, invalid=762
- 0185: dt=82.944000, rms=0.615 (0.128%), neg=0, invalid=762
- 0186: dt=103.680000, rms=0.614 (0.180%), neg=0, invalid=762
- 0187: dt=36.288000, rms=0.613 (0.119%), neg=0, invalid=762
- 0188: dt=580.608000, rms=0.609 (0.746%), neg=0, invalid=762
- 0189: dt=36.288000, rms=0.608 (0.202%), neg=0, invalid=762
- 0190: dt=331.776000, rms=0.606 (0.260%), neg=0, invalid=762
- 0191: dt=36.288000, rms=0.605 (0.185%), neg=0, invalid=762
- 0192: dt=9.072000, rms=0.605 (0.015%), neg=0, invalid=762
- 0193: dt=9.072000, rms=0.605 (0.010%), neg=0, invalid=762
- 0194: dt=2.268000, rms=0.605 (0.001%), neg=0, invalid=762
- 0195: dt=1.134000, rms=0.605 (0.001%), neg=0, invalid=762
- 0196: dt=0.567000, rms=0.605 (0.001%), neg=0, invalid=762
- 0197: dt=0.141750, rms=0.605 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.605, neg=0, invalid=762
- 0198: dt=0.141750, rms=0.605 (0.129%), neg=0, invalid=762
- 0199: dt=0.141750, rms=0.605 (0.001%), neg=0, invalid=762
- 0200: dt=0.002215, rms=0.605 (0.000%), neg=0, invalid=762
- 0201: dt=0.001107, rms=0.605 (-0.000%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.610, neg=0, invalid=762
- 0202: dt=0.000000, rms=0.609 (0.126%), neg=0, invalid=762
- 0203: dt=0.000000, rms=0.609 (0.000%), neg=0, invalid=762
- 0204: dt=0.000122, rms=0.609 (0.000%), neg=0, invalid=762
- 0205: dt=0.000061, rms=0.609 (0.000%), neg=0, invalid=762
- 0206: dt=0.000015, rms=0.609 (0.000%), neg=0, invalid=762
- 0207: dt=0.000008, rms=0.609 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.610, neg=0, invalid=762
- 0208: dt=0.000000, rms=0.609 (0.126%), neg=0, invalid=762
- 0209: dt=0.000000, rms=0.609 (0.000%), neg=0, invalid=762
- 0210: dt=0.250000, rms=0.609 (0.020%), neg=0, invalid=762
- 0211: dt=0.250000, rms=0.609 (0.039%), neg=0, invalid=762
- 0212: dt=0.250000, rms=0.609 (0.054%), neg=0, invalid=762
- 0213: dt=0.250000, rms=0.608 (0.069%), neg=0, invalid=762
- 0214: dt=0.250000, rms=0.608 (0.081%), neg=0, invalid=762
- 0215: dt=0.250000, rms=0.607 (0.092%), neg=0, invalid=762
- 0216: dt=0.250000, rms=0.607 (0.100%), neg=0, invalid=762
- 0217: dt=0.250000, rms=0.606 (0.108%), neg=0, invalid=762
- 0218: dt=0.250000, rms=0.605 (0.114%), neg=0, invalid=762
- 0219: dt=0.250000, rms=0.605 (0.120%), neg=0, invalid=762
- 0220: dt=0.250000, rms=0.604 (0.124%), neg=0, invalid=762
- 0221: dt=0.250000, rms=0.603 (0.127%), neg=0, invalid=762
- 0222: dt=0.250000, rms=0.602 (0.128%), neg=0, invalid=762
- 0223: dt=0.250000, rms=0.602 (0.130%), neg=0, invalid=762
- 0224: dt=0.250000, rms=0.601 (0.134%), neg=0, invalid=762
- 0225: dt=0.250000, rms=0.600 (0.132%), neg=0, invalid=762
- 0226: dt=0.250000, rms=0.599 (0.133%), neg=0, invalid=762
- 0227: dt=0.250000, rms=0.598 (0.132%), neg=0, invalid=762
- 0228: dt=0.250000, rms=0.598 (0.132%), neg=0, invalid=762
- 0229: dt=0.250000, rms=0.597 (0.130%), neg=0, invalid=762
- 0230: dt=0.250000, rms=0.596 (0.131%), neg=0, invalid=762
- 0231: dt=0.250000, rms=0.595 (0.129%), neg=0, invalid=762
- 0232: dt=0.250000, rms=0.594 (0.126%), neg=0, invalid=762
- 0233: dt=0.250000, rms=0.594 (0.128%), neg=0, invalid=762
- 0234: dt=0.250000, rms=0.593 (0.124%), neg=0, invalid=762
- 0235: dt=0.250000, rms=0.592 (0.123%), neg=0, invalid=762
- 0236: dt=0.250000, rms=0.592 (0.120%), neg=0, invalid=762
- 0237: dt=0.125000, rms=0.592 (0.006%), neg=0, invalid=762
- 0238: dt=0.031250, rms=0.592 (0.001%), neg=0, invalid=762
- 0239: dt=0.007812, rms=0.592 (0.000%), neg=0, invalid=762
- 0240: dt=0.000977, rms=0.592 (0.000%), neg=0, invalid=762
- 0241: dt=0.000488, rms=0.592 (0.000%), neg=0, invalid=762
- 0242: dt=0.000031, rms=0.592 (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=0.607, neg=0, invalid=762
- 0243: dt=16.128000, rms=0.574 (5.394%), neg=0, invalid=762
- 0244: dt=11.520000, rms=0.567 (1.202%), neg=0, invalid=762
- 0245: dt=4.032000, rms=0.566 (0.240%), neg=0, invalid=762
- 0246: dt=4.032000, rms=0.565 (0.199%), neg=0, invalid=762
- 0247: dt=4.032000, rms=0.564 (0.174%), neg=0, invalid=762
- 0248: dt=0.015750, rms=0.564 (0.001%), neg=0, invalid=762
- 0249: dt=0.007875, rms=0.564 (0.000%), neg=0, invalid=762
- 0250: dt=0.003938, rms=0.564 (0.000%), neg=0, invalid=762
- 0251: dt=0.001969, rms=0.564 (0.000%), neg=0, invalid=762
- 0252: dt=0.000984, rms=0.564 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.564, neg=0, invalid=762
- 0253: dt=4.032000, rms=0.562 (0.341%), neg=0, invalid=762
- 0254: dt=11.520000, rms=0.560 (0.405%), neg=0, invalid=762
- 0255: dt=16.128000, rms=0.558 (0.358%), neg=0, invalid=762
- 0256: dt=4.032000, rms=0.558 (0.071%), neg=0, invalid=762
- 0257: dt=4.032000, rms=0.557 (0.065%), neg=0, invalid=762
- 0258: dt=1.008000, rms=0.557 (0.014%), neg=0, invalid=762
- 0259: dt=0.063000, rms=0.557 (0.001%), neg=0, invalid=762
- 0260: dt=0.003938, rms=0.557 (0.000%), neg=0, invalid=762
- 0261: dt=0.000984, rms=0.557 (0.000%), neg=0, invalid=762
- 0262: dt=0.000703, rms=0.557 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.579, neg=0, invalid=762
- 0263: dt=0.000000, rms=0.578 (0.118%), neg=0, invalid=762
- 0264: dt=0.000000, rms=0.578 (0.000%), neg=0, invalid=762
- 0265: dt=0.100000, rms=0.578 (-0.094%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.579, neg=0, invalid=762
- 0266: dt=0.000000, rms=0.578 (0.118%), neg=0, invalid=762
- 0267: dt=0.000000, rms=0.578 (0.000%), neg=0, invalid=762
- 0268: dt=0.100000, rms=0.578 (-0.075%), 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=0.543, neg=0, invalid=762
- 0269: dt=0.384000, rms=0.529 (2.574%), neg=0, invalid=762
- 0270: dt=0.320000, rms=0.525 (0.755%), neg=0, invalid=762
- 0271: dt=0.320000, rms=0.523 (0.446%), neg=0, invalid=762
- 0272: dt=0.320000, rms=0.522 (0.298%), neg=0, invalid=762
- 0273: dt=0.320000, rms=0.520 (0.214%), neg=0, invalid=762
- 0274: dt=0.320000, rms=0.520 (0.170%), neg=0, invalid=762
- 0275: dt=0.320000, rms=0.519 (0.136%), neg=0, invalid=762
- 0276: dt=0.320000, rms=0.518 (0.114%), neg=0, invalid=762
- 0277: dt=0.333333, rms=0.518 (0.094%), neg=0, invalid=762
- 0278: dt=0.384000, rms=0.517 (0.097%), neg=0, invalid=762
- 0279: dt=0.384000, rms=0.517 (0.079%), neg=0, invalid=762
- 0280: dt=0.384000, rms=0.517 (0.072%), neg=0, invalid=762
- 0281: dt=0.384000, rms=0.516 (0.056%), neg=0, invalid=762
- 0282: dt=0.384000, rms=0.516 (0.052%), neg=0, invalid=762
- 0283: dt=0.384000, rms=0.516 (0.046%), neg=0, invalid=762
- 0284: dt=0.384000, rms=0.516 (0.038%), neg=0, invalid=762
- 0285: dt=0.384000, rms=0.515 (0.073%), neg=0, invalid=762
- 0286: dt=0.192000, rms=0.515 (0.016%), neg=0, invalid=762
- 0287: dt=0.192000, rms=0.515 (0.021%), neg=0, invalid=762
- 0288: dt=0.192000, rms=0.515 (0.031%), neg=0, invalid=762
- 0289: dt=0.192000, rms=0.515 (0.032%), neg=0, invalid=762
- 0290: dt=0.192000, rms=0.514 (0.042%), neg=0, invalid=762
- 0291: dt=0.192000, rms=0.514 (0.047%), neg=0, invalid=762
- 0292: dt=0.192000, rms=0.514 (0.044%), neg=0, invalid=762
- 0293: dt=0.192000, rms=0.514 (0.044%), neg=0, invalid=762
- 0294: dt=0.192000, rms=0.514 (0.043%), neg=0, invalid=762
- 0295: dt=0.192000, rms=0.513 (0.037%), neg=0, invalid=762
- 0296: dt=0.192000, rms=0.513 (0.033%), neg=0, invalid=762
- 0297: dt=0.192000, rms=0.513 (0.027%), neg=0, invalid=762
- 0298: dt=0.192000, rms=0.513 (0.021%), neg=0, invalid=762
- 0299: dt=0.192000, rms=0.513 (-0.004%), neg=0, invalid=762
- 0300: dt=0.000000, rms=0.513 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.514, neg=0, invalid=762
- 0301: dt=0.320000, rms=0.509 (0.836%), neg=0, invalid=762
- 0302: dt=0.320000, rms=0.508 (0.229%), neg=0, invalid=762
- 0303: dt=0.320000, rms=0.508 (0.075%), neg=0, invalid=762
- 0304: dt=0.320000, rms=0.508 (0.019%), neg=0, invalid=762
- 0305: dt=0.320000, rms=0.508 (0.006%), neg=0, invalid=762
- 0306: dt=0.320000, rms=0.508 (-0.002%), 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=0.506, neg=0, invalid=762
- 0307: dt=0.000000, rms=0.505 (0.160%), neg=0, invalid=762
- 0308: dt=0.000000, rms=0.505 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.506, neg=0, invalid=762
- 0309: dt=221.952000, rms=0.505 (0.214%), neg=0, invalid=762
- 0310: dt=32.368000, rms=0.505 (0.004%), neg=0, invalid=762
- 0311: dt=32.368000, rms=0.505 (0.002%), neg=0, invalid=762
- 0312: dt=32.368000, rms=0.505 (0.001%), neg=0, invalid=762
- 0313: dt=32.368000, rms=0.505 (0.005%), neg=0, invalid=762
- 0314: dt=32.368000, rms=0.505 (0.010%), neg=0, invalid=762
- 0315: dt=32.368000, rms=0.505 (0.015%), neg=0, invalid=762
- 0316: dt=32.368000, rms=0.504 (0.014%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.505, neg=0, invalid=762
- 0317: dt=36.288000, rms=0.504 (0.231%), neg=0, invalid=762
- 0318: dt=36.288000, rms=0.504 (0.040%), neg=0, invalid=762
- 0319: dt=36.288000, rms=0.504 (0.016%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 1 iterations, nbhd size=0, neg = 0
- 0320: dt=36.288000, rms=0.504 (-0.011%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.505, neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0321: dt=103.680000, rms=0.502 (0.558%), neg=0, invalid=762
- 0322: dt=36.288000, rms=0.501 (0.150%), neg=0, invalid=762
- 0323: dt=36.288000, rms=0.501 (0.074%), neg=0, invalid=762
- 0324: dt=36.288000, rms=0.500 (0.100%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 2 iterations, nbhd size=0, neg = 0
- 0325: dt=36.288000, rms=0.500 (0.134%), neg=0, invalid=762
- 0326: dt=36.288000, rms=0.499 (0.122%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 0 iterations, nbhd size=0, neg = 0
- 0327: dt=36.288000, rms=0.498 (0.144%), neg=0, invalid=762
- 0328: dt=36.288000, rms=0.498 (0.122%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0329: dt=36.288000, rms=0.497 (0.101%), neg=0, invalid=762
- 0330: dt=36.288000, rms=0.497 (0.015%), neg=0, invalid=762
- 0331: dt=36.288000, rms=0.497 (0.016%), neg=0, invalid=762
- 0332: dt=36.288000, rms=0.497 (0.027%), neg=0, invalid=762
- 0333: dt=36.288000, rms=0.497 (0.034%), neg=0, invalid=762
- 0334: dt=36.288000, rms=0.496 (0.041%), neg=0, invalid=762
- 0335: dt=36.288000, rms=0.496 (0.050%), neg=0, invalid=762
- 0336: dt=36.288000, rms=0.496 (0.054%), neg=0, invalid=762
- 0337: dt=36.288000, rms=0.496 (0.056%), neg=0, invalid=762
- 0338: dt=36.288000, rms=0.495 (0.057%), neg=0, invalid=762
- 0339: dt=36.288000, rms=0.495 (0.056%), neg=0, invalid=762
- 0340: dt=36.288000, rms=0.495 (0.063%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0341: dt=36.288000, rms=0.495 (0.058%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.496, neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 1 iterations, nbhd size=0, neg = 0
- 0342: dt=32.000000, rms=0.493 (0.540%), neg=0, invalid=762
- iter 0, gcam->neg = 16
- after 4 iterations, nbhd size=0, neg = 0
- 0343: dt=82.793651, rms=0.491 (0.457%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0344: dt=19.836735, rms=0.489 (0.331%), neg=0, invalid=762
- iter 0, gcam->neg = 10
- after 10 iterations, nbhd size=1, neg = 0
- 0345: dt=82.400000, rms=0.488 (0.324%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 2 iterations, nbhd size=0, neg = 0
- 0346: dt=29.148515, rms=0.486 (0.308%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 14 iterations, nbhd size=1, neg = 0
- 0347: dt=44.800000, rms=0.485 (0.202%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 9 iterations, nbhd size=1, neg = 0
- 0348: dt=44.800000, rms=0.485 (-0.035%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.486, neg=0, invalid=762
- 0349: dt=44.424908, rms=0.481 (1.005%), neg=0, invalid=762
- 0350: dt=25.600000, rms=0.480 (0.376%), neg=0, invalid=762
- 0351: dt=25.600000, rms=0.479 (0.199%), neg=0, invalid=762
- 0352: dt=25.600000, rms=0.478 (0.123%), neg=0, invalid=762
- 0353: dt=25.600000, rms=0.477 (0.238%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0354: dt=25.600000, rms=0.476 (0.217%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 1 iterations, nbhd size=0, neg = 0
- 0355: dt=25.600000, rms=0.475 (0.262%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0356: dt=25.600000, rms=0.474 (0.169%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 7 iterations, nbhd size=1, neg = 0
- 0357: dt=25.600000, rms=0.473 (0.268%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 1 iterations, nbhd size=0, neg = 0
- 0358: dt=25.600000, rms=0.472 (0.176%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0359: dt=25.600000, rms=0.470 (0.287%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 2 iterations, nbhd size=0, neg = 0
- 0360: dt=25.600000, rms=0.470 (0.170%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 5 iterations, nbhd size=0, neg = 0
- 0361: dt=25.600000, rms=0.468 (0.246%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0362: dt=25.600000, rms=0.468 (0.126%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0363: dt=25.600000, rms=0.467 (0.217%), neg=0, invalid=762
- 0364: dt=25.600000, rms=0.466 (0.100%), neg=0, invalid=762
- 0365: dt=25.600000, rms=0.466 (0.151%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 4 iterations, nbhd size=0, neg = 0
- 0366: dt=25.600000, rms=0.465 (0.042%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 2 iterations, nbhd size=0, neg = 0
- 0367: dt=25.600000, rms=0.465 (0.125%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0368: dt=25.600000, rms=0.465 (0.055%), neg=0, invalid=762
- 0369: dt=11.200000, rms=0.464 (0.066%), neg=0, invalid=762
- 0370: dt=11.200000, rms=0.464 (0.019%), neg=0, invalid=762
- 0371: dt=11.200000, rms=0.464 (0.005%), neg=0, invalid=762
- 0372: dt=11.200000, rms=0.464 (0.007%), neg=0, invalid=762
- 0373: dt=11.200000, rms=0.464 (0.007%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0374: dt=11.200000, rms=0.464 (0.008%), neg=0, invalid=762
- 0375: dt=11.200000, rms=0.464 (0.009%), neg=0, invalid=762
- 0376: dt=11.200000, rms=0.464 (0.004%), neg=0, invalid=762
- 0377: dt=11.200000, rms=0.464 (0.005%), neg=0, invalid=762
- 0378: dt=11.200000, rms=0.464 (0.006%), neg=0, invalid=762
- 0379: dt=11.200000, rms=0.464 (0.004%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.471, neg=0, invalid=762
- 0380: dt=0.000000, rms=0.470 (0.193%), neg=0, invalid=762
- 0381: dt=0.000000, rms=0.470 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.471, neg=0, invalid=762
- 0382: dt=0.000000, rms=0.470 (0.193%), neg=0, invalid=762
- 0383: dt=0.000000, rms=0.470 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.484, neg=0, invalid=762
- 0384: dt=1.024000, rms=0.482 (0.345%), neg=0, invalid=762
- 0385: dt=0.112000, rms=0.482 (0.002%), neg=0, invalid=762
- 0386: dt=0.112000, rms=0.482 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.483, neg=0, invalid=762
- 0387: dt=1.024000, rms=0.481 (0.300%), neg=0, invalid=762
- 0388: dt=0.384000, rms=0.481 (0.008%), neg=0, invalid=762
- 0389: dt=0.384000, rms=0.481 (-0.004%), 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=0.470, neg=0, invalid=762
- iter 0, gcam->neg = 1130
- after 14 iterations, nbhd size=1, neg = 0
- 0390: dt=2.259615, rms=0.437 (6.967%), neg=0, invalid=762
- 0391: dt=0.096000, rms=0.437 (0.081%), neg=0, invalid=762
- 0392: dt=0.096000, rms=0.437 (-0.074%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.438, neg=0, invalid=762
- 0393: dt=0.080000, rms=0.436 (0.282%), neg=0, invalid=762
- 0394: dt=0.001750, rms=0.436 (0.004%), neg=0, invalid=762
- 0395: dt=0.001750, rms=0.436 (0.000%), neg=0, invalid=762
- 0396: dt=0.001750, rms=0.436 (-0.000%), 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=0.422, neg=0, invalid=762
- 0397: dt=0.000000, rms=0.422 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.422, neg=0, invalid=762
- 0398: dt=0.000000, rms=0.422 (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=0.422, neg=0, invalid=762
- 0399: dt=0.000000, rms=0.422 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.422, neg=0, invalid=762
- 0400: dt=31.104000, rms=0.422 (0.020%), neg=0, invalid=762
- 0401: dt=82.944000, rms=0.422 (0.022%), neg=0, invalid=762
- 0402: dt=145.152000, rms=0.422 (0.059%), neg=0, invalid=762
- 0403: dt=9.072000, rms=0.422 (0.000%), neg=0, invalid=762
- 0404: dt=9.072000, rms=0.422 (0.000%), neg=0, invalid=762
- 0405: dt=9.072000, rms=0.422 (0.000%), neg=0, invalid=762
- 0406: dt=9.072000, rms=0.422 (-0.000%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.422, neg=0, invalid=762
- 0407: dt=11.200000, rms=0.422 (0.061%), neg=0, invalid=762
- 0408: dt=4.800000, rms=0.422 (0.007%), neg=0, invalid=762
- 0409: dt=4.800000, rms=0.422 (0.001%), neg=0, invalid=762
- 0410: dt=4.800000, rms=0.422 (-0.017%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.422, neg=0, invalid=762
- 0411: dt=44.800000, rms=0.420 (0.509%), neg=0, invalid=762
- 0412: dt=32.000000, rms=0.419 (0.201%), neg=0, invalid=762
- 0413: dt=32.000000, rms=0.419 (0.120%), neg=0, invalid=762
- 0414: dt=32.000000, rms=0.418 (0.224%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0415: dt=32.000000, rms=0.417 (0.240%), neg=0, invalid=762
- 0416: dt=32.000000, rms=0.416 (0.208%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 0 iterations, nbhd size=0, neg = 0
- 0417: dt=32.000000, rms=0.415 (0.154%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 6 iterations, nbhd size=1, neg = 0
- 0418: dt=32.000000, rms=0.414 (0.173%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 2 iterations, nbhd size=0, neg = 0
- 0419: dt=32.000000, rms=0.414 (0.155%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 11 iterations, nbhd size=1, neg = 0
- 0420: dt=32.000000, rms=0.413 (0.116%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 8 iterations, nbhd size=1, neg = 0
- 0421: dt=32.000000, rms=0.413 (0.085%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0422: dt=25.600000, rms=0.413 (0.056%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 5 iterations, nbhd size=0, neg = 0
- 0423: dt=25.600000, rms=0.413 (0.006%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0424: dt=25.600000, rms=0.413 (0.008%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 1 iterations, nbhd size=0, neg = 0
- 0425: dt=25.600000, rms=0.413 (0.029%), neg=0, invalid=762
- iter 0, gcam->neg = 11
- after 2 iterations, nbhd size=0, neg = 0
- 0426: dt=25.600000, rms=0.413 (-0.005%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.417, neg=0, invalid=762
- 0427: dt=0.864000, rms=0.417 (0.003%), neg=0, invalid=762
- 0428: dt=0.180000, rms=0.417 (0.000%), neg=0, invalid=762
- 0429: dt=0.180000, rms=0.417 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.417, neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 0 iterations, nbhd size=0, neg = 0
- 0430: dt=4.032000, rms=0.417 (0.048%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0431: dt=5.000000, rms=0.416 (0.026%), neg=0, invalid=762
- 0432: dt=5.000000, rms=0.416 (0.013%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 2 iterations, nbhd size=0, neg = 0
- 0433: dt=5.000000, rms=0.416 (-0.018%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.423, neg=0, invalid=762
- 0434: dt=0.000000, rms=0.423 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.423, neg=0, invalid=762
- 0435: dt=0.000000, rms=0.423 (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=0.412, neg=0, invalid=762
- iter 0, gcam->neg = 770
- after 17 iterations, nbhd size=1, neg = 0
- 0436: dt=1.347544, rms=0.402 (2.375%), neg=0, invalid=762
- 0437: dt=0.000013, rms=0.402 (0.000%), neg=0, invalid=762
- 0438: dt=0.000013, rms=0.402 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.402, neg=0, invalid=762
- 0439: dt=0.080000, rms=0.402 (0.043%), neg=0, invalid=762
- 0440: dt=0.028000, rms=0.402 (0.005%), neg=0, invalid=762
- 0441: dt=0.028000, rms=0.402 (0.002%), neg=0, invalid=762
- 0442: dt=0.028000, rms=0.402 (-0.009%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 2 hours, 59 minutes and 21 seconds.
- mri_ca_register utimesec 11995.645384
- mri_ca_register stimesec 8.253745
- mri_ca_register ru_maxrss 1341088
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 4154384
- mri_ca_register ru_majflt 0
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 0
- mri_ca_register ru_oublock 63464
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 4168
- mri_ca_register ru_nivcsw 38039
- FSRUNTIME@ mri_ca_register 2.9892 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Sun Oct 8 00:53:16 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-116
- 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-6.0.0/0051266/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 6.45
- 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 = 0.07306 (10)
- Left_Lateral_Ventricle (4): linear fit = 0.50 x + 0.0 (691 voxels, overlap=0.393)
- Left_Lateral_Ventricle (4): linear fit = 0.50 x + 0.0 (691 voxels, peak = 10), gca=9.9
- gca peak = 0.17677 (13)
- mri peak = 0.08479 ( 9)
- Right_Lateral_Ventricle (43): linear fit = 0.47 x + 0.0 (1063 voxels, overlap=0.585)
- Right_Lateral_Ventricle (43): linear fit = 0.47 x + 0.0 (1063 voxels, peak = 6), gca=6.2
- gca peak = 0.28129 (95)
- mri peak = 0.09746 (93)
- Right_Pallidum (52): linear fit = 0.95 x + 0.0 (698 voxels, overlap=1.016)
- Right_Pallidum (52): linear fit = 0.95 x + 0.0 (698 voxels, peak = 91), gca=90.7
- gca peak = 0.16930 (96)
- mri peak = 0.10201 (94)
- Left_Pallidum (13): linear fit = 0.95 x + 0.0 (598 voxels, overlap=0.978)
- Left_Pallidum (13): linear fit = 0.95 x + 0.0 (598 voxels, peak = 92), gca=91.7
- gca peak = 0.24553 (55)
- mri peak = 0.08425 (57)
- Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (957 voxels, overlap=1.008)
- Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (957 voxels, peak = 54), gca=54.2
- gca peak = 0.30264 (59)
- mri peak = 0.11354 (55)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (866 voxels, overlap=1.009)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (866 voxels, peak = 55), gca=55.2
- gca peak = 0.07580 (103)
- mri peak = 0.12465 (106)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (35378 voxels, overlap=0.597)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (35378 voxels, peak = 106), gca=105.6
- gca peak = 0.07714 (104)
- mri peak = 0.09868 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (34486 voxels, overlap=0.659)
- Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (34486 voxels, peak = 106), gca=105.6
- gca peak = 0.09712 (58)
- mri peak = 0.06114 (53)
- Left_Cerebral_Cortex (3): linear fit = 0.86 x + 0.0 (26552 voxels, overlap=0.456)
- Left_Cerebral_Cortex (3): linear fit = 0.86 x + 0.0 (26552 voxels, peak = 50), gca=49.6
- gca peak = 0.11620 (58)
- mri peak = 0.05794 (52)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (26994 voxels, overlap=0.777)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (26994 voxels, peak = 52), gca=51.9
- gca peak = 0.30970 (66)
- mri peak = 0.09444 (67)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (895 voxels, overlap=1.008)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (895 voxels, peak = 66), gca=66.0
- gca peak = 0.15280 (69)
- mri peak = 0.09518 (67)
- Left_Caudate (11): linear fit = 0.93 x + 0.0 (872 voxels, overlap=0.591)
- Left_Caudate (11): linear fit = 0.93 x + 0.0 (872 voxels, peak = 64), gca=63.8
- gca peak = 0.13902 (56)
- mri peak = 0.04987 (51)
- Left_Cerebellum_Cortex (8): linear fit = 0.89 x + 0.0 (18826 voxels, overlap=0.925)
- Left_Cerebellum_Cortex (8): linear fit = 0.89 x + 0.0 (18826 voxels, peak = 50), gca=50.1
- gca peak = 0.14777 (55)
- mri peak = 0.05637 (51)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (19572 voxels, overlap=0.988)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (19572 voxels, peak = 52), gca=52.0
- gca peak = 0.16765 (84)
- mri peak = 0.07349 (87)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (4434 voxels, overlap=0.937)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (4434 voxels, peak = 86), gca=86.1
- gca peak = 0.18739 (84)
- mri peak = 0.07664 (83)
- Right_Cerebellum_White_Matter (46): linear fit = 0.99 x + 0.0 (4756 voxels, overlap=0.968)
- Right_Cerebellum_White_Matter (46): linear fit = 0.99 x + 0.0 (4756 voxels, peak = 83), gca=82.7
- gca peak = 0.29869 (57)
- mri peak = 0.09320 (59)
- Left_Amygdala (18): linear fit = 1.00 x + 0.0 (440 voxels, overlap=1.020)
- Left_Amygdala (18): linear fit = 1.00 x + 0.0 (440 voxels, peak = 57), gca=57.0
- gca peak = 0.33601 (57)
- mri peak = 0.08405 (55)
- Right_Amygdala (54): linear fit = 1.01 x + 0.0 (613 voxels, overlap=1.021)
- Right_Amygdala (54): linear fit = 1.01 x + 0.0 (613 voxels, peak = 58), gca=57.9
- gca peak = 0.11131 (90)
- mri peak = 0.07452 (84)
- Left_Thalamus_Proper (10): linear fit = 0.94 x + 0.0 (4271 voxels, overlap=0.915)
- Left_Thalamus_Proper (10): linear fit = 0.94 x + 0.0 (4271 voxels, peak = 85), gca=85.1
- gca peak = 0.11793 (83)
- mri peak = 0.06764 (85)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4011 voxels, overlap=0.978)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (4011 voxels, peak = 84), gca=84.2
- gca peak = 0.08324 (81)
- mri peak = 0.07885 (72)
- Left_Putamen (12): linear fit = 0.93 x + 0.0 (1889 voxels, overlap=0.639)
- Left_Putamen (12): linear fit = 0.93 x + 0.0 (1889 voxels, peak = 75), gca=74.9
- gca peak = 0.10360 (77)
- mri peak = 0.06639 (70)
- Right_Putamen (51): linear fit = 0.93 x + 0.0 (2023 voxels, overlap=0.690)
- Right_Putamen (51): linear fit = 0.93 x + 0.0 (2023 voxels, peak = 71), gca=71.2
- gca peak = 0.08424 (78)
- mri peak = 0.09634 (81)
- Brain_Stem (16): linear fit = 1.05 x + 0.0 (9527 voxels, overlap=0.476)
- Brain_Stem (16): linear fit = 1.05 x + 0.0 (9527 voxels, peak = 82), gca=82.3
- gca peak = 0.12631 (89)
- mri peak = 0.05851 (84)
- Right_VentralDC (60): linear fit = 1.10 x + 0.0 (1124 voxels, overlap=0.829)
- Right_VentralDC (60): linear fit = 1.10 x + 0.0 (1124 voxels, peak = 97), gca=97.5
- gca peak = 0.14500 (87)
- mri peak = 0.07716 (89)
- Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1287 voxels, overlap=0.916)
- Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1287 voxels, peak = 90), gca=90.0
- gca peak = 0.14975 (24)
- mri peak = 0.06651 (37)
- gca peak = 0.19357 (14)
- mri peak = 0.14233 (11)
- Fourth_Ventricle (15): linear fit = 0.74 x + 0.0 (121 voxels, overlap=0.646)
- Fourth_Ventricle (15): linear fit = 0.74 x + 0.0 (121 voxels, peak = 10), gca=10.3
- 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 0.95 x + 0.0
- estimating mean wm scale to be 1.02 x + 0.0
- estimating mean csf scale to be 0.57 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.28806 (10)
- mri peak = 0.07306 (10)
- Left_Lateral_Ventricle (4): linear fit = 1.15 x + 0.0 (691 voxels, overlap=1.000)
- Left_Lateral_Ventricle (4): linear fit = 1.15 x + 0.0 (691 voxels, peak = 12), gca=11.5
- gca peak = 0.30007 ( 6)
- mri peak = 0.08479 ( 9)
- Right_Lateral_Ventricle (43): linear fit = 1.26 x + 0.0 (1063 voxels, overlap=0.994)
- Right_Lateral_Ventricle (43): linear fit = 1.26 x + 0.0 (1063 voxels, peak = 8), gca=7.6
- gca peak = 0.26347 (90)
- mri peak = 0.09746 (93)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (698 voxels, overlap=1.008)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (698 voxels, peak = 90), gca=89.6
- gca peak = 0.18652 (92)
- mri peak = 0.10201 (94)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (598 voxels, overlap=1.007)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (598 voxels, peak = 92), gca=91.5
- gca peak = 0.30589 (55)
- mri peak = 0.08425 (57)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (957 voxels, overlap=1.008)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (957 voxels, peak = 55), gca=55.0
- gca peak = 0.26634 (53)
- mri peak = 0.11354 (55)
- Left_Hippocampus (17): linear fit = 0.98 x + 0.0 (866 voxels, overlap=1.007)
- Left_Hippocampus (17): linear fit = 0.98 x + 0.0 (866 voxels, peak = 52), gca=51.7
- gca peak = 0.07615 (105)
- mri peak = 0.12465 (106)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (35378 voxels, overlap=0.704)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (35378 voxels, peak = 105), gca=105.0
- gca peak = 0.07820 (106)
- mri peak = 0.09868 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (34486 voxels, overlap=0.724)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (34486 voxels, peak = 106), gca=106.0
- gca peak = 0.11331 (50)
- mri peak = 0.06114 (53)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (26552 voxels, overlap=0.998)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (26552 voxels, peak = 50), gca=50.0
- gca peak = 0.12876 (52)
- mri peak = 0.05794 (52)
- Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (26994 voxels, overlap=0.998)
- Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (26994 voxels, peak = 51), gca=51.2
- gca peak = 0.30222 (66)
- mri peak = 0.09444 (67)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (895 voxels, overlap=1.010)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (895 voxels, peak = 66), gca=66.0
- gca peak = 0.13199 (64)
- mri peak = 0.09518 (67)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (872 voxels, overlap=0.999)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (872 voxels, peak = 64), gca=64.0
- gca peak = 0.16013 (50)
- mri peak = 0.04987 (51)
- Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (18826 voxels, overlap=0.999)
- Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (18826 voxels, peak = 50), gca=50.0
- gca peak = 0.15463 (52)
- mri peak = 0.05637 (51)
- Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (19572 voxels, overlap=0.998)
- Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (19572 voxels, peak = 52), gca=52.0
- gca peak = 0.15784 (86)
- mri peak = 0.07349 (87)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4434 voxels, overlap=0.975)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4434 voxels, peak = 86), gca=85.6
- gca peak = 0.17022 (83)
- mri peak = 0.07664 (83)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4756 voxels, overlap=0.942)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4756 voxels, peak = 83), gca=82.6
- gca peak = 0.29815 (57)
- mri peak = 0.09320 (59)
- Left_Amygdala (18): linear fit = 1.01 x + 0.0 (440 voxels, overlap=1.008)
- Left_Amygdala (18): linear fit = 1.01 x + 0.0 (440 voxels, peak = 58), gca=57.9
- gca peak = 0.38908 (58)
- mri peak = 0.08405 (55)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (613 voxels, overlap=1.018)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (613 voxels, peak = 58), gca=58.0
- gca peak = 0.11475 (85)
- mri peak = 0.07452 (84)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (4271 voxels, overlap=0.941)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (4271 voxels, peak = 85), gca=84.6
- gca peak = 0.10950 (82)
- mri peak = 0.06764 (85)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (4011 voxels, overlap=0.984)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (4011 voxels, peak = 82), gca=81.6
- gca peak = 0.09421 (70)
- mri peak = 0.07885 (72)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1889 voxels, overlap=0.892)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1889 voxels, peak = 70), gca=70.0
- gca peak = 0.09183 (69)
- mri peak = 0.06639 (70)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (2023 voxels, overlap=0.999)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (2023 voxels, peak = 69), gca=69.0
- gca peak = 0.07793 (85)
- mri peak = 0.09634 (81)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (9527 voxels, overlap=0.711)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (9527 voxels, peak = 85), gca=84.6
- gca peak = 0.11313 (96)
- mri peak = 0.05851 (84)
- Right_VentralDC (60): linear fit = 0.95 x + 0.0 (1124 voxels, overlap=0.935)
- Right_VentralDC (60): linear fit = 0.95 x + 0.0 (1124 voxels, peak = 92), gca=91.7
- gca peak = 0.15800 (88)
- mri peak = 0.07716 (89)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1287 voxels, overlap=0.954)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1287 voxels, peak = 88), gca=87.6
- gca peak = 0.25218 (15)
- mri peak = 0.06651 (37)
- gca peak = 0.22767 (12)
- mri peak = 0.14233 (11)
- Fourth_Ventricle (15): linear fit = 0.83 x + 0.0 (121 voxels, overlap=0.854)
- Fourth_Ventricle (15): linear fit = 0.83 x + 0.0 (121 voxels, peak = 10), gca=10.0
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16512 (30)
- gca peak Left_Thalamus = 1.00000 (89)
- gca peak Third_Ventricle = 0.25218 (15)
- gca peak CSF = 0.26361 (21)
- gca peak Left_Accumbens_area = 0.54646 (57)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.70074 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.25040 (23)
- gca peak Right_Accumbens_area = 0.43037 (65)
- gca peak Right_vessel = 0.81794 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.89470 (18)
- gca peak WM_hypointensities = 0.07138 (78)
- gca peak non_WM_hypointensities = 0.08683 (44)
- gca peak Optic_Chiasm = 0.71086 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.00 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 1.09 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
- 65586 voxels changed in iteration 0 of unlikely voxel relabeling
- 189 voxels changed in iteration 1 of unlikely voxel relabeling
- 0 voxels changed in iteration 2 of unlikely voxel relabeling
- 24572 gm and wm labels changed (%28 to gray, %72 to white out of all changed labels)
- 387 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 71802 changed. image ll: -2.109, PF=0.500
- pass 2: 20559 changed. image ll: -2.109, PF=0.500
- pass 3: 6756 changed.
- pass 4: 2536 changed.
- 32949 voxels changed in iteration 0 of unlikely voxel relabeling
- 111 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
- 5468 voxels changed in iteration 0 of unlikely voxel relabeling
- 73 voxels changed in iteration 1 of unlikely voxel relabeling
- 19 voxels changed in iteration 2 of unlikely voxel relabeling
- 1 voxels changed in iteration 3 of unlikely voxel relabeling
- 0 voxels changed in iteration 4 of unlikely voxel relabeling
- 5004 voxels changed in iteration 0 of unlikely voxel relabeling
- 38 voxels changed in iteration 1 of unlikely voxel relabeling
- 0 voxels changed in iteration 2 of unlikely voxel relabeling
- 4178 voxels changed in iteration 0 of unlikely voxel relabeling
- 14 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
- MRItoUCHAR: min=0, max=85
- MRItoUCHAR: converting to UCHAR
- writing labeled volume to aseg.auto_noCCseg.mgz
- mri_ca_label utimesec 3622.243335
- mri_ca_label stimesec 11.728217
- mri_ca_label ru_maxrss 2125404
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 733270
- mri_ca_label ru_majflt 0
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 63456
- mri_ca_label ru_oublock 480
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 285
- mri_ca_label ru_nivcsw 5617
- auto-labeling took 59 minutes and 48 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/transforms/cc_up.lta 0051266
- 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-6.0.0/0051266/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/norm.mgz
- 143945 voxels in left wm, 167907 in right wm, xrange [109, 140]
- searching rotation angles z=[-5 9], y=[ 3 17]
-
searching scale 1 Z rot -5.0
searching scale 1 Z rot -4.8
searching scale 1 Z rot -4.5
searching scale 1 Z rot -4.3
searching scale 1 Z rot -4.0
searching scale 1 Z rot -3.8
searching scale 1 Z rot -3.5
searching scale 1 Z rot -3.3
searching scale 1 Z rot -3.0
searching scale 1 Z rot -2.8
searching scale 1 Z rot -2.5
searching scale 1 Z rot -2.3
searching scale 1 Z rot -2.0
searching scale 1 Z rot -1.8
searching scale 1 Z rot -1.5
searching scale 1 Z rot -1.3
searching scale 1 Z rot -1.0
searching scale 1 Z rot -0.8
searching scale 1 Z rot -0.5
searching scale 1 Z rot -0.3
searching scale 1 Z rot -0.0
searching scale 1 Z rot 0.2
searching scale 1 Z rot 0.5
searching scale 1 Z rot 0.7
searching scale 1 Z rot 1.0
searching scale 1 Z rot 1.2
searching scale 1 Z rot 1.5
searching scale 1 Z rot 1.7
searching scale 1 Z rot 2.0
searching scale 1 Z rot 2.2
searching scale 1 Z rot 2.5
searching scale 1 Z rot 2.7
searching scale 1 Z rot 3.0
searching scale 1 Z rot 3.2
searching scale 1 Z rot 3.5
searching scale 1 Z rot 3.7
searching scale 1 Z rot 4.0
searching scale 1 Z rot 4.2
searching scale 1 Z rot 4.5
searching scale 1 Z rot 4.7
searching scale 1 Z rot 5.0
searching scale 1 Z rot 5.2
searching scale 1 Z rot 5.5
searching scale 1 Z rot 5.7
searching scale 1 Z rot 6.0
searching scale 1 Z rot 6.2
searching scale 1 Z rot 6.5
searching scale 1 Z rot 6.7
searching scale 1 Z rot 7.0
searching scale 1 Z rot 7.2
searching scale 1 Z rot 7.5
searching scale 1 Z rot 7.7
searching scale 1 Z rot 8.0
searching scale 1 Z rot 8.2
searching scale 1 Z rot 8.5
searching scale 1 Z rot 8.7
searching scale 1 Z rot 9.0
searching scale 1 Z rot 9.2
searching scale 1 Z rot 9.5
searching scale 1 Z rot 9.7 global minimum found at slice 127.0, rotations (10.94, 2.99)
- final transformation (x=127.0, yr=10.936, zr=2.986):
- 0.98051 -0.05210 0.18945 -12.56605;
- 0.05115 0.99864 0.00988 17.52685;
- -0.18971 0.00000 0.98184 41.14457;
- 0.00000 0.00000 0.00000 1.00000;
- updating x range to be [123, 131] in xformed coordinates
- best xformed slice 129
- cc center is found at 129 103 113
- eigenvectors:
- 0.00072 0.00050 1.00000;
- -0.15394 -0.98808 0.00060;
- 0.98808 -0.15394 -0.00063;
- error in mid anterior detected - correcting...
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/aseg.auto.mgz...
- corpus callosum segmentation took 6.0 minutes
- #--------------------------------------
- #@# Merge ASeg Sun Oct 8 01:59:04 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Sun Oct 8 01:59:05 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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...
- 1758 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 109
- gm peak at 56 (56), valley at 0 (-1)
- csf peak at 28, setting threshold to 46
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- ---------------------------------
- 3d normalization pass 2 of 2
- white matter peak found at 110
- white matter peak found at 110
- gm peak at 55 (55), valley at 0 (-1)
- csf peak at 27, setting threshold to 45
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to brain.mgz
- 3D bias adjustment took 3 minutes and 12 seconds.
- #--------------------------------------------
- #@# Mask BFS Sun Oct 8 02:02:18 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1548047 voxels in mask (pct= 9.23)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Sun Oct 8 02:02:20 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 (107.0): 107.0 +- 4.9 [79.0 --> 125.0]
- GM (66.0) : 65.4 +- 9.5 [30.0 --> 95.0]
- setting bottom of white matter range to 74.9
- setting top of gray matter range to 84.4
- 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...
- 7983 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 6855 filled
- 119 bright non-wm voxels segmented.
- 3748 diagonally connected voxels added...
- white matter segmentation took 1.4 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 0.45 minutes
- reading wm segmentation from wm.seg.mgz...
- 125 voxels added to wm to prevent paths from MTL structures to cortex
- 2583 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 47235 voxels turned on, 31504 voxels turned off.
- propagating editing to output volume from wm.seg.mgz
- 115,126,128 old 101 new 101
- 115,126,128 old 101 new 101
- writing edited volume to wm.asegedit.mgz....
- mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz
- Iteration Number : 1
- pass 1 (xy+): 21 found - 21 modified | TOTAL: 21
- pass 2 (xy+): 0 found - 21 modified | TOTAL: 21
- pass 1 (xy-): 17 found - 17 modified | TOTAL: 38
- pass 2 (xy-): 0 found - 17 modified | TOTAL: 38
- pass 1 (yz+): 23 found - 23 modified | TOTAL: 61
- pass 2 (yz+): 0 found - 23 modified | TOTAL: 61
- pass 1 (yz-): 18 found - 18 modified | TOTAL: 79
- pass 2 (yz-): 0 found - 18 modified | TOTAL: 79
- pass 1 (xz+): 17 found - 17 modified | TOTAL: 96
- pass 2 (xz+): 0 found - 17 modified | TOTAL: 96
- pass 1 (xz-): 20 found - 20 modified | TOTAL: 116
- pass 2 (xz-): 0 found - 20 modified | TOTAL: 116
- Iteration Number : 1
- pass 1 (+++): 12 found - 12 modified | TOTAL: 12
- pass 2 (+++): 0 found - 12 modified | TOTAL: 12
- pass 1 (+++): 16 found - 16 modified | TOTAL: 28
- pass 2 (+++): 0 found - 16 modified | TOTAL: 28
- pass 1 (+++): 18 found - 18 modified | TOTAL: 46
- pass 2 (+++): 0 found - 18 modified | TOTAL: 46
- pass 1 (+++): 28 found - 28 modified | TOTAL: 74
- pass 2 (+++): 0 found - 28 modified | TOTAL: 74
- Iteration Number : 1
- pass 1 (++): 167 found - 167 modified | TOTAL: 167
- pass 2 (++): 0 found - 167 modified | TOTAL: 167
- pass 1 (+-): 126 found - 126 modified | TOTAL: 293
- pass 2 (+-): 0 found - 126 modified | TOTAL: 293
- pass 1 (--): 173 found - 173 modified | TOTAL: 466
- pass 2 (--): 0 found - 173 modified | TOTAL: 466
- pass 1 (-+): 182 found - 182 modified | TOTAL: 648
- pass 2 (-+): 0 found - 182 modified | TOTAL: 648
- Iteration Number : 2
- pass 1 (xy+): 2 found - 2 modified | TOTAL: 2
- pass 2 (xy+): 0 found - 2 modified | TOTAL: 2
- pass 1 (xy-): 8 found - 8 modified | TOTAL: 10
- pass 2 (xy-): 0 found - 8 modified | TOTAL: 10
- pass 1 (yz+): 3 found - 3 modified | TOTAL: 13
- pass 2 (yz+): 0 found - 3 modified | TOTAL: 13
- pass 1 (yz-): 8 found - 8 modified | TOTAL: 21
- pass 2 (yz-): 0 found - 8 modified | TOTAL: 21
- pass 1 (xz+): 6 found - 6 modified | TOTAL: 27
- pass 2 (xz+): 0 found - 6 modified | TOTAL: 27
- pass 1 (xz-): 3 found - 3 modified | TOTAL: 30
- pass 2 (xz-): 0 found - 3 modified | TOTAL: 30
- 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 (++): 3 found - 3 modified | TOTAL: 3
- pass 2 (++): 0 found - 3 modified | TOTAL: 3
- pass 1 (+-): 6 found - 6 modified | TOTAL: 9
- pass 2 (+-): 0 found - 6 modified | TOTAL: 9
- pass 1 (--): 1 found - 1 modified | TOTAL: 10
- pass 2 (--): 0 found - 1 modified | TOTAL: 10
- pass 1 (-+): 4 found - 4 modified | TOTAL: 14
- pass 2 (-+): 0 found - 4 modified | TOTAL: 14
- Iteration Number : 3
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy-): 0 found - 1 modified | TOTAL: 1
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 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 (++): 1 found - 1 modified | TOTAL: 1
- pass 2 (++): 0 found - 1 modified | TOTAL: 1
- pass 1 (+-): 0 found - 0 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 4
- pass 1 (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 : 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
- Total Number of Modified Voxels = 884 (out of 503892: 0.175434)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Sun Oct 8 02:04:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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
- 1.06381 -0.08872 0.20215 -22.51147;
- 0.04156 1.11931 0.25067 -48.16104;
- -0.19058 -0.20541 0.95397 42.42207;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 1.06381 -0.08872 0.20215 -22.51147;
- 0.04156 1.11931 0.25067 -48.16104;
- -0.19058 -0.20541 0.95397 42.42207;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 1344 (min = 350, max = 1400), aspect = 0.47 (min = 0.10, max = 0.75)
- no need to search
- using seed (126, 124, 152), TAL = (2.0, 24.0, 4.0)
- talairach voxel to voxel transform
- 0.90275 0.03478 -0.20043 30.50002;
- -0.07051 0.84959 -0.20830 48.16650;
- 0.16517 0.18988 0.96336 -28.00450;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (126, 124, 152) --> (2.0, 24.0, 4.0)
- done.
- writing output to filled.mgz...
- filling took 0.7 minutes
- talairach cc position changed to (2.00, 24.00, 4.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(20.00, 24.00, 4.00) SRC: (101.84, 114.24, 159.81)
- search lh wm seed point around talairach space (-16.00, 24.00, 4.00), SRC: (134.34, 111.70, 165.76)
- compute mri_fill using aseg
- Erasing Brain Stem and Cerebellum ...
- Define left and right masks using aseg:
- Building Voronoi diagram ...
- Using the Voronoi diagram to separate WM into two hemispheres ...
- Find the largest connected component for each hemisphere ...
- #--------------------------------------------
- #@# Tessellate lh Sun Oct 8 02:04:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-): 1 found - 1 modified | TOTAL: 2
- pass 2 (xy-): 0 found - 1 modified | TOTAL: 2
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 2
- pass 1 (yz-): 1 found - 1 modified | TOTAL: 3
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 3
- pass 1 (xz+): 2 found - 2 modified | TOTAL: 5
- pass 2 (xz+): 0 found - 2 modified | TOTAL: 5
- pass 1 (xz-): 1 found - 1 modified | TOTAL: 6
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 6
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 1 found - 1 modified | TOTAL: 1
- pass 2 (++): 0 found - 1 modified | TOTAL: 1
- pass 1 (+-): 1 found - 1 modified | TOTAL: 2
- pass 2 (+-): 0 found - 1 modified | TOTAL: 2
- pass 1 (--): 1 found - 1 modified | TOTAL: 3
- pass 2 (--): 0 found - 1 modified | TOTAL: 3
- pass 1 (-+): 0 found - 0 modified | TOTAL: 3
- 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-): 1 found - 1 modified | TOTAL: 1
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 1
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 1
- 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 (++): 1 found - 1 modified | TOTAL: 1
- pass 2 (++): 0 found - 1 modified | TOTAL: 1
- pass 1 (+-): 0 found - 0 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 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 = 11 (out of 243382: 0.004520)
- 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: 2439 vertices, 2593 faces
- slice 60: 8317 vertices, 8530 faces
- slice 70: 16080 vertices, 16389 faces
- slice 80: 25481 vertices, 25850 faces
- slice 90: 35730 vertices, 36077 faces
- slice 100: 46299 vertices, 46680 faces
- slice 110: 57098 vertices, 57466 faces
- slice 120: 68086 vertices, 68489 faces
- slice 130: 78487 vertices, 78890 faces
- slice 140: 89574 vertices, 90023 faces
- slice 150: 100508 vertices, 100893 faces
- slice 160: 109928 vertices, 110307 faces
- slice 170: 118218 vertices, 118510 faces
- slice 180: 125711 vertices, 125991 faces
- slice 190: 132120 vertices, 132384 faces
- slice 200: 137301 vertices, 137493 faces
- slice 210: 139258 vertices, 139314 faces
- slice 220: 139258 vertices, 139314 faces
- slice 230: 139258 vertices, 139314 faces
- slice 240: 139258 vertices, 139314 faces
- slice 250: 139258 vertices, 139314 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...
- 139246 voxel in cpt #1: X=-58 [v=139246,e=417912,f=278608] located at (-23.584929, -6.680680, 15.841676)
- 12 voxel in cpt #2: X=2 [v=12,e=30,f=20] located at (7.500000, 31.000000, 15.000000)
- For the whole surface: X=-56 [v=139258,e=417942,f=278628]
- 2 components have been found
- keeping component #1 with 139246 vertices
- done
- #--------------------------------------------
- #@# Tessellate rh Sun Oct 8 02:04:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz
- Iteration Number : 1
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy-): 0 found - 1 modified | TOTAL: 1
- pass 1 (yz+): 2 found - 2 modified | TOTAL: 3
- pass 2 (yz+): 0 found - 2 modified | TOTAL: 3
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 3
- pass 1 (xz+): 2 found - 2 modified | TOTAL: 5
- pass 2 (xz+): 0 found - 2 modified | TOTAL: 5
- pass 1 (xz-): 1 found - 1 modified | TOTAL: 6
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 6
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 1 found - 1 modified | TOTAL: 1
- pass 2 (+-): 0 found - 1 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 1 found - 1 modified | TOTAL: 1
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 1
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 1
- 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 = 8 (out of 243835: 0.003281)
- Ambiguous edge configurations...
- mri_pretess done
- mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix
- $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- slice 40: 121 vertices, 148 faces
- slice 50: 2538 vertices, 2689 faces
- slice 60: 9396 vertices, 9744 faces
- slice 70: 20134 vertices, 20539 faces
- slice 80: 31447 vertices, 31873 faces
- slice 90: 43702 vertices, 44104 faces
- slice 100: 55198 vertices, 55620 faces
- slice 110: 67037 vertices, 67430 faces
- slice 120: 78330 vertices, 78735 faces
- slice 130: 89467 vertices, 89880 faces
- slice 140: 100134 vertices, 100549 faces
- slice 150: 109324 vertices, 109661 faces
- slice 160: 116564 vertices, 116889 faces
- slice 170: 123896 vertices, 124194 faces
- slice 180: 130201 vertices, 130488 faces
- slice 190: 135455 vertices, 135672 faces
- slice 200: 138493 vertices, 138644 faces
- slice 210: 138946 vertices, 139026 faces
- slice 220: 138946 vertices, 139026 faces
- slice 230: 138946 vertices, 139026 faces
- slice 240: 138946 vertices, 139026 faces
- slice 250: 138946 vertices, 139026 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...
- 138946 voxel in cpt #1: X=-80 [v=138946,e=417078,f=278052] located at (27.063276, -14.031185, 13.513724)
- For the whole surface: X=-80 [v=138946,e=417078,f=278052]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Sun Oct 8 02:05:05 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Sun Oct 8 02:05:05 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 21005 of (21005 21008) to complete...
- Waiting for PID 21008 of (21005 21008) 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 (21005 21008) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Sun Oct 8 02:05:13 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Sun Oct 8 02:05:13 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 21053 of (21053 21056) to complete...
- Waiting for PID 21056 of (21053 21056) 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 = 47.6 mm, total surface area = 73905 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 1.3 minutes
-
step 000: RMS=0.153 (target=0.015)
step 005: RMS=0.117 (target=0.015)
step 010: RMS=0.087 (target=0.015)
step 015: RMS=0.074 (target=0.015)
step 020: RMS=0.062 (target=0.015)
step 025: RMS=0.054 (target=0.015)
step 030: RMS=0.048 (target=0.015)
step 035: RMS=0.043 (target=0.015)
step 040: RMS=0.040 (target=0.015)
step 045: RMS=0.039 (target=0.015)
step 050: RMS=0.037 (target=0.015)
step 055: RMS=0.036 (target=0.015)
step 060: RMS=0.036 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 76.326396
- mris_inflate stimesec 0.124981
- mris_inflate ru_maxrss 203668
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 29392
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 9816
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2143
- mris_inflate ru_nivcsw 5905
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 47.2 mm, total surface area = 72901 mm^2
- writing inflated surface to ../surf/rh.inflated.nofix
- inflation took 1.3 minutes
-
step 000: RMS=0.157 (target=0.015)
step 005: RMS=0.119 (target=0.015)
step 010: RMS=0.090 (target=0.015)
step 015: RMS=0.076 (target=0.015)
step 020: RMS=0.065 (target=0.015)
step 025: RMS=0.057 (target=0.015)
step 030: RMS=0.051 (target=0.015)
step 035: RMS=0.046 (target=0.015)
step 040: RMS=0.043 (target=0.015)
step 045: RMS=0.041 (target=0.015)
step 050: RMS=0.039 (target=0.015)
step 055: RMS=0.038 (target=0.015)
step 060: RMS=0.038 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 75.753483
- mris_inflate stimesec 0.159975
- mris_inflate ru_maxrss 203524
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 29866
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 9800
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2093
- mris_inflate ru_nivcsw 5589
- PIDs (21053 21056) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Sun Oct 8 02:06:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Sun Oct 8 02:06:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 21154 of (21154 21157) to complete...
- Waiting for PID 21157 of (21154 21157) 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 0.98 +- 0.58 (0.00-->6.27) (max @ vno 43802 --> 44981)
- face area 0.02 +- 0.03 (-0.10-->0.52)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.298...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=177.078, avgs=0
- 005/300: dt: 0.9000, rms radial error=176.821, avgs=0
- 010/300: dt: 0.9000, rms radial error=176.269, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.545, avgs=0
- 020/300: dt: 0.9000, rms radial error=174.721, avgs=0
- 025/300: dt: 0.9000, rms radial error=173.836, avgs=0
- 030/300: dt: 0.9000, rms radial error=172.916, avgs=0
- 035/300: dt: 0.9000, rms radial error=171.978, avgs=0
- 040/300: dt: 0.9000, rms radial error=171.030, avgs=0
- 045/300: dt: 0.9000, rms radial error=170.079, avgs=0
- 050/300: dt: 0.9000, rms radial error=169.128, avgs=0
- 055/300: dt: 0.9000, rms radial error=168.180, avgs=0
- 060/300: dt: 0.9000, rms radial error=167.236, avgs=0
- 065/300: dt: 0.9000, rms radial error=166.296, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.361, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.436, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.517, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.603, avgs=0
- 090/300: dt: 0.9000, rms radial error=161.693, avgs=0
- 095/300: dt: 0.9000, rms radial error=160.789, avgs=0
- 100/300: dt: 0.9000, rms radial error=159.889, avgs=0
- 105/300: dt: 0.9000, rms radial error=158.994, avgs=0
- 110/300: dt: 0.9000, rms radial error=158.104, avgs=0
- 115/300: dt: 0.9000, rms radial error=157.219, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.338, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.462, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.590, avgs=0
- 135/300: dt: 0.9000, rms radial error=153.723, avgs=0
- 140/300: dt: 0.9000, rms radial error=152.861, avgs=0
- 145/300: dt: 0.9000, rms radial error=152.003, avgs=0
- 150/300: dt: 0.9000, rms radial error=151.150, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.301, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.457, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.618, avgs=0
- 170/300: dt: 0.9000, rms radial error=147.783, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.952, avgs=0
- 180/300: dt: 0.9000, rms radial error=146.127, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.305, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.488, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.676, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.868, avgs=0
- 205/300: dt: 0.9000, rms radial error=142.065, avgs=0
- 210/300: dt: 0.9000, rms radial error=141.266, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.471, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.681, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.895, avgs=0
- 230/300: dt: 0.9000, rms radial error=138.113, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.336, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.563, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.794, avgs=0
- 250/300: dt: 0.9000, rms radial error=135.029, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.269, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.513, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.761, avgs=0
- 270/300: dt: 0.9000, rms radial error=132.013, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.270, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.530, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.795, avgs=0
- 290/300: dt: 0.9000, rms radial error=129.064, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.336, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.613, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 16503.22
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00018
- epoch 2 (K=40.0), pass 1, starting sse = 2840.52
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00016
- epoch 3 (K=160.0), pass 1, starting sse = 318.63
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.10/11 = 0.00910
- epoch 4 (K=640.0), pass 1, starting sse = 20.38
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.09/12 = 0.00769
- final distance error %28.66
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.12 hours
- mris_sphere utimesec 435.501793
- mris_sphere stimesec 0.275958
- mris_sphere ru_maxrss 203872
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 29446
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 9800
- mris_sphere ru_oublock 9840
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 11517
- mris_sphere ru_nivcsw 28025
- FSRUNTIME@ mris_sphere 0.1202 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 0.97 +- 0.59 (0.00-->8.38) (max @ vno 95495 --> 95496)
- face area 0.02 +- 0.03 (-0.12-->0.52)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.309...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=176.418, avgs=0
- 005/300: dt: 0.9000, rms radial error=176.166, avgs=0
- 010/300: dt: 0.9000, rms radial error=175.624, avgs=0
- 015/300: dt: 0.9000, rms radial error=174.910, avgs=0
- 020/300: dt: 0.9000, rms radial error=174.095, avgs=0
- 025/300: dt: 0.9000, rms radial error=173.223, avgs=0
- 030/300: dt: 0.9000, rms radial error=172.318, avgs=0
- 035/300: dt: 0.9000, rms radial error=171.380, avgs=0
- 040/300: dt: 0.9000, rms radial error=170.434, avgs=0
- 045/300: dt: 0.9000, rms radial error=169.485, avgs=0
- 050/300: dt: 0.9000, rms radial error=168.538, avgs=0
- 055/300: dt: 0.9000, rms radial error=167.593, avgs=0
- 060/300: dt: 0.9000, rms radial error=166.652, avgs=0
- 065/300: dt: 0.9000, rms radial error=165.716, avgs=0
- 070/300: dt: 0.9000, rms radial error=164.784, avgs=0
- 075/300: dt: 0.9000, rms radial error=163.857, avgs=0
- 080/300: dt: 0.9000, rms radial error=162.935, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.018, avgs=0
- 090/300: dt: 0.9000, rms radial error=161.106, avgs=0
- 095/300: dt: 0.9000, rms radial error=160.199, avgs=0
- 100/300: dt: 0.9000, rms radial error=159.297, avgs=0
- 105/300: dt: 0.9000, rms radial error=158.400, avgs=0
- 110/300: dt: 0.9000, rms radial error=157.508, avgs=0
- 115/300: dt: 0.9000, rms radial error=156.620, avgs=0
- 120/300: dt: 0.9000, rms radial error=155.737, avgs=0
- 125/300: dt: 0.9000, rms radial error=154.860, avgs=0
- 130/300: dt: 0.9000, rms radial error=153.987, avgs=0
- 135/300: dt: 0.9000, rms radial error=153.119, avgs=0
- 140/300: dt: 0.9000, rms radial error=152.256, avgs=0
- 145/300: dt: 0.9000, rms radial error=151.397, avgs=0
- 150/300: dt: 0.9000, rms radial error=150.544, avgs=0
- 155/300: dt: 0.9000, rms radial error=149.695, avgs=0
- 160/300: dt: 0.9000, rms radial error=148.850, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.010, avgs=0
- 170/300: dt: 0.9000, rms radial error=147.175, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.345, avgs=0
- 180/300: dt: 0.9000, rms radial error=145.519, avgs=0
- 185/300: dt: 0.9000, rms radial error=144.697, avgs=0
- 190/300: dt: 0.9000, rms radial error=143.880, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.068, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.260, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.456, avgs=0
- 210/300: dt: 0.9000, rms radial error=140.657, avgs=0
- 215/300: dt: 0.9000, rms radial error=139.863, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.072, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.287, avgs=0
- 230/300: dt: 0.9000, rms radial error=137.506, avgs=0
- 235/300: dt: 0.9000, rms radial error=136.730, avgs=0
- 240/300: dt: 0.9000, rms radial error=135.959, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.191, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.428, avgs=0
- 255/300: dt: 0.9000, rms radial error=133.670, avgs=0
- 260/300: dt: 0.9000, rms radial error=132.915, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.165, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.419, avgs=0
- 275/300: dt: 0.9000, rms radial error=130.677, avgs=0
- 280/300: dt: 0.9000, rms radial error=129.940, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.206, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.477, avgs=0
- 295/300: dt: 0.9000, rms radial error=127.752, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.031, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 16341.21
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00013
- epoch 2 (K=40.0), pass 1, starting sse = 2791.39
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00012
- epoch 3 (K=160.0), pass 1, starting sse = 299.44
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.04/10 = 0.00435
- epoch 4 (K=640.0), pass 1, starting sse = 21.38
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.03/10 = 0.00274
- final distance error %28.56
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.12 hours
- mris_sphere utimesec 425.486316
- mris_sphere stimesec 0.267959
- mris_sphere ru_maxrss 203724
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 29412
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 9824
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 12595
- mris_sphere ru_nivcsw 29006
- FSRUNTIME@ mris_sphere 0.1184 hours 1 threads
- PIDs (21154 21157) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Sun Oct 8 02:13:42 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Sun Oct 8 02:13:42 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Sun Oct 8 02:13:42 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051266 lh
- #@# Fix Topology rh Sun Oct 8 02:13:42 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051266 rh
- Waiting for PID 21502 of (21502 21505) to complete...
- Waiting for PID 21505 of (21502 21505) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051266 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=-58 (nv=139246, nf=278608, ne=417912, g=30)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 10 iterations
- marking ambiguous vertices...
- 4182 ambiguous faces found in tessellation
- segmenting defects...
- 40 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- 40 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.6831 (-4.8416)
- -vertex loglikelihood: -6.6984 (-3.3492)
- -normal dot loglikelihood: -3.5755 (-3.5755)
- -quad curv loglikelihood: -6.4526 (-3.2263)
- Total Loglikelihood : -26.4096
- CORRECTING DEFECT 0 (vertices=69, convex hull=79, v0=15)
- After retessellation of defect 0 (v0=15), euler #=-36 (136637,408745,272072) : difference with theory (-37) = -1
- CORRECTING DEFECT 1 (vertices=31, convex hull=72, v0=897)
- After retessellation of defect 1 (v0=897), euler #=-35 (136649,408807,272123) : difference with theory (-36) = -1
- CORRECTING DEFECT 2 (vertices=6, convex hull=35, v0=3806)
- After retessellation of defect 2 (v0=3806), euler #=-34 (136651,408823,272138) : difference with theory (-35) = -1
- CORRECTING DEFECT 3 (vertices=58, convex hull=80, v0=3865)
- After retessellation of defect 3 (v0=3865), euler #=-33 (136669,408909,272207) : difference with theory (-34) = -1
- CORRECTING DEFECT 4 (vertices=11, convex hull=31, v0=10363)
- After retessellation of defect 4 (v0=10363), euler #=-32 (136671,408926,272223) : difference with theory (-33) = -1
- CORRECTING DEFECT 5 (vertices=140, convex hull=149, v0=10526)
- After retessellation of defect 5 (v0=10526), euler #=-31 (136694,409064,272339) : difference with theory (-32) = -1
- CORRECTING DEFECT 6 (vertices=87, convex hull=62, v0=22176)
- After retessellation of defect 6 (v0=22176), euler #=-30 (136713,409142,272399) : difference with theory (-31) = -1
- CORRECTING DEFECT 7 (vertices=19, convex hull=54, v0=32114)
- After retessellation of defect 7 (v0=32114), euler #=-29 (136722,409188,272437) : difference with theory (-30) = -1
- CORRECTING DEFECT 8 (vertices=51, convex hull=83, v0=40264)
- After retessellation of defect 8 (v0=40264), euler #=-28 (136758,409328,272542) : difference with theory (-29) = -1
- CORRECTING DEFECT 9 (vertices=20, convex hull=64, v0=42622)
- After retessellation of defect 9 (v0=42622), euler #=-27 (136767,409378,272584) : difference with theory (-28) = -1
- CORRECTING DEFECT 10 (vertices=29, convex hull=60, v0=54409)
- After retessellation of defect 10 (v0=54409), euler #=-26 (136776,409428,272626) : difference with theory (-27) = -1
- CORRECTING DEFECT 11 (vertices=12, convex hull=31, v0=55722)
- After retessellation of defect 11 (v0=55722), euler #=-25 (136778,409446,272643) : difference with theory (-26) = -1
- CORRECTING DEFECT 12 (vertices=29, convex hull=56, v0=60149)
- After retessellation of defect 12 (v0=60149), euler #=-24 (136793,409512,272695) : difference with theory (-25) = -1
- CORRECTING DEFECT 13 (vertices=237, convex hull=90, v0=66704)
- After retessellation of defect 13 (v0=66704), euler #=-23 (136816,409624,272785) : difference with theory (-24) = -1
- CORRECTING DEFECT 14 (vertices=37, convex hull=60, v0=68784)
- After retessellation of defect 14 (v0=68784), euler #=-22 (136840,409719,272857) : difference with theory (-23) = -1
- CORRECTING DEFECT 15 (vertices=6, convex hull=34, v0=84900)
- After retessellation of defect 15 (v0=84900), euler #=-21 (136842,409736,272873) : difference with theory (-22) = -1
- CORRECTING DEFECT 16 (vertices=84, convex hull=64, v0=84920)
- After retessellation of defect 16 (v0=84920), euler #=-20 (136851,409783,272912) : difference with theory (-21) = -1
- CORRECTING DEFECT 17 (vertices=46, convex hull=32, v0=87987)
- After retessellation of defect 17 (v0=87987), euler #=-20 (136858,409819,272941) : difference with theory (-20) = 0
- CORRECTING DEFECT 18 (vertices=48, convex hull=83, v0=88014)
- After retessellation of defect 18 (v0=88014), euler #=-19 (136887,409938,273032) : difference with theory (-19) = 0
- CORRECTING DEFECT 19 (vertices=39, convex hull=29, v0=90241)
- After retessellation of defect 19 (v0=90241), euler #=-18 (136894,409968,273056) : difference with theory (-18) = 0
- CORRECTING DEFECT 20 (vertices=26, convex hull=21, v0=91471)
- After retessellation of defect 20 (v0=91471), euler #=-17 (136897,409982,273068) : difference with theory (-17) = 0
- CORRECTING DEFECT 21 (vertices=671, convex hull=283, v0=92692)
- After retessellation of defect 21 (v0=92692), euler #=-16 (136988,410385,273381) : difference with theory (-16) = 0
- CORRECTING DEFECT 22 (vertices=41, convex hull=72, v0=93080)
- After retessellation of defect 22 (v0=93080), euler #=-15 (137008,410471,273448) : difference with theory (-15) = 0
- CORRECTING DEFECT 23 (vertices=28, convex hull=65, v0=94984)
- After retessellation of defect 23 (v0=94984), euler #=-14 (137028,410557,273515) : difference with theory (-14) = 0
- CORRECTING DEFECT 24 (vertices=6, convex hull=25, v0=96155)
- After retessellation of defect 24 (v0=96155), euler #=-13 (137030,410568,273525) : difference with theory (-13) = 0
- CORRECTING DEFECT 25 (vertices=41, convex hull=75, v0=100309)
- After retessellation of defect 25 (v0=100309), euler #=-12 (137040,410626,273574) : difference with theory (-12) = 0
- CORRECTING DEFECT 26 (vertices=11, convex hull=24, v0=106829)
- After retessellation of defect 26 (v0=106829), euler #=-11 (137041,410638,273586) : difference with theory (-11) = 0
- CORRECTING DEFECT 27 (vertices=81, convex hull=141, v0=107840)
- After retessellation of defect 27 (v0=107840), euler #=-10 (137101,410885,273774) : difference with theory (-10) = 0
- CORRECTING DEFECT 28 (vertices=25, convex hull=77, v0=108035)
- After retessellation of defect 28 (v0=108035), euler #=-9 (137110,410941,273822) : difference with theory (-9) = 0
- CORRECTING DEFECT 29 (vertices=62, convex hull=76, v0=110649)
- After retessellation of defect 29 (v0=110649), euler #=-8 (137132,411044,273904) : difference with theory (-8) = 0
- CORRECTING DEFECT 30 (vertices=67, convex hull=103, v0=112613)
- After retessellation of defect 30 (v0=112613), euler #=-7 (137166,411191,274018) : difference with theory (-7) = 0
- CORRECTING DEFECT 31 (vertices=55, convex hull=82, v0=114226)
- After retessellation of defect 31 (v0=114226), euler #=-6 (137198,411320,274116) : difference with theory (-6) = 0
- CORRECTING DEFECT 32 (vertices=63, convex hull=90, v0=118128)
- After retessellation of defect 32 (v0=118128), euler #=-5 (137235,411465,274225) : difference with theory (-5) = 0
- CORRECTING DEFECT 33 (vertices=128, convex hull=158, v0=118930)
- After retessellation of defect 33 (v0=118930), euler #=-4 (137277,411672,274391) : difference with theory (-4) = 0
- CORRECTING DEFECT 34 (vertices=7, convex hull=20, v0=120484)
- After retessellation of defect 34 (v0=120484), euler #=-3 (137277,411677,274397) : difference with theory (-3) = 0
- CORRECTING DEFECT 35 (vertices=94, convex hull=93, v0=126914)
- After retessellation of defect 35 (v0=126914), euler #=-2 (137294,411770,274474) : difference with theory (-2) = 0
- CORRECTING DEFECT 36 (vertices=69, convex hull=113, v0=130494)
- After retessellation of defect 36 (v0=130494), euler #=-1 (137330,411932,274601) : difference with theory (-1) = 0
- CORRECTING DEFECT 37 (vertices=13, convex hull=25, v0=130919)
- After retessellation of defect 37 (v0=130919), euler #=0 (137331,411944,274613) : difference with theory (0) = 0
- CORRECTING DEFECT 38 (vertices=31, convex hull=69, v0=131015)
- After retessellation of defect 38 (v0=131015), euler #=1 (137347,412016,274670) : difference with theory (1) = 0
- CORRECTING DEFECT 39 (vertices=43, convex hull=49, v0=137992)
- After retessellation of defect 39 (v0=137992), euler #=2 (137356,412062,274708) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.23 (0.05-->7.92) (max @ vno 123832 --> 127795)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.23 (0.05-->7.92) (max @ vno 123832 --> 127795)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 129 mutations (34.7%), 243 crossovers (65.3%), 184 vertices were eliminated
- building final representation...
- 1890 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=137356, nf=274708, ne=412062, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 32.2 minutes
- 0 defective edges
- removing intersecting faces
- 000: 243 intersecting
- 001: 4 intersecting
- mris_fix_topology utimesec 1929.718638
- mris_fix_topology stimesec 0.430934
- mris_fix_topology ru_maxrss 434584
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 54675
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 29400
- mris_fix_topology ru_oublock 13184
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 666
- mris_fix_topology ru_nivcsw 7211
- FSRUNTIME@ mris_fix_topology lh 0.5361 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051266 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=-80 (nv=138946, nf=278052, ne=417078, g=41)
- 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...
- 4168 ambiguous faces found in tessellation
- segmenting defects...
- 46 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 11 into 10
- -merging segment 21 into 19
- -merging segment 26 into 23
- -merging segment 45 into 44
- 42 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.6813 (-4.8407)
- -vertex loglikelihood: -6.6572 (-3.3286)
- -normal dot loglikelihood: -3.6288 (-3.6288)
- -quad curv loglikelihood: -6.4091 (-3.2045)
- Total Loglikelihood : -26.3764
- CORRECTING DEFECT 0 (vertices=83, convex hull=90, v0=18)
- After retessellation of defect 0 (v0=18), euler #=-42 (136340,407798,271416) : difference with theory (-39) = 3
- CORRECTING DEFECT 1 (vertices=24, convex hull=37, v0=582)
- After retessellation of defect 1 (v0=582), euler #=-41 (136344,407823,271438) : difference with theory (-38) = 3
- CORRECTING DEFECT 2 (vertices=46, convex hull=66, v0=3571)
- After retessellation of defect 2 (v0=3571), euler #=-40 (136360,407896,271496) : difference with theory (-37) = 3
- CORRECTING DEFECT 3 (vertices=25, convex hull=67, v0=4109)
- After retessellation of defect 3 (v0=4109), euler #=-39 (136369,407949,271541) : difference with theory (-36) = 3
- CORRECTING DEFECT 4 (vertices=34, convex hull=69, v0=17233)
- After retessellation of defect 4 (v0=17233), euler #=-38 (136378,408002,271586) : difference with theory (-35) = 3
- CORRECTING DEFECT 5 (vertices=38, convex hull=76, v0=19070)
- After retessellation of defect 5 (v0=19070), euler #=-37 (136399,408098,271662) : difference with theory (-34) = 3
- CORRECTING DEFECT 6 (vertices=27, convex hull=25, v0=26103)
- After retessellation of defect 6 (v0=26103), euler #=-36 (136401,408109,271672) : difference with theory (-33) = 3
- CORRECTING DEFECT 7 (vertices=91, convex hull=77, v0=30970)
- After retessellation of defect 7 (v0=30970), euler #=-35 (136420,408197,271742) : difference with theory (-32) = 3
- CORRECTING DEFECT 8 (vertices=99, convex hull=86, v0=33555)
- After retessellation of defect 8 (v0=33555), euler #=-34 (136448,408321,271839) : difference with theory (-31) = 3
- CORRECTING DEFECT 9 (vertices=52, convex hull=90, v0=34422)
- After retessellation of defect 9 (v0=34422), euler #=-33 (136473,408434,271928) : difference with theory (-30) = 3
- CORRECTING DEFECT 10 (vertices=56, convex hull=99, v0=55181)
- After retessellation of defect 10 (v0=55181), euler #=-31 (136503,408567,272033) : difference with theory (-29) = 2
- CORRECTING DEFECT 11 (vertices=44, convex hull=22, v0=61810)
- After retessellation of defect 11 (v0=61810), euler #=-30 (136511,408598,272057) : difference with theory (-28) = 2
- CORRECTING DEFECT 12 (vertices=25, convex hull=62, v0=65361)
- After retessellation of defect 12 (v0=65361), euler #=-29 (136524,408661,272108) : difference with theory (-27) = 2
- CORRECTING DEFECT 13 (vertices=256, convex hull=84, v0=67819)
- After retessellation of defect 13 (v0=67819), euler #=-28 (136564,408818,272226) : difference with theory (-26) = 2
- CORRECTING DEFECT 14 (vertices=65, convex hull=61, v0=71411)
- After retessellation of defect 14 (v0=71411), euler #=-27 (136581,408894,272286) : difference with theory (-25) = 2
- CORRECTING DEFECT 15 (vertices=60, convex hull=95, v0=71798)
- After retessellation of defect 15 (v0=71798), euler #=-26 (136617,409041,272398) : difference with theory (-24) = 2
- CORRECTING DEFECT 16 (vertices=45, convex hull=80, v0=79257)
- After retessellation of defect 16 (v0=79257), euler #=-25 (136643,409153,272485) : difference with theory (-23) = 2
- CORRECTING DEFECT 17 (vertices=15, convex hull=40, v0=82788)
- After retessellation of defect 17 (v0=82788), euler #=-24 (136647,409181,272510) : difference with theory (-22) = 2
- CORRECTING DEFECT 18 (vertices=75, convex hull=60, v0=89268)
- After retessellation of defect 18 (v0=89268), euler #=-22 (136656,409230,272552) : difference with theory (-21) = 1
- CORRECTING DEFECT 19 (vertices=31, convex hull=61, v0=91502)
- After retessellation of defect 19 (v0=91502), euler #=-21 (136673,409305,272611) : difference with theory (-20) = 1
- CORRECTING DEFECT 20 (vertices=45, convex hull=50, v0=93059)
- After retessellation of defect 20 (v0=93059), euler #=-20 (136690,409378,272668) : difference with theory (-19) = 1
- CORRECTING DEFECT 21 (vertices=78, convex hull=122, v0=93239)
- After retessellation of defect 21 (v0=93239), euler #=-18 (136729,409551,272804) : difference with theory (-18) = 0
- CORRECTING DEFECT 22 (vertices=49, convex hull=90, v0=93937)
- After retessellation of defect 22 (v0=93937), euler #=-17 (136757,409669,272895) : difference with theory (-17) = 0
- CORRECTING DEFECT 23 (vertices=227, convex hull=199, v0=94277)
- After retessellation of defect 23 (v0=94277), euler #=-16 (136829,409979,273134) : difference with theory (-16) = 0
- CORRECTING DEFECT 24 (vertices=59, convex hull=74, v0=96616)
- After retessellation of defect 24 (v0=96616), euler #=-15 (136849,410073,273209) : difference with theory (-15) = 0
- CORRECTING DEFECT 25 (vertices=30, convex hull=65, v0=100803)
- After retessellation of defect 25 (v0=100803), euler #=-14 (136864,410142,273264) : difference with theory (-14) = 0
- CORRECTING DEFECT 26 (vertices=31, convex hull=56, v0=104294)
- After retessellation of defect 26 (v0=104294), euler #=-13 (136873,410193,273307) : difference with theory (-13) = 0
- CORRECTING DEFECT 27 (vertices=38, convex hull=52, v0=105588)
- After retessellation of defect 27 (v0=105588), euler #=-12 (136887,410256,273357) : difference with theory (-12) = 0
- CORRECTING DEFECT 28 (vertices=70, convex hull=56, v0=105692)
- After retessellation of defect 28 (v0=105692), euler #=-12 (136892,410295,273391) : difference with theory (-11) = 1
- CORRECTING DEFECT 29 (vertices=19, convex hull=56, v0=111343)
- After retessellation of defect 29 (v0=111343), euler #=-11 (136904,410352,273437) : difference with theory (-10) = 1
- CORRECTING DEFECT 30 (vertices=15, convex hull=29, v0=112899)
- After retessellation of defect 30 (v0=112899), euler #=-10 (136905,410366,273451) : difference with theory (-9) = 1
- CORRECTING DEFECT 31 (vertices=179, convex hull=118, v0=113446)
- After retessellation of defect 31 (v0=113446), euler #=-9 (136932,410504,273563) : difference with theory (-8) = 1
- CORRECTING DEFECT 32 (vertices=9, convex hull=20, v0=117498)
- After retessellation of defect 32 (v0=117498), euler #=-8 (136933,410513,273572) : difference with theory (-7) = 1
- CORRECTING DEFECT 33 (vertices=216, convex hull=85, v0=121016)
- After retessellation of defect 33 (v0=121016), euler #=-7 (136967,410657,273683) : difference with theory (-6) = 1
- CORRECTING DEFECT 34 (vertices=30, convex hull=58, v0=121812)
- After retessellation of defect 34 (v0=121812), euler #=-6 (136980,410719,273733) : difference with theory (-5) = 1
- CORRECTING DEFECT 35 (vertices=23, convex hull=49, v0=121941)
- After retessellation of defect 35 (v0=121941), euler #=-5 (136995,410782,273782) : difference with theory (-4) = 1
- CORRECTING DEFECT 36 (vertices=31, convex hull=67, v0=122780)
- After retessellation of defect 36 (v0=122780), euler #=-4 (137011,410858,273843) : difference with theory (-3) = 1
- CORRECTING DEFECT 37 (vertices=101, convex hull=95, v0=123426)
- After retessellation of defect 37 (v0=123426), euler #=-3 (137047,411005,273955) : difference with theory (-2) = 1
- CORRECTING DEFECT 38 (vertices=57, convex hull=82, v0=126379)
- After retessellation of defect 38 (v0=126379), euler #=-2 (137077,411129,274050) : difference with theory (-1) = 1
- CORRECTING DEFECT 39 (vertices=42, convex hull=79, v0=128252)
- After retessellation of defect 39 (v0=128252), euler #=-1 (137090,411200,274109) : difference with theory (0) = 1
- CORRECTING DEFECT 40 (vertices=32, convex hull=76, v0=131211)
- After retessellation of defect 40 (v0=131211), euler #=0 (137102,411263,274161) : difference with theory (1) = 1
- CORRECTING DEFECT 41 (vertices=42, convex hull=77, v0=137417)
- After retessellation of defect 41 (v0=137417), euler #=2 (137112,411330,274220) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.23 (0.02-->9.64) (max @ vno 112301 --> 118975)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.23 (0.02-->9.64) (max @ vno 112301 --> 118975)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 151 mutations (31.5%), 329 crossovers (68.5%), 130 vertices were eliminated
- building final representation...
- 1834 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=137112, nf=274220, ne=411330, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 31.0 minutes
- 0 defective edges
- removing intersecting faces
- 000: 263 intersecting
- 001: 17 intersecting
- 002: 4 intersecting
- mris_fix_topology utimesec 1862.643835
- mris_fix_topology stimesec 0.321951
- mris_fix_topology ru_maxrss 434348
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 54874
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 19560
- mris_fix_topology ru_oublock 13208
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 408
- mris_fix_topology ru_nivcsw 5097
- FSRUNTIME@ mris_fix_topology rh 0.5174 hours 1 threads
- PIDs (21502 21505) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 137356 - 412062 + 274708 = 2 --> 0 holes
- F =2V-4: 274708 = 274712-4 (0)
- 2E=3F: 824124 = 824124 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 137112 - 411330 + 274220 = 2 --> 0 holes
- F =2V-4: 274220 = 274224-4 (0)
- 2E=3F: 822660 = 822660 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 25 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 18 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Sun Oct 8 02:46:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051266 lh
- #--------------------------------------------
- #@# Make White Surf rh Sun Oct 8 02:46:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051266 rh
- Waiting for PID 23000 of (23000 23003) to complete...
- Waiting for PID 23003 of (23000 23003) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051266 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-6.0.0/0051266/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- 26892 bright wm thresholded.
- 242 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.orig...
- computing class statistics...
- border white: 251675 voxels (1.50%)
- border gray 290512 voxels (1.73%)
- WM (97.0): 97.1 +- 10.1 [70.0 --> 110.0]
- GM (63.0) : 63.7 +- 10.5 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 47.5 (was 70)
- setting MAX_BORDER_WHITE to 114.1 (was 105)
- setting MIN_BORDER_WHITE to 58.0 (was 85)
- setting MAX_CSF to 37.0 (was 40)
- setting MAX_GRAY to 93.9 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 47.5 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 26.5 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.82 +- 0.22 (0.03-->3.72) (max @ vno 123822 --> 123832)
- face area 0.28 +- 0.12 (0.00-->1.98)
- mean absolute distance = 0.55 +- 0.61
- 3181 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=104+-7.8, GM=58+-7.8
- mean inside = 91.5, mean outside = 67.4
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- mean border=73.2, 66 (66) missing vertices, mean dist 0.3 [0.4 (%34.4)->0.6 (%65.6))]
- %81 local maxima, %14 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.91 +- 0.25 (0.14-->3.88) (max @ vno 90494 --> 90525)
- face area 0.28 +- 0.13 (0.00-->2.15)
- mean absolute distance = 0.26 +- 0.37
- 2198 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=4565264.5, rms=12.373
- 001: dt: 0.5000, sse=2492544.0, rms=8.638 (30.184%)
- 002: dt: 0.5000, sse=1696625.2, rms=6.662 (22.880%)
- 003: dt: 0.5000, sse=1330540.5, rms=5.519 (17.157%)
- 004: dt: 0.5000, sse=1187997.8, rms=5.000 (9.403%)
- 005: dt: 0.5000, sse=1126412.1, rms=4.739 (5.215%)
- 006: dt: 0.5000, sse=1101304.2, rms=4.653 (1.830%)
- 007: dt: 0.5000, sse=1086506.9, rms=4.579 (1.572%)
- rms = 4.56, time step reduction 1 of 3 to 0.250...
- 008: dt: 0.5000, sse=1082185.4, rms=4.562 (0.388%)
- 009: dt: 0.2500, sse=784751.9, rms=2.992 (34.411%)
- 010: dt: 0.2500, sse=717334.4, rms=2.526 (15.565%)
- 011: dt: 0.2500, sse=706268.5, rms=2.431 (3.780%)
- 012: dt: 0.2500, sse=695769.2, rms=2.343 (3.620%)
- rms = 2.31, time step reduction 2 of 3 to 0.125...
- 013: dt: 0.2500, sse=692210.2, rms=2.313 (1.264%)
- 014: dt: 0.1250, sse=650998.1, rms=1.927 (16.694%)
- 015: dt: 0.1250, sse=646007.4, rms=1.875 (2.684%)
- rms = 1.87, time step reduction 3 of 3 to 0.062...
- 016: dt: 0.1250, sse=645610.2, rms=1.868 (0.383%)
- positioning took 2.0 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=77.4, 49 (1) missing vertices, mean dist -0.2 [0.3 (%79.5)->0.2 (%20.5))]
- %88 local maxima, % 7 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 +- 0.24 (0.11-->3.64) (max @ vno 94762 --> 93730)
- face area 0.35 +- 0.16 (0.00-->2.53)
- mean absolute distance = 0.18 +- 0.28
- 2707 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1500373.4, rms=5.596
- 017: dt: 0.5000, sse=1093291.2, rms=3.970 (29.051%)
- rms = 4.43, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=865072.1, rms=2.642 (33.467%)
- 019: dt: 0.2500, sse=799441.2, rms=2.117 (19.862%)
- 020: dt: 0.2500, sse=772105.6, rms=1.854 (12.428%)
- rms = 1.84, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=770602.3, rms=1.843 (0.599%)
- 022: dt: 0.1250, sse=744271.0, rms=1.529 (17.014%)
- rms = 1.49, time step reduction 3 of 3 to 0.062...
- 023: dt: 0.1250, sse=741464.6, rms=1.491 (2.482%)
- positioning took 0.9 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=79.5, 49 (0) missing vertices, mean dist -0.1 [0.2 (%67.3)->0.2 (%32.7))]
- %90 local maxima, % 5 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 +- 0.24 (0.05-->3.86) (max @ vno 94762 --> 93730)
- face area 0.34 +- 0.16 (0.00-->2.42)
- mean absolute distance = 0.18 +- 0.26
- 2323 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=902765.9, rms=2.968
- rms = 3.93, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=770359.4, rms=1.925 (35.145%)
- 025: dt: 0.2500, sse=736081.6, rms=1.538 (20.135%)
- rms = 1.53, time step reduction 2 of 3 to 0.125...
- 026: dt: 0.2500, sse=734011.1, rms=1.530 (0.464%)
- 027: dt: 0.1250, sse=719155.2, rms=1.327 (13.297%)
- rms = 1.32, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=718415.6, rms=1.316 (0.802%)
- positioning took 0.7 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=80.2, 56 (0) missing vertices, mean dist -0.0 [0.2 (%54.4)->0.2 (%45.6))]
- %91 local maxima, % 4 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-6.0.0/0051266/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=733183.9, rms=1.570
- rms = 2.52, time step reduction 1 of 3 to 0.250...
- 029: dt: 0.2500, sse=696667.5, rms=1.039 (33.844%)
- 030: dt: 0.2500, sse=695497.2, rms=0.953 (8.248%)
- rms = 0.96, time step reduction 2 of 3 to 0.125...
- rms = 0.94, time step reduction 3 of 3 to 0.062...
- 031: dt: 0.1250, sse=691638.8, rms=0.943 (1.075%)
- positioning took 0.5 minutes
- generating cortex label...
- 6 non-cortical segments detected
- only using segment with 7960 vertices
- erasing segment 1 (vno[0] = 43320)
- erasing segment 2 (vno[0] = 75032)
- erasing segment 3 (vno[0] = 92863)
- erasing segment 4 (vno[0] = 93835)
- erasing segment 5 (vno[0] = 94862)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.area
- vertex spacing 0.90 +- 0.25 (0.03-->3.94) (max @ vno 93730 --> 94762)
- face area 0.34 +- 0.16 (0.00-->2.40)
- refinement took 6.0 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051266 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-6.0.0/0051266/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- 26892 bright wm thresholded.
- 242 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.orig...
- computing class statistics...
- border white: 251675 voxels (1.50%)
- border gray 290512 voxels (1.73%)
- WM (97.0): 97.1 +- 10.1 [70.0 --> 110.0]
- GM (63.0) : 63.7 +- 10.5 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 50.5 (was 70)
- setting MAX_BORDER_WHITE to 113.1 (was 105)
- setting MIN_BORDER_WHITE to 61.0 (was 85)
- setting MAX_CSF to 40.0 (was 40)
- setting MAX_GRAY to 92.9 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 50.5 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 29.5 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.82 +- 0.22 (0.04-->3.80) (max @ vno 96231 --> 136764)
- face area 0.28 +- 0.12 (0.00-->2.77)
- mean absolute distance = 0.56 +- 0.66
- 3040 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=103+-7.0, GM=61+-7.0
- mean inside = 91.5, mean outside = 68.3
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- mean border=75.5, 38 (38) missing vertices, mean dist 0.2 [0.4 (%38.8)->0.6 (%61.2))]
- %75 local maxima, %20 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.91 +- 0.25 (0.08-->4.04) (max @ vno 136888 --> 103092)
- face area 0.28 +- 0.13 (0.00-->2.17)
- mean absolute distance = 0.27 +- 0.43
- 2314 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=4193452.0, rms=11.776
- 001: dt: 0.5000, sse=2208962.8, rms=7.990 (32.150%)
- 002: dt: 0.5000, sse=1519028.1, rms=6.146 (23.086%)
- 003: dt: 0.5000, sse=1237281.0, rms=5.194 (15.490%)
- 004: dt: 0.5000, sse=1121110.6, rms=4.756 (8.424%)
- 005: dt: 0.5000, sse=1068827.4, rms=4.535 (4.641%)
- 006: dt: 0.5000, sse=1050677.8, rms=4.455 (1.776%)
- 007: dt: 0.5000, sse=1038922.3, rms=4.400 (1.239%)
- rms = 4.37, time step reduction 1 of 3 to 0.250...
- 008: dt: 0.5000, sse=1038608.8, rms=4.372 (0.626%)
- 009: dt: 0.2500, sse=760596.8, rms=2.863 (34.529%)
- 010: dt: 0.2500, sse=697940.2, rms=2.412 (15.746%)
- 011: dt: 0.2500, sse=688239.9, rms=2.324 (3.649%)
- 012: dt: 0.2500, sse=679636.3, rms=2.251 (3.134%)
- rms = 2.23, time step reduction 2 of 3 to 0.125...
- 013: dt: 0.2500, sse=677814.4, rms=2.231 (0.895%)
- 014: dt: 0.1250, sse=640121.4, rms=1.867 (16.312%)
- rms = 1.82, time step reduction 3 of 3 to 0.062...
- 015: dt: 0.1250, sse=635715.1, rms=1.820 (2.509%)
- positioning took 1.8 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
- removing 3 vertex label from ripped group
- mean border=79.1, 72 (4) missing vertices, mean dist -0.2 [0.3 (%75.4)->0.2 (%24.6))]
- %82 local maxima, %13 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.90 +- 0.25 (0.09-->4.13) (max @ vno 136888 --> 103092)
- face area 0.34 +- 0.16 (0.00-->2.61)
- mean absolute distance = 0.20 +- 0.33
- 2311 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1327555.2, rms=4.985
- 016: dt: 0.5000, sse=1043069.8, rms=3.739 (25.002%)
- rms = 4.26, time step reduction 1 of 3 to 0.250...
- 017: dt: 0.2500, sse=846193.6, rms=2.531 (32.295%)
- 018: dt: 0.2500, sse=786355.8, rms=2.031 (19.753%)
- 019: dt: 0.2500, sse=763801.6, rms=1.813 (10.724%)
- rms = 1.79, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=761188.2, rms=1.789 (1.318%)
- 021: dt: 0.1250, sse=739759.4, rms=1.530 (14.499%)
- rms = 1.50, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=737034.1, rms=1.496 (2.201%)
- positioning took 0.9 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=81.0, 74 (2) missing vertices, mean dist -0.1 [0.2 (%64.9)->0.2 (%35.1))]
- %85 local maxima, %10 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 +- 0.25 (0.11-->4.31) (max @ vno 136888 --> 103092)
- face area 0.34 +- 0.16 (0.00-->2.58)
- mean absolute distance = 0.19 +- 0.30
- 2598 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=873817.5, rms=2.807
- rms = 3.56, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=763560.1, rms=1.905 (32.142%)
- 024: dt: 0.2500, sse=729842.9, rms=1.512 (20.611%)
- rms = 1.49, time step reduction 2 of 3 to 0.125...
- 025: dt: 0.2500, sse=726496.1, rms=1.489 (1.521%)
- 026: dt: 0.1250, sse=715541.0, rms=1.341 (9.979%)
- rms = 1.33, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=715122.4, rms=1.335 (0.452%)
- positioning took 0.7 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=81.6, 70 (1) missing vertices, mean dist -0.0 [0.2 (%53.6)->0.2 (%46.4))]
- %87 local maxima, % 8 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-6.0.0/0051266/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=730709.1, rms=1.606
- rms = 2.37, time step reduction 1 of 3 to 0.250...
- 028: dt: 0.2500, sse=694118.9, rms=1.088 (32.274%)
- 029: dt: 0.2500, sse=687824.9, rms=0.976 (10.294%)
- rms = 0.98, time step reduction 2 of 3 to 0.125...
- rms = 0.96, time step reduction 3 of 3 to 0.062...
- 030: dt: 0.1250, sse=686505.1, rms=0.965 (1.135%)
- positioning took 0.5 minutes
- generating cortex label...
- 3 non-cortical segments detected
- only using segment with 7596 vertices
- erasing segment 1 (vno[0] = 99322)
- erasing segment 2 (vno[0] = 100238)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.area
- vertex spacing 0.89 +- 0.25 (0.05-->4.38) (max @ vno 103092 --> 136888)
- face area 0.34 +- 0.16 (0.00-->2.61)
- refinement took 5.8 minutes
- PIDs (23000 23003) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Sun Oct 8 02:52:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Sun Oct 8 02:52:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 23241 of (23241 23244) to complete...
- Waiting for PID 23244 of (23241 23244) 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 (23241 23244) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Sun Oct 8 02:52:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Sun Oct 8 02:52:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 23290 of (23290 23293) to complete...
- Waiting for PID 23293 of (23290 23293) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 47.7 mm, total surface area = 84692 mm^2
- writing inflated surface to ../surf/lh.inflated
- writing sulcal depths to ../surf/lh.sulc
-
step 000: RMS=0.175 (target=0.015)
step 005: RMS=0.123 (target=0.015)
step 010: RMS=0.092 (target=0.015)
step 015: RMS=0.075 (target=0.015)
step 020: RMS=0.062 (target=0.015)
step 025: RMS=0.050 (target=0.015)
step 030: RMS=0.042 (target=0.015)
step 035: RMS=0.035 (target=0.015)
step 040: RMS=0.031 (target=0.015)
step 045: RMS=0.027 (target=0.015)
step 050: RMS=0.024 (target=0.015)
step 055: RMS=0.022 (target=0.015)
step 060: RMS=0.021 (target=0.015)
- inflation complete.
- inflation took 1.3 minutes
- mris_inflate utimesec 75.051590
- mris_inflate stimesec 0.138978
- mris_inflate ru_maxrss 201028
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 29371
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 10760
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2177
- mris_inflate ru_nivcsw 5476
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 47.3 mm, total surface area = 83488 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.179 (target=0.015)
step 005: RMS=0.125 (target=0.015)
step 010: RMS=0.093 (target=0.015)
step 015: RMS=0.077 (target=0.015)
step 020: RMS=0.065 (target=0.015)
step 025: RMS=0.055 (target=0.015)
step 030: RMS=0.045 (target=0.015)
step 035: RMS=0.039 (target=0.015)
step 040: RMS=0.033 (target=0.015)
step 045: RMS=0.029 (target=0.015)
step 050: RMS=0.027 (target=0.015)
step 055: RMS=0.025 (target=0.015)
step 060: RMS=0.024 (target=0.015)
- inflation complete.
- inflation took 1.3 minutes
- mris_inflate utimesec 75.729487
- mris_inflate stimesec 0.128980
- mris_inflate ru_maxrss 200932
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 29346
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 10736
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2243
- mris_inflate ru_nivcsw 5726
- PIDs (23290 23293) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Sun Oct 8 02:53:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf
- mris_curvature -w lh.white.preaparc
- rm -f lh.white.H
- ln -s lh.white.preaparc.H lh.white.H
- rm -f lh.white.K
- ln -s lh.white.preaparc.K lh.white.K
- mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated
- #--------------------------------------------
- #@# Curv .H and .K rh Sun Oct 8 02:53:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 23431 of (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) to complete...
- Waiting for PID 23434 of (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) to complete...
- Waiting for PID 23437 of (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) to complete...
- Waiting for PID 23440 of (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) to complete...
- Waiting for PID 23443 of (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) to complete...
- Waiting for PID 23446 of (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) to complete...
- Waiting for PID 23449 of (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) to complete...
- Waiting for PID 23452 of (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) to complete...
- Waiting for PID 23455 of (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) to complete...
- Waiting for PID 23458 of (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) to complete...
- Waiting for PID 23462 of (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) to complete...
- Waiting for PID 23465 of (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = -7.597*4pi (-95.462) --> 9 handles
- ICI = 148.4, FI = 1773.0, variation=27344.823
- 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
- 246 vertices thresholded to be in k1 ~ [-0.17 0.24], k2 ~ [-0.10 0.05]
- total integrated curvature = 0.576*4pi (7.235) --> 0 handles
- ICI = 1.5, FI = 9.7, variation=163.693
- 135 vertices thresholded to be in [-0.01 0.01]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 146 vertices thresholded to be in [-0.12 0.12]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.017, std = 0.022
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = -3.565*4pi (-44.805) --> 5 handles
- ICI = 160.7, FI = 1784.3, variation=27851.628
- 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
- 168 vertices thresholded to be in k1 ~ [-0.21 0.74], k2 ~ [-0.19 0.08]
- total integrated curvature = 0.532*4pi (6.682) --> 0 handles
- ICI = 1.5, FI = 9.3, variation=159.704
- 156 vertices thresholded to be in [-0.06 0.01]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.002
- 116 vertices thresholded to be in [-0.12 0.22]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.016, std = 0.022
- done.
- PIDs (23431 23434 23437 23440 23443 23446 23449 23452 23455 23458 23462 23465) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Sun Oct 8 02:54:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0051266 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 [ 0051266/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 [ 264 ]
- Gb_filter = 0
- WARN: S lookup min: -0.660502
- WARN: S explicit min: 0.000000 vertex = 713
- #-----------------------------------------
- #@# Curvature Stats rh Sun Oct 8 02:54:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0051266 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 [ 0051266/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 [ 244 ]
- Gb_filter = 0
- #--------------------------------------------
- #@# Sphere lh Sun Oct 8 02:54:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Sun Oct 8 02:54:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 23654 of (23654 23658) to complete...
- Waiting for PID 23658 of (23654 23658) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0.278...
- 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
- singular matrix in quadratic form
- --------------------
- mrisRemoveNegativeArea()
- pass 1: epoch 1 of 3 starting distance error %20.32
- pass 1: epoch 2 of 3 starting distance error %20.31
- unfolding complete - removing small folds...
- starting distance error %20.26
- removing remaining folds...
- final distance error %20.28
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 132 negative triangles
- 171: dt=0.9900, 132 negative triangles
- 172: dt=0.9900, 44 negative triangles
- 173: dt=0.9900, 33 negative triangles
- 174: dt=0.9900, 26 negative triangles
- 175: dt=0.9900, 24 negative triangles
- 176: dt=0.9900, 28 negative triangles
- 177: dt=0.9900, 22 negative triangles
- 178: dt=0.9900, 22 negative triangles
- 179: dt=0.9900, 21 negative triangles
- 180: dt=0.9900, 17 negative triangles
- 181: dt=0.9900, 16 negative triangles
- 182: dt=0.9900, 14 negative triangles
- 183: dt=0.9900, 13 negative triangles
- 184: dt=0.9900, 11 negative triangles
- 185: dt=0.9900, 8 negative triangles
- 186: dt=0.9900, 6 negative triangles
- 187: dt=0.9900, 9 negative triangles
- 188: dt=0.9900, 2 negative triangles
- 189: dt=0.9900, 5 negative triangles
- 190: dt=0.9900, 3 negative triangles
- 191: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 1.38 hours
- mris_sphere utimesec 4967.874768
- mris_sphere stimesec 1.882713
- mris_sphere ru_maxrss 284744
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 49923
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 9712
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 107360
- mris_sphere ru_nivcsw 415624
- FSRUNTIME@ mris_sphere 1.3808 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0.288...
- 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 %20.51
- pass 1: epoch 2 of 3 starting distance error %20.41
- unfolding complete - removing small folds...
- starting distance error %20.30
- removing remaining folds...
- final distance error %20.32
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 207 negative triangles
- 162: dt=0.9900, 207 negative triangles
- 163: dt=0.9900, 94 negative triangles
- 164: dt=0.9900, 84 negative triangles
- 165: dt=0.9900, 56 negative triangles
- 166: dt=0.9900, 48 negative triangles
- 167: dt=0.9900, 49 negative triangles
- 168: dt=0.9900, 48 negative triangles
- 169: dt=0.9900, 46 negative triangles
- 170: dt=0.9900, 41 negative triangles
- 171: dt=0.9900, 39 negative triangles
- 172: dt=0.9900, 37 negative triangles
- 173: dt=0.9900, 37 negative triangles
- 174: dt=0.9900, 34 negative triangles
- 175: dt=0.9900, 29 negative triangles
- 176: dt=0.9900, 31 negative triangles
- 177: dt=0.9900, 30 negative triangles
- 178: dt=0.9900, 27 negative triangles
- 179: dt=0.9900, 28 negative triangles
- 180: dt=0.9900, 26 negative triangles
- 181: dt=0.9900, 21 negative triangles
- 182: dt=0.9900, 24 negative triangles
- 183: dt=0.9900, 22 negative triangles
- 184: dt=0.9900, 19 negative triangles
- 185: dt=0.9900, 23 negative triangles
- 186: dt=0.9900, 21 negative triangles
- 187: dt=0.9900, 17 negative triangles
- 188: dt=0.9900, 15 negative triangles
- 189: dt=0.9900, 17 negative triangles
- 190: dt=0.9900, 20 negative triangles
- 191: dt=0.9900, 16 negative triangles
- 192: dt=0.9900, 16 negative triangles
- 193: dt=0.9900, 12 negative triangles
- 194: dt=0.9900, 13 negative triangles
- 195: dt=0.9900, 15 negative triangles
- 196: dt=0.9900, 12 negative triangles
- 197: dt=0.9900, 13 negative triangles
- 198: dt=0.9900, 14 negative triangles
- 199: dt=0.9900, 13 negative triangles
- 200: dt=0.9900, 12 negative triangles
- 201: dt=0.9900, 11 negative triangles
- 202: dt=0.9900, 12 negative triangles
- 203: dt=0.9900, 13 negative triangles
- 204: dt=0.9900, 11 negative triangles
- 205: dt=0.9900, 11 negative triangles
- 206: dt=0.9900, 14 negative triangles
- 207: dt=0.9900, 10 negative triangles
- 208: dt=0.9900, 10 negative triangles
- 209: dt=0.9900, 9 negative triangles
- 210: dt=0.9900, 7 negative triangles
- 211: dt=0.9900, 7 negative triangles
- 212: dt=0.9900, 9 negative triangles
- 213: dt=0.9900, 8 negative triangles
- 214: dt=0.9900, 5 negative triangles
- 215: dt=0.9900, 9 negative triangles
- 216: dt=0.9900, 5 negative triangles
- 217: dt=0.9900, 4 negative triangles
- 218: dt=0.9900, 5 negative triangles
- 219: dt=0.9900, 2 negative triangles
- 220: dt=0.9900, 7 negative triangles
- 221: dt=0.9900, 4 negative triangles
- 222: dt=0.9900, 3 negative triangles
- 223: dt=0.9900, 3 negative triangles
- 224: dt=0.9900, 1 negative triangles
- 225: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 1.39 hours
- mris_sphere utimesec 5038.910969
- mris_sphere stimesec 1.881713
- mris_sphere ru_maxrss 282580
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 49882
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 9712
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 102974
- mris_sphere ru_nivcsw 418664
- FSRUNTIME@ mris_sphere 1.3905 hours 1 threads
- PIDs (23654 23658) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Sun Oct 8 04:18:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg
- #--------------------------------------------
- #@# Surf Reg rh Sun Oct 8 04:18:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 27241 of (27241 27246) to complete...
- Waiting for PID 27246 of (27241 27246) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 = 5.540
- curvature mean = 0.029, std = 0.817
- curvature mean = 0.016, std = 0.860
- Starting MRISrigidBodyAlignGlobal()
- d=16.00 min @ (-4.00, -4.00, 0.00) sse = 228032.6, tmin=5.1922
- d=8.00 min @ (2.00, 0.00, 0.00) sse = 223057.8, tmin=6.9485
- d=4.00 min @ (0.00, -1.00, 0.00) sse = 222955.6, tmin=8.7079
- d=2.00 min @ (-0.50, 0.50, 0.50) sse = 222136.8, tmin=10.4731
- d=1.00 min @ (0.00, -0.25, -0.25) sse = 222045.9, tmin=12.2503
- d=0.50 min @ (0.12, 0.12, 0.00) sse = 221993.9, tmin=14.0344
- 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 14.03 min
- curvature mean = 0.006, std = 0.827
- curvature mean = 0.008, std = 0.946
- curvature mean = 0.004, std = 0.838
- curvature mean = 0.003, std = 0.978
- curvature mean = 0.003, std = 0.840
- curvature mean = 0.001, std = 0.992
- 2 Reading smoothwm
- curvature mean = -0.025, std = 0.316
- curvature mean = 0.041, std = 0.245
- curvature mean = 0.056, std = 0.319
- curvature mean = 0.037, std = 0.303
- curvature mean = 0.030, std = 0.487
- curvature mean = 0.036, std = 0.329
- curvature mean = 0.017, std = 0.613
- curvature mean = 0.036, std = 0.340
- curvature mean = 0.005, std = 0.717
- MRISregister() return, current seed 0
- -01: dt=0.0000, 27 negative triangles
- 116: dt=0.9900, 27 negative triangles
- expanding nbhd size to 1
- 117: dt=0.9900, 32 negative triangles
- 118: dt=0.9900, 22 negative triangles
- 119: dt=0.9900, 20 negative triangles
- 120: dt=0.9900, 18 negative triangles
- 121: dt=0.9900, 17 negative triangles
- 122: dt=0.9900, 17 negative triangles
- 123: dt=0.9900, 14 negative triangles
- 124: dt=0.9900, 11 negative triangles
- 125: dt=0.9900, 8 negative triangles
- 126: dt=0.9900, 7 negative triangles
- 127: dt=0.9900, 5 negative triangles
- 128: dt=0.9900, 4 negative triangles
- 129: dt=0.9900, 5 negative triangles
- 130: dt=0.9900, 3 negative triangles
- 131: dt=0.9900, 4 negative triangles
- 132: dt=0.9900, 3 negative triangles
- 133: dt=0.9900, 4 negative triangles
- 134: dt=0.9900, 2 negative triangles
- 135: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 2.70 hours
- mris_register utimesec 9756.261822
- mris_register stimesec 4.800270
- mris_register ru_maxrss 257464
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 36305
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 5584
- mris_register ru_oublock 9744
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 323422
- mris_register ru_nivcsw 622419
- FSRUNTIME@ mris_register 2.6973 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 = 5.524
- curvature mean = 0.021, std = 0.818
- curvature mean = 0.018, std = 0.861
- Starting MRISrigidBodyAlignGlobal()
- d=32.00 min @ (-8.00, -8.00, 0.00) sse = 278204.7, tmin=3.4640
- d=16.00 min @ (4.00, 4.00, 4.00) sse = 216511.0, tmin=5.1942
- d=8.00 min @ (-2.00, 0.00, 0.00) sse = 214873.2, tmin=6.9557
- d=4.00 min @ (0.00, -1.00, 0.00) sse = 212338.1, tmin=8.7207
- d=2.00 min @ (0.50, 0.50, 0.50) sse = 211796.5, tmin=10.4893
- d=1.00 min @ (0.00, -0.25, 0.00) sse = 211581.9, tmin=12.2656
- d=0.50 min @ (-0.12, 0.00, -0.12) sse = 211575.1, tmin=14.0530
- 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 14.05 min
- curvature mean = 0.009, std = 0.825
- curvature mean = 0.007, std = 0.947
- curvature mean = 0.008, std = 0.835
- curvature mean = 0.003, std = 0.979
- curvature mean = 0.007, std = 0.836
- curvature mean = 0.001, std = 0.992
- 2 Reading smoothwm
- curvature mean = -0.029, std = 0.309
- curvature mean = 0.037, std = 0.239
- curvature mean = 0.069, std = 0.328
- curvature mean = 0.033, std = 0.297
- curvature mean = 0.042, std = 0.506
- curvature mean = 0.032, std = 0.324
- curvature mean = 0.024, std = 0.643
- curvature mean = 0.032, std = 0.335
- curvature mean = 0.008, std = 0.758
- MRISregister() return, current seed 0
- -01: dt=0.0000, 59 negative triangles
- 114: dt=0.9900, 59 negative triangles
- expanding nbhd size to 1
- 115: dt=0.9900, 76 negative triangles
- 116: dt=0.9900, 59 negative triangles
- 117: dt=0.9900, 54 negative triangles
- 118: dt=0.9900, 52 negative triangles
- 119: dt=0.9900, 46 negative triangles
- 120: dt=0.9900, 42 negative triangles
- 121: dt=0.9900, 41 negative triangles
- 122: dt=0.9900, 39 negative triangles
- 123: dt=0.9900, 42 negative triangles
- 124: dt=0.9900, 35 negative triangles
- 125: dt=0.9900, 28 negative triangles
- 126: dt=0.9900, 34 negative triangles
- 127: dt=0.9900, 37 negative triangles
- 128: dt=0.9900, 30 negative triangles
- 129: dt=0.9900, 32 negative triangles
- 130: dt=0.9900, 23 negative triangles
- 131: dt=0.9900, 20 negative triangles
- 132: dt=0.9900, 21 negative triangles
- 133: dt=0.9900, 22 negative triangles
- 134: dt=0.9900, 19 negative triangles
- 135: dt=0.9900, 20 negative triangles
- 136: dt=0.9900, 18 negative triangles
- 137: dt=0.9900, 17 negative triangles
- 138: dt=0.9900, 15 negative triangles
- 139: dt=0.9900, 13 negative triangles
- 140: dt=0.9900, 11 negative triangles
- 141: dt=0.9900, 11 negative triangles
- 142: dt=0.9900, 12 negative triangles
- 143: dt=0.9900, 10 negative triangles
- 144: dt=0.9900, 9 negative triangles
- 145: dt=0.9900, 8 negative triangles
- 146: dt=0.9900, 12 negative triangles
- 147: dt=0.9900, 7 negative triangles
- 148: dt=0.9900, 7 negative triangles
- 149: dt=0.9900, 7 negative triangles
- 150: dt=0.9900, 5 negative triangles
- 151: dt=0.9900, 7 negative triangles
- 152: dt=0.9900, 6 negative triangles
- 153: dt=0.9900, 6 negative triangles
- 154: dt=0.9900, 4 negative triangles
- 155: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- registration took 2.67 hours
- mris_register utimesec 9625.796656
- mris_register stimesec 5.606147
- mris_register ru_maxrss 254096
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 36153
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 5584
- mris_register ru_oublock 9744
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 315725
- mris_register ru_nivcsw 625716
- FSRUNTIME@ mris_register 2.6746 hours 1 threads
- PIDs (27241 27246) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Sun Oct 8 07:00:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Sun Oct 8 07:00:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 1897 of (1897 1900) to complete...
- Waiting for PID 1900 of (1897 1900) 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 (1897 1900) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Sun Oct 8 07:00:18 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mrisp_paint -a 5 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv
- #--------------------------------------------
- #@# AvgCurv rh Sun Oct 8 07:00:18 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 1943 of (1943 1946) to complete...
- Waiting for PID 1946 of (1943 1946) 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 (1943 1946) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Sun Oct 8 07:00:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051266 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot
- #-----------------------------------------
- #@# Cortical Parc rh Sun Oct 8 07:00:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051266 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 1990 of (1990 1993) to complete...
- Waiting for PID 1993 of (1990 1993) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051266 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...
- 1448 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3192 changed, 137356 examined...
- 001: 829 changed, 13317 examined...
- 002: 204 changed, 4535 examined...
- 003: 74 changed, 1227 examined...
- 004: 24 changed, 447 examined...
- 005: 12 changed, 145 examined...
- 006: 4 changed, 70 examined...
- 007: 1 changed, 24 examined...
- 008: 1 changed, 7 examined...
- 009: 0 changed, 7 examined...
- 349 labels changed using aseg
- 000: 145 total segments, 95 labels (300 vertices) changed
- 001: 45 total segments, 7 labels (22 vertices) changed
- 002: 38 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 5 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1840 vertices marked for relabeling...
- 1840 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 18 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051266 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...
- 1503 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2750 changed, 137112 examined...
- 001: 704 changed, 11853 examined...
- 002: 164 changed, 3786 examined...
- 003: 63 changed, 995 examined...
- 004: 16 changed, 396 examined...
- 005: 8 changed, 89 examined...
- 006: 2 changed, 52 examined...
- 007: 0 changed, 12 examined...
- 215 labels changed using aseg
- 000: 111 total segments, 74 labels (246 vertices) changed
- 001: 40 total segments, 3 labels (4 vertices) changed
- 002: 37 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 5 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1301 vertices marked for relabeling...
- 1301 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 17 seconds.
- PIDs (1990 1993) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Sun Oct 8 07:00:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051266 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Sun Oct 8 07:00:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051266 rh
- Waiting for PID 2050 of (2050 2053) to complete...
- Waiting for PID 2053 of (2050 2053) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051266 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-6.0.0/0051266/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- 26892 bright wm thresholded.
- 242 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.orig...
- computing class statistics...
- border white: 251675 voxels (1.50%)
- border gray 290512 voxels (1.73%)
- WM (97.0): 97.1 +- 10.1 [70.0 --> 110.0]
- GM (63.0) : 63.7 +- 10.5 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 47.5 (was 70)
- setting MAX_BORDER_WHITE to 114.1 (was 105)
- setting MIN_BORDER_WHITE to 58.0 (was 85)
- setting MAX_CSF to 37.0 (was 40)
- setting MAX_GRAY to 93.9 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 47.5 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 26.5 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=104+-7.8, GM=58+-7.8
- mean inside = 91.5, mean outside = 67.4
- 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 +- 0.25 (0.03-->3.94) (max @ vno 93730 --> 94762)
- face area 0.34 +- 0.16 (0.00-->2.39)
- mean absolute distance = 0.44 +- 0.57
- 2420 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 12 points - only 0.00% unknown
- deleting segment 3 with 10 points - only 0.00% unknown
- deleting segment 4 with 5 points - only 0.00% unknown
- deleting segment 5 with 381 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 6 with 3 points - only 0.00% unknown
- deleting segment 7 with 10 points - only 0.00% unknown
- deleting segment 8 with 12 points - only 0.00% unknown
- deleting segment 9 with 27 points - only 0.00% unknown
- deleting segment 10 with 5 points - only 0.00% unknown
- deleting segment 11 with 30 points - only 0.00% unknown
- deleting segment 12 with 6 points - only 0.00% unknown
- deleting segment 13 with 7 points - only 0.00% unknown
- mean border=72.6, 31 (31) missing vertices, mean dist 0.3 [0.5 (%11.7)->0.4 (%88.3))]
- %78 local maxima, %17 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 0.92 +- 0.26 (0.09-->3.77) (max @ vno 100750 --> 100749)
- face area 0.34 +- 0.16 (0.00-->2.32)
- mean absolute distance = 0.27 +- 0.38
- 2290 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2921673.5, rms=9.277
- 001: dt: 0.5000, sse=1395199.9, rms=5.277 (43.114%)
- 002: dt: 0.5000, sse=1181535.5, rms=4.467 (15.360%)
- rms = 4.43, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.5000, sse=1170626.2, rms=4.427 (0.885%)
- 004: dt: 0.2500, sse=846799.5, rms=2.633 (40.519%)
- 005: dt: 0.2500, sse=800021.0, rms=2.267 (13.901%)
- 006: dt: 0.2500, sse=788791.9, rms=2.157 (4.883%)
- 007: dt: 0.2500, sse=781300.2, rms=2.088 (3.173%)
- rms = 2.07, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=780023.3, rms=2.071 (0.839%)
- 009: dt: 0.1250, sse=757396.9, rms=1.828 (11.697%)
- rms = 1.80, time step reduction 3 of 3 to 0.062...
- 010: dt: 0.1250, sse=753784.8, rms=1.796 (1.783%)
- positioning took 1.2 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 12 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- deleting segment 3 with 2 points - only 0.00% unknown
- deleting segment 4 with 269 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 5 with 1 points - only 0.00% unknown
- deleting segment 6 with 9 points - only 0.00% unknown
- deleting segment 7 with 26 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 11 points - only 0.00% unknown
- deleting segment 10 with 6 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 11 with 1 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 12 with 3 points - only 0.00% unknown
- mean border=77.2, 32 (7) missing vertices, mean dist -0.2 [0.3 (%81.8)->0.2 (%18.2))]
- %88 local maxima, % 8 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 +- 0.25 (0.09-->3.90) (max @ vno 100750 --> 100749)
- face area 0.35 +- 0.17 (0.00-->2.49)
- mean absolute distance = 0.19 +- 0.29
- 2192 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1559845.9, rms=5.725
- 011: dt: 0.5000, sse=1091041.5, rms=3.852 (32.726%)
- rms = 4.35, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.2500, sse=870502.4, rms=2.534 (34.222%)
- 013: dt: 0.2500, sse=810301.9, rms=2.006 (20.819%)
- 014: dt: 0.2500, sse=783124.4, rms=1.754 (12.586%)
- rms = 1.75, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=781893.9, rms=1.748 (0.341%)
- 016: dt: 0.1250, sse=756887.6, rms=1.436 (17.818%)
- rms = 1.40, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=754839.2, rms=1.402 (2.383%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 12 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 1 with 4 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 2 with 4 points - only 0.00% unknown
- deleting segment 3 with 303 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 4 with 1 points - only 0.00% unknown
- deleting segment 5 with 9 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 6 with 3 points - only 0.00% unknown
- deleting segment 7 with 29 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 8 points - only 0.00% unknown
- deleting segment 11 with 11 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 12 with 3 points - only 0.00% unknown
- mean border=79.4, 39 (4) missing vertices, mean dist -0.1 [0.2 (%67.7)->0.2 (%32.3))]
- %90 local maxima, % 5 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 +- 0.25 (0.08-->3.93) (max @ vno 100750 --> 100749)
- face area 0.34 +- 0.16 (0.00-->2.44)
- mean absolute distance = 0.18 +- 0.26
- 2397 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=913854.2, rms=2.964
- rms = 3.91, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=779141.3, rms=1.900 (35.893%)
- 019: dt: 0.2500, sse=744281.6, rms=1.489 (21.664%)
- rms = 1.47, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=744496.8, rms=1.470 (1.264%)
- 021: dt: 0.1250, sse=727402.0, rms=1.270 (13.595%)
- rms = 1.26, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=726805.2, rms=1.260 (0.742%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 13 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 1 with 4 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 2 with 4 points - only 0.00% unknown
- deleting segment 3 with 309 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 4 with 1 points - only 0.00% unknown
- deleting segment 5 with 9 points - only 0.00% unknown
- deleting segment 6 with 29 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- deleting segment 8 with 17 points - only 0.00% unknown
- deleting segment 9 with 8 points - only 0.00% unknown
- deleting segment 10 with 11 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 11 with 3 points - only 0.00% unknown
- mean border=80.0, 43 (3) missing vertices, mean dist -0.0 [0.2 (%54.8)->0.2 (%45.2))]
- %91 local maxima, % 4 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-6.0.0/0051266/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=743273.3, rms=1.563
- rms = 2.52, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=705864.5, rms=1.014 (35.096%)
- 024: dt: 0.2500, sse=701570.6, rms=0.933 (8.026%)
- rms = 0.94, time step reduction 2 of 3 to 0.125...
- rms = 0.92, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=699944.2, rms=0.922 (1.189%)
- positioning took 0.5 minutes
- generating cortex label...
- 10 non-cortical segments detected
- only using segment with 7959 vertices
- erasing segment 1 (vno[0] = 75032)
- erasing segment 2 (vno[0] = 77060)
- erasing segment 3 (vno[0] = 78145)
- erasing segment 4 (vno[0] = 79530)
- erasing segment 5 (vno[0] = 92863)
- erasing segment 6 (vno[0] = 93835)
- erasing segment 7 (vno[0] = 94862)
- erasing segment 8 (vno[0] = 136897)
- erasing segment 9 (vno[0] = 137014)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.area
- vertex spacing 0.90 +- 0.26 (0.03-->3.94) (max @ vno 79309 --> 80356)
- face area 0.34 +- 0.16 (0.00-->2.49)
- 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...
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=46.4, 32 (32) missing vertices, mean dist 1.7 [1.2 (%0.0)->3.0 (%100.0))]
- %11 local maxima, %42 large gradients and %43 min vals, 430 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=31353048.0, rms=34.251
- 001: dt: 0.0500, sse=26794356.0, rms=31.605 (7.728%)
- 002: dt: 0.0500, sse=23573592.0, rms=29.592 (6.368%)
- 003: dt: 0.0500, sse=21152136.0, rms=27.984 (5.435%)
- 004: dt: 0.0500, sse=19233686.0, rms=26.641 (4.800%)
- 005: dt: 0.0500, sse=17657914.0, rms=25.484 (4.340%)
- 006: dt: 0.0500, sse=16324967.0, rms=24.464 (4.005%)
- 007: dt: 0.0500, sse=15174326.0, rms=23.547 (3.748%)
- 008: dt: 0.0500, sse=14165473.0, rms=22.712 (3.543%)
- 009: dt: 0.0500, sse=13271490.0, rms=21.947 (3.372%)
- 010: dt: 0.0500, sse=12471088.0, rms=21.237 (3.231%)
- positioning took 1.1 minutes
- mean border=46.3, 29 (16) missing vertices, mean dist 1.4 [0.3 (%0.0)->2.5 (%100.0))]
- %11 local maxima, %42 large gradients and %42 min vals, 369 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=13086350.0, rms=21.790
- 011: dt: 0.0500, sse=12362718.0, rms=21.145 (2.959%)
- 012: dt: 0.0500, sse=11707610.0, rms=20.544 (2.844%)
- 013: dt: 0.0500, sse=11111948.0, rms=19.981 (2.738%)
- 014: dt: 0.0500, sse=10568703.0, rms=19.454 (2.639%)
- 015: dt: 0.0500, sse=10072330.0, rms=18.959 (2.543%)
- 016: dt: 0.0500, sse=9618160.0, rms=18.495 (2.449%)
- 017: dt: 0.0500, sse=9201696.0, rms=18.059 (2.359%)
- 018: dt: 0.0500, sse=8819828.0, rms=17.649 (2.268%)
- 019: dt: 0.0500, sse=8469085.0, rms=17.264 (2.181%)
- 020: dt: 0.0500, sse=8146430.0, rms=16.902 (2.096%)
- positioning took 1.1 minutes
- mean border=46.2, 38 (13) missing vertices, mean dist 1.2 [0.1 (%0.5)->2.2 (%99.5))]
- %12 local maxima, %41 large gradients and %42 min vals, 375 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=8248432.5, rms=17.025
- 021: dt: 0.0500, sse=7947728.0, rms=16.683 (2.009%)
- 022: dt: 0.0500, sse=7670424.5, rms=16.361 (1.929%)
- 023: dt: 0.0500, sse=7413916.0, rms=16.057 (1.855%)
- 024: dt: 0.0500, sse=7176333.0, rms=15.771 (1.784%)
- 025: dt: 0.0500, sse=6955621.5, rms=15.500 (1.718%)
- 026: dt: 0.0500, sse=6749956.5, rms=15.243 (1.658%)
- 027: dt: 0.0500, sse=6557190.5, rms=14.998 (1.607%)
- 028: dt: 0.0500, sse=6375084.0, rms=14.763 (1.568%)
- 029: dt: 0.0500, sse=6202410.0, rms=14.536 (1.535%)
- 030: dt: 0.0500, sse=6038122.5, rms=14.317 (1.507%)
- positioning took 1.1 minutes
- mean border=46.2, 67 (12) missing vertices, mean dist 1.1 [0.1 (%4.2)->2.0 (%95.8))]
- %12 local maxima, %41 large gradients and %42 min vals, 370 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=6080355.0, rms=14.375
- 031: dt: 0.5000, sse=4924597.5, rms=12.735 (11.410%)
- 032: dt: 0.5000, sse=4093975.5, rms=11.404 (10.452%)
- 033: dt: 0.5000, sse=3459997.0, rms=10.272 (9.929%)
- 034: dt: 0.5000, sse=2990341.2, rms=9.339 (9.083%)
- 035: dt: 0.5000, sse=2631743.8, rms=8.557 (8.369%)
- 036: dt: 0.5000, sse=2344838.8, rms=7.873 (7.989%)
- 037: dt: 0.5000, sse=2102293.8, rms=7.248 (7.949%)
- 038: dt: 0.5000, sse=1906366.2, rms=6.698 (7.587%)
- 039: dt: 0.5000, sse=1751602.1, rms=6.232 (6.956%)
- 040: dt: 0.5000, sse=1636618.8, rms=5.859 (5.989%)
- 041: dt: 0.5000, sse=1545833.8, rms=5.550 (5.266%)
- 042: dt: 0.5000, sse=1482336.5, rms=5.320 (4.147%)
- 043: dt: 0.5000, sse=1434600.0, rms=5.143 (3.330%)
- 044: dt: 0.5000, sse=1403635.5, rms=5.023 (2.331%)
- 045: dt: 0.5000, sse=1377013.0, rms=4.919 (2.064%)
- 046: dt: 0.5000, sse=1364508.2, rms=4.867 (1.054%)
- 047: dt: 0.5000, sse=1351410.4, rms=4.816 (1.059%)
- rms = 4.78, time step reduction 1 of 3 to 0.250...
- 048: dt: 0.5000, sse=1343118.1, rms=4.781 (0.718%)
- 049: dt: 0.2500, sse=1279974.9, rms=4.472 (6.462%)
- 050: dt: 0.2500, sse=1262523.4, rms=4.395 (1.727%)
- rms = 4.40, time step reduction 2 of 3 to 0.125...
- rms = 4.38, time step reduction 3 of 3 to 0.062...
- 051: dt: 0.1250, sse=1258802.9, rms=4.376 (0.432%)
- positioning took 3.1 minutes
- mean border=45.0, 2614 (3) missing vertices, mean dist 0.1 [0.2 (%45.5)->0.6 (%54.5))]
- %26 local maxima, %30 large gradients and %38 min vals, 217 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=1559749.4, rms=4.654
- 052: dt: 0.5000, sse=1451217.9, rms=4.182 (10.155%)
- 053: dt: 0.5000, sse=1408278.4, rms=4.019 (3.893%)
- rms = 4.03, time step reduction 1 of 3 to 0.250...
- 054: dt: 0.2500, sse=1340223.8, rms=3.625 (9.796%)
- 055: dt: 0.2500, sse=1316718.8, rms=3.475 (4.140%)
- rms = 3.43, time step reduction 2 of 3 to 0.125...
- 056: dt: 0.2500, sse=1308991.0, rms=3.431 (1.285%)
- 057: dt: 0.1250, sse=1295370.0, rms=3.344 (2.533%)
- rms = 3.32, time step reduction 3 of 3 to 0.062...
- 058: dt: 0.1250, sse=1291181.2, rms=3.321 (0.682%)
- positioning took 1.3 minutes
- mean border=44.2, 2701 (3) missing vertices, mean dist 0.1 [0.2 (%45.2)->0.4 (%54.8))]
- %39 local maxima, %17 large gradients and %37 min vals, 205 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=1344830.4, rms=3.590
- rms = 3.77, time step reduction 1 of 3 to 0.250...
- 059: dt: 0.2500, sse=1317621.5, rms=3.432 (4.400%)
- 060: dt: 0.2500, sse=1304079.5, rms=3.359 (2.137%)
- rms = 3.33, time step reduction 2 of 3 to 0.125...
- 061: dt: 0.2500, sse=1296947.4, rms=3.327 (0.957%)
- 062: dt: 0.1250, sse=1283947.0, rms=3.244 (2.466%)
- rms = 3.22, time step reduction 3 of 3 to 0.062...
- 063: dt: 0.1250, sse=1279615.2, rms=3.222 (0.683%)
- positioning took 1.0 minutes
- mean border=43.7, 4962 (3) missing vertices, mean dist 0.1 [0.2 (%47.0)->0.3 (%53.0))]
- %41 local maxima, %15 large gradients and %36 min vals, 187 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-6.0.0/0051266/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1302167.8, rms=3.334
- rms = 3.52, time step reduction 1 of 3 to 0.250...
- 064: dt: 0.2500, sse=1287937.9, rms=3.247 (2.600%)
- 065: dt: 0.2500, sse=1275178.9, rms=3.191 (1.731%)
- rms = 3.17, time step reduction 2 of 3 to 0.125...
- 066: dt: 0.2500, sse=1270321.6, rms=3.172 (0.591%)
- 067: dt: 0.1250, sse=1257342.0, rms=3.088 (2.641%)
- rms = 3.07, time step reduction 3 of 3 to 0.062...
- 068: dt: 0.1250, sse=1253206.0, rms=3.069 (0.639%)
- positioning took 1.0 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.area.pial
- vertex spacing 1.06 +- 0.48 (0.07-->6.34) (max @ vno 91733 --> 90533)
- face area 0.44 +- 0.36 (0.00-->5.09)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 137356 vertices processed
- 25000 of 137356 vertices processed
- 50000 of 137356 vertices processed
- 75000 of 137356 vertices processed
- 100000 of 137356 vertices processed
- 125000 of 137356 vertices processed
- 0 of 137356 vertices processed
- 25000 of 137356 vertices processed
- 50000 of 137356 vertices processed
- 75000 of 137356 vertices processed
- 100000 of 137356 vertices processed
- 125000 of 137356 vertices processed
- thickness calculation complete, 527:1982 truncations.
- 24990 vertices at 0 distance
- 86666 vertices at 1 distance
- 88015 vertices at 2 distance
- 41635 vertices at 3 distance
- 13841 vertices at 4 distance
- 4002 vertices at 5 distance
- 1362 vertices at 6 distance
- 468 vertices at 7 distance
- 190 vertices at 8 distance
- 106 vertices at 9 distance
- 62 vertices at 10 distance
- 50 vertices at 11 distance
- 35 vertices at 12 distance
- 48 vertices at 13 distance
- 29 vertices at 14 distance
- 29 vertices at 15 distance
- 22 vertices at 16 distance
- 16 vertices at 17 distance
- 9 vertices at 18 distance
- 20 vertices at 19 distance
- 21 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.thickness
- positioning took 16.8 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051266 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-6.0.0/0051266/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- 26892 bright wm thresholded.
- 242 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.orig...
- computing class statistics...
- border white: 251675 voxels (1.50%)
- border gray 290512 voxels (1.73%)
- WM (97.0): 97.1 +- 10.1 [70.0 --> 110.0]
- GM (63.0) : 63.7 +- 10.5 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 50.5 (was 70)
- setting MAX_BORDER_WHITE to 113.1 (was 105)
- setting MIN_BORDER_WHITE to 61.0 (was 85)
- setting MAX_CSF to 40.0 (was 40)
- setting MAX_GRAY to 92.9 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 50.5 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 29.5 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=103+-7.0, GM=61+-7.0
- mean inside = 91.5, mean outside = 68.3
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.89 +- 0.25 (0.05-->4.38) (max @ vno 103092 --> 136888)
- face area 0.33 +- 0.15 (0.00-->2.60)
- mean absolute distance = 0.44 +- 0.65
- 2268 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 2 with 21 points - only 0.00% unknown
- deleting segment 3 with 35 points - only 0.00% unknown
- deleting segment 4 with 483 points - only 0.00% unknown
- deleting segment 5 with 12 points - only 0.00% unknown
- deleting segment 6 with 11 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- deleting segment 8 with 8 points - only 0.00% unknown
- mean border=75.1, 51 (51) missing vertices, mean dist 0.3 [0.5 (%14.5)->0.4 (%85.5))]
- %72 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.91 +- 0.26 (0.10-->4.53) (max @ vno 136888 --> 103092)
- face area 0.33 +- 0.16 (0.00-->2.54)
- mean absolute distance = 0.27 +- 0.43
- 2262 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2435991.8, rms=8.224
- 001: dt: 0.5000, sse=1312694.2, rms=4.985 (39.383%)
- 002: dt: 0.5000, sse=1147683.6, rms=4.244 (14.857%)
- rms = 4.33, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.2500, sse=898809.6, rms=3.016 (28.945%)
- 004: dt: 0.2500, sse=818244.0, rms=2.452 (18.689%)
- 005: dt: 0.2500, sse=787213.4, rms=2.182 (11.003%)
- 006: dt: 0.2500, sse=778645.6, rms=2.109 (3.373%)
- 007: dt: 0.2500, sse=773325.1, rms=2.052 (2.703%)
- rms = 2.03, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=771238.3, rms=2.028 (1.135%)
- 009: dt: 0.1250, sse=750892.4, rms=1.824 (10.075%)
- rms = 1.79, time step reduction 3 of 3 to 0.062...
- 010: dt: 0.1250, sse=748323.3, rms=1.795 (1.609%)
- positioning took 1.2 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 1 vertex label from ripped group
- deleting segment 2 with 15 points - only 0.00% unknown
- deleting segment 3 with 36 points - only 0.00% unknown
- deleting segment 4 with 249 points - only 0.00% unknown
- deleting segment 5 with 6 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 6 with 4 points - only 0.00% unknown
- deleting segment 7 with 8 points - only 0.00% unknown
- deleting segment 8 with 54 points - only 0.00% unknown
- deleting segment 9 with 5 points - only 0.00% unknown
- mean border=78.9, 55 (19) missing vertices, mean dist -0.2 [0.3 (%76.8)->0.2 (%23.2))]
- %82 local maxima, %14 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 +- 0.25 (0.07-->4.73) (max @ vno 136888 --> 103092)
- face area 0.35 +- 0.16 (0.00-->2.73)
- mean absolute distance = 0.20 +- 0.33
- 2322 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1345679.8, rms=4.990
- 011: dt: 0.5000, sse=1049068.8, rms=3.640 (27.062%)
- rms = 4.17, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.2500, sse=850064.7, rms=2.439 (32.986%)
- 013: dt: 0.2500, sse=790990.6, rms=1.923 (21.148%)
- 014: dt: 0.2500, sse=770882.9, rms=1.720 (10.584%)
- rms = 1.69, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=768944.8, rms=1.693 (1.555%)
- 016: dt: 0.1250, sse=748557.5, rms=1.446 (14.574%)
- rms = 1.42, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=746656.7, rms=1.421 (1.762%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- deleting segment 1 with 14 points - only 0.00% unknown
- deleting segment 2 with 40 points - only 0.00% unknown
- deleting segment 3 with 341 points - only 0.00% unknown
- deleting segment 4 with 10 points - only 0.00% unknown
- deleting segment 5 with 6 points - only 0.00% unknown
- deleting segment 6 with 8 points - only 0.00% unknown
- deleting segment 7 with 66 points - only 0.00% unknown
- deleting segment 8 with 8 points - only 0.00% unknown
- mean border=80.8, 60 (11) missing vertices, mean dist -0.1 [0.2 (%65.4)->0.2 (%34.6))]
- %85 local maxima, %10 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 +- 0.25 (0.09-->4.88) (max @ vno 136888 --> 103092)
- face area 0.34 +- 0.16 (0.00-->2.88)
- mean absolute distance = 0.20 +- 0.29
- 2598 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=880817.6, rms=2.787
- rms = 3.53, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=769149.9, rms=1.863 (33.138%)
- 019: dt: 0.2500, sse=734725.5, rms=1.455 (21.926%)
- rms = 1.44, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=732160.9, rms=1.439 (1.104%)
- 021: dt: 0.1250, sse=723287.6, rms=1.287 (10.552%)
- rms = 1.28, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=721175.5, rms=1.281 (0.468%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 16 points - only 0.00% unknown
- deleting segment 1 with 40 points - only 0.00% unknown
- deleting segment 2 with 345 points - only 0.00% unknown
- deleting segment 3 with 17 points - only 0.00% unknown
- deleting segment 4 with 6 points - only 0.00% unknown
- deleting segment 5 with 11 points - only 0.00% unknown
- deleting segment 6 with 69 points - only 0.00% unknown
- deleting segment 7 with 9 points - only 0.00% unknown
- mean border=81.5, 59 (10) missing vertices, mean dist -0.0 [0.2 (%53.7)->0.2 (%46.3))]
- %87 local maxima, % 8 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-6.0.0/0051266/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=737499.8, rms=1.579
- rms = 2.35, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=701313.9, rms=1.054 (33.237%)
- 024: dt: 0.2500, sse=695164.4, rms=0.943 (10.575%)
- rms = 0.96, time step reduction 2 of 3 to 0.125...
- rms = 0.93, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=693662.7, rms=0.931 (1.277%)
- positioning took 0.5 minutes
- generating cortex label...
- 6 non-cortical segments detected
- only using segment with 7584 vertices
- erasing segment 1 (vno[0] = 80283)
- erasing segment 2 (vno[0] = 85654)
- erasing segment 3 (vno[0] = 86772)
- erasing segment 4 (vno[0] = 99322)
- erasing segment 5 (vno[0] = 100238)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.area
- vertex spacing 0.90 +- 0.26 (0.05-->4.90) (max @ vno 103092 --> 136888)
- face area 0.34 +- 0.16 (0.00-->3.02)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=49.3, 65 (65) missing vertices, mean dist 1.6 [5.7 (%0.0)->2.9 (%100.0))]
- %12 local maxima, %41 large gradients and %42 min vals, 601 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=28829126.0, rms=32.805
- 001: dt: 0.0500, sse=24696150.0, rms=30.303 (7.628%)
- 002: dt: 0.0500, sse=21762440.0, rms=28.393 (6.303%)
- 003: dt: 0.0500, sse=19549276.0, rms=26.862 (5.391%)
- 004: dt: 0.0500, sse=17791064.0, rms=25.581 (4.770%)
- 005: dt: 0.0500, sse=16340005.0, rms=24.473 (4.332%)
- 006: dt: 0.0500, sse=15109036.0, rms=23.492 (4.009%)
- 007: dt: 0.0500, sse=14045090.0, rms=22.610 (3.755%)
- 008: dt: 0.0500, sse=13110976.0, rms=21.806 (3.556%)
- 009: dt: 0.0500, sse=12281744.0, rms=21.066 (3.391%)
- 010: dt: 0.0500, sse=11538597.0, rms=20.380 (3.255%)
- positioning took 1.1 minutes
- mean border=49.2, 67 (44) missing vertices, mean dist 1.4 [0.1 (%0.0)->2.4 (%100.0))]
- %13 local maxima, %41 large gradients and %42 min vals, 555 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=12210195.0, rms=21.007
- 011: dt: 0.0500, sse=11536315.0, rms=20.384 (2.963%)
- 012: dt: 0.0500, sse=10925567.0, rms=19.803 (2.851%)
- 013: dt: 0.0500, sse=10370231.0, rms=19.260 (2.745%)
- 014: dt: 0.0500, sse=9863866.0, rms=18.750 (2.646%)
- 015: dt: 0.0500, sse=9401779.0, rms=18.273 (2.547%)
- 016: dt: 0.0500, sse=8978229.0, rms=17.824 (2.457%)
- 017: dt: 0.0500, sse=8591435.0, rms=17.403 (2.358%)
- 018: dt: 0.0500, sse=8237339.0, rms=17.009 (2.263%)
- 019: dt: 0.0500, sse=7912929.0, rms=16.640 (2.170%)
- 020: dt: 0.0500, sse=7614914.5, rms=16.294 (2.083%)
- positioning took 1.1 minutes
- mean border=49.0, 77 (34) missing vertices, mean dist 1.2 [0.1 (%1.4)->2.1 (%98.6))]
- %13 local maxima, %41 large gradients and %42 min vals, 576 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=7711709.0, rms=16.414
- 021: dt: 0.0500, sse=7431585.0, rms=16.084 (2.012%)
- 022: dt: 0.0500, sse=7173718.5, rms=15.774 (1.928%)
- 023: dt: 0.0500, sse=6934565.0, rms=15.481 (1.859%)
- 024: dt: 0.0500, sse=6713870.0, rms=15.205 (1.781%)
- 025: dt: 0.0500, sse=6509444.0, rms=14.945 (1.710%)
- 026: dt: 0.0500, sse=6319380.5, rms=14.699 (1.646%)
- 027: dt: 0.0500, sse=6141633.5, rms=14.465 (1.592%)
- 028: dt: 0.0500, sse=5973977.5, rms=14.240 (1.551%)
- 029: dt: 0.0500, sse=5815387.5, rms=14.025 (1.514%)
- 030: dt: 0.0500, sse=5664856.5, rms=13.817 (1.482%)
- positioning took 1.1 minutes
- mean border=49.0, 105 (32) missing vertices, mean dist 1.0 [0.1 (%8.9)->2.0 (%91.1))]
- %14 local maxima, %41 large gradients and %41 min vals, 527 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=5752446.0, rms=13.937
- 031: dt: 0.5000, sse=4659929.5, rms=12.341 (11.455%)
- 032: dt: 0.5000, sse=3908610.8, rms=11.101 (10.046%)
- 033: dt: 0.5000, sse=3338973.8, rms=10.059 (9.385%)
- 034: dt: 0.5000, sse=2909513.8, rms=9.189 (8.652%)
- 035: dt: 0.5000, sse=2576496.2, rms=8.452 (8.020%)
- 036: dt: 0.5000, sse=2322332.0, rms=7.840 (7.247%)
- 037: dt: 0.5000, sse=2109764.0, rms=7.290 (7.015%)
- 038: dt: 0.5000, sse=1935547.9, rms=6.806 (6.632%)
- 039: dt: 0.5000, sse=1794965.1, rms=6.390 (6.110%)
- 040: dt: 0.5000, sse=1691980.5, rms=6.066 (5.072%)
- 041: dt: 0.5000, sse=1607491.0, rms=5.787 (4.604%)
- 042: dt: 0.5000, sse=1544336.4, rms=5.569 (3.758%)
- 043: dt: 0.5000, sse=1495292.5, rms=5.394 (3.153%)
- 044: dt: 0.5000, sse=1460590.8, rms=5.266 (2.377%)
- 045: dt: 0.5000, sse=1433632.9, rms=5.164 (1.929%)
- 046: dt: 0.5000, sse=1415751.4, rms=5.094 (1.351%)
- 047: dt: 0.5000, sse=1400950.1, rms=5.038 (1.103%)
- rms = 5.01, time step reduction 1 of 3 to 0.250...
- 048: dt: 0.5000, sse=1394176.5, rms=5.009 (0.575%)
- 049: dt: 0.2500, sse=1339289.0, rms=4.752 (5.130%)
- 050: dt: 0.2500, sse=1323277.2, rms=4.686 (1.400%)
- rms = 4.69, time step reduction 2 of 3 to 0.125...
- rms = 4.67, time step reduction 3 of 3 to 0.062...
- 051: dt: 0.1250, sse=1320026.4, rms=4.670 (0.336%)
- positioning took 3.0 minutes
- mean border=47.8, 2256 (6) missing vertices, mean dist 0.2 [0.2 (%43.8)->0.8 (%56.2))]
- %27 local maxima, %30 large gradients and %37 min vals, 258 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=1597406.5, rms=4.893
- 052: dt: 0.5000, sse=1483321.9, rms=4.422 (9.631%)
- 053: dt: 0.5000, sse=1430904.4, rms=4.219 (4.585%)
- rms = 4.18, time step reduction 1 of 3 to 0.250...
- 054: dt: 0.5000, sse=1420561.2, rms=4.180 (0.932%)
- 055: dt: 0.2500, sse=1345752.1, rms=3.752 (10.218%)
- 056: dt: 0.2500, sse=1318392.6, rms=3.608 (3.845%)
- rms = 3.56, time step reduction 2 of 3 to 0.125...
- 057: dt: 0.2500, sse=1310449.2, rms=3.565 (1.205%)
- 058: dt: 0.1250, sse=1295500.2, rms=3.474 (2.531%)
- rms = 3.45, time step reduction 3 of 3 to 0.062...
- 059: dt: 0.1250, sse=1290512.5, rms=3.447 (0.793%)
- positioning took 1.3 minutes
- mean border=47.0, 2479 (3) missing vertices, mean dist 0.1 [0.2 (%42.1)->0.5 (%57.9))]
- %39 local maxima, %18 large gradients and %36 min vals, 286 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=1367614.5, rms=3.771
- rms = 3.82, time step reduction 1 of 3 to 0.250...
- 060: dt: 0.2500, sse=1338745.4, rms=3.612 (4.232%)
- 061: dt: 0.2500, sse=1319632.2, rms=3.508 (2.884%)
- rms = 3.46, time step reduction 2 of 3 to 0.125...
- 062: dt: 0.2500, sse=1309641.5, rms=3.460 (1.362%)
- 063: dt: 0.1250, sse=1297675.2, rms=3.385 (2.153%)
- rms = 3.36, time step reduction 3 of 3 to 0.062...
- 064: dt: 0.1250, sse=1291972.1, rms=3.356 (0.879%)
- positioning took 1.0 minutes
- mean border=46.4, 5015 (3) missing vertices, mean dist 0.1 [0.2 (%44.2)->0.4 (%55.8))]
- %42 local maxima, %15 large gradients and %35 min vals, 263 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-6.0.0/0051266/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1316319.9, rms=3.465
- rms = 3.54, time step reduction 1 of 3 to 0.250...
- 065: dt: 0.2500, sse=1300105.2, rms=3.371 (2.707%)
- 066: dt: 0.2500, sse=1282930.6, rms=3.289 (2.437%)
- rms = 3.25, time step reduction 2 of 3 to 0.125...
- 067: dt: 0.2500, sse=1273866.2, rms=3.245 (1.317%)
- 068: dt: 0.1250, sse=1261355.4, rms=3.167 (2.427%)
- rms = 3.14, time step reduction 3 of 3 to 0.062...
- 069: dt: 0.1250, sse=1256613.6, rms=3.142 (0.761%)
- positioning took 1.0 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.area.pial
- vertex spacing 1.05 +- 0.48 (0.05-->8.17) (max @ vno 136888 --> 103092)
- face area 0.43 +- 0.36 (0.00-->7.77)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 137112 vertices processed
- 25000 of 137112 vertices processed
- 50000 of 137112 vertices processed
- 75000 of 137112 vertices processed
- 100000 of 137112 vertices processed
- 125000 of 137112 vertices processed
- 0 of 137112 vertices processed
- 25000 of 137112 vertices processed
- 50000 of 137112 vertices processed
- 75000 of 137112 vertices processed
- 100000 of 137112 vertices processed
- 125000 of 137112 vertices processed
- thickness calculation complete, 644:2117 truncations.
- 24598 vertices at 0 distance
- 83758 vertices at 1 distance
- 87249 vertices at 2 distance
- 43693 vertices at 3 distance
- 15098 vertices at 4 distance
- 4574 vertices at 5 distance
- 1582 vertices at 6 distance
- 567 vertices at 7 distance
- 257 vertices at 8 distance
- 140 vertices at 9 distance
- 83 vertices at 10 distance
- 48 vertices at 11 distance
- 36 vertices at 12 distance
- 27 vertices at 13 distance
- 28 vertices at 14 distance
- 23 vertices at 15 distance
- 20 vertices at 16 distance
- 15 vertices at 17 distance
- 8 vertices at 18 distance
- 7 vertices at 19 distance
- 35 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.thickness
- positioning took 16.9 minutes
- PIDs (2050 2053) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Sun Oct 8 07:17:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0051266 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/label/lh.cortex.label
- Total face volume 295531
- Total vertex volume 291663 (mask=0)
- #@# 0051266 lh 291663
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Sun Oct 8 07:17:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0051266 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/label/rh.cortex.label
- Total face volume 287244
- Total vertex volume 282602 (mask=0)
- #@# 0051266 rh 282602
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Sun Oct 8 07:17:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0051266
- 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 = 517
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/ribbon.mgz
- mris_volmask took 19.07 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Sun Oct 8 07:36:42 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0051266 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 0051266 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Sun Oct 8 07:36:42 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0051266 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 0051266 rh pial
- Waiting for PID 3565 of (3565 3568 3571 3574) to complete...
- Waiting for PID 3568 of (3565 3568 3571 3574) to complete...
- Waiting for PID 3571 of (3565 3568 3571 3574) to complete...
- Waiting for PID 3574 of (3565 3568 3571 3574) 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 0051266 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 295531
- Total vertex volume 291663 (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) = 1397612 mm^3 (det: 1.393882 )
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 1688 1207 3407 3.006 0.481 0.098 0.017 10 1.1 bankssts
- 1335 901 3295 2.997 0.714 0.130 0.023 26 1.1 caudalanteriorcingulate
- 4093 2761 9417 2.948 0.548 0.117 0.024 42 4.0 caudalmiddlefrontal
- 2161 1535 3345 2.002 0.526 0.137 0.030 30 2.6 cuneus
- 824 561 2425 3.191 0.858 0.118 0.030 9 1.0 entorhinal
- 4289 2989 10866 3.066 0.536 0.119 0.024 59 4.1 fusiform
- 6548 4479 14539 2.837 0.544 0.117 0.025 78 6.6 inferiorparietal
- 5797 3902 14463 3.099 0.659 0.113 0.025 73 5.6 inferiortemporal
- 1547 981 3128 2.656 1.091 0.123 0.030 23 1.6 isthmuscingulate
- 6920 4685 13030 2.466 0.529 0.133 0.030 95 7.7 lateraloccipital
- 3953 2688 8469 2.810 0.746 0.132 0.035 52 5.4 lateralorbitofrontal
- 3743 2560 7709 2.580 0.754 0.137 0.034 52 5.1 lingual
- 2543 1762 5266 2.657 0.728 0.134 0.036 49 3.5 medialorbitofrontal
- 4696 3383 14057 3.213 0.661 0.131 0.031 73 5.6 middletemporal
- 966 647 2382 3.174 0.596 0.082 0.015 5 0.5 parahippocampal
- 2219 1508 4677 2.746 0.628 0.098 0.018 16 1.5 paracentral
- 2192 1497 5416 2.991 0.498 0.098 0.022 21 1.9 parsopercularis
- 906 659 2658 2.861 0.691 0.138 0.033 16 1.2 parsorbitalis
- 1972 1360 4211 2.651 0.510 0.109 0.024 21 1.9 parstriangularis
- 1388 998 1742 1.985 0.475 0.134 0.031 15 1.6 pericalcarine
- 6692 4438 13302 2.495 0.731 0.115 0.025 72 6.4 postcentral
- 1971 1350 4073 2.734 0.956 0.131 0.023 29 1.8 posteriorcingulate
- 7464 4971 15960 2.854 0.584 0.115 0.025 71 7.2 precentral
- 5701 3945 12667 2.871 0.613 0.122 0.025 65 5.8 precuneus
- 1372 916 3359 3.044 0.666 0.133 0.035 28 1.7 rostralanteriorcingulate
- 10259 7112 22189 2.583 0.598 0.134 0.034 172 14.2 rostralmiddlefrontal
- 11582 7902 29650 3.059 0.645 0.120 0.028 140 13.0 superiorfrontal
- 8481 5626 17437 2.659 0.540 0.119 0.023 100 7.8 superiorparietal
- 4979 3412 12758 3.111 0.674 0.102 0.018 45 3.9 superiortemporal
- 5409 3697 12672 2.994 0.625 0.130 0.029 71 6.4 supramarginal
- 400 271 1226 2.822 0.587 0.161 0.045 10 0.7 frontalpole
- 687 516 2948 3.828 0.814 0.142 0.036 9 1.0 temporalpole
- 549 369 1052 2.786 0.343 0.125 0.024 7 0.5 transversetemporal
- 3637 2484 7868 3.178 0.905 0.120 0.039 41 5.5 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 0051266 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 295531
- Total vertex volume 291663 (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) = 1397612 mm^3 (det: 1.393882 )
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 1688 1081 3407 3.006 0.481 0.125 0.031 26 2.4 bankssts
- 1335 1256 3295 2.997 0.714 0.165 0.043 34 2.4 caudalanteriorcingulate
- 4093 3462 9417 2.948 0.548 0.139 0.033 53 6.1 caudalmiddlefrontal
- 2161 1954 3345 2.002 0.526 0.155 0.037 46 3.4 cuneus
- 824 907 2425 3.191 0.858 0.185 0.050 14 1.9 entorhinal
- 4289 4137 10866 3.066 0.536 0.163 0.039 68 7.5 fusiform
- 6548 5655 14539 2.837 0.544 0.147 0.032 99 9.6 inferiorparietal
- 5797 5277 14463 3.099 0.659 0.162 0.041 96 10.7 inferiortemporal
- 1547 1328 3128 2.656 1.091 0.169 0.050 32 3.0 isthmuscingulate
- 6920 5935 13030 2.466 0.529 0.141 0.030 87 9.7 lateraloccipital
- 3953 3217 8469 2.810 0.746 0.162 0.045 81 8.2 lateralorbitofrontal
- 3743 3500 7709 2.580 0.754 0.167 0.044 55 7.9 lingual
- 2543 2279 5266 2.657 0.728 0.169 0.050 44 5.1 medialorbitofrontal
- 4696 5013 14057 3.213 0.661 0.177 0.039 73 8.4 middletemporal
- 966 871 2382 3.174 0.596 0.140 0.031 11 1.4 parahippocampal
- 2219 1877 4677 2.746 0.628 0.135 0.028 25 3.0 paracentral
- 2192 2045 5416 2.991 0.498 0.145 0.030 25 3.1 parsopercularis
- 906 1140 2658 2.861 0.691 0.200 0.040 11 1.7 parsorbitalis
- 1972 1774 4211 2.651 0.510 0.153 0.036 27 3.2 parstriangularis
- 1388 821 1742 1.985 0.475 0.121 0.032 21 1.8 pericalcarine
- 6692 5980 13302 2.495 0.731 0.148 0.033 74 10.5 postcentral
- 1971 1571 4073 2.734 0.956 0.159 0.043 49 3.8 posteriorcingulate
- 7464 5975 15960 2.854 0.584 0.130 0.031 130 10.5 precentral
- 5701 4677 12667 2.871 0.613 0.152 0.042 93 10.7 precuneus
- 1372 1297 3359 3.044 0.666 0.187 0.052 30 3.2 rostralanteriorcingulate
- 10259 9554 22189 2.583 0.598 0.174 0.044 166 20.9 rostralmiddlefrontal
- 11582 10860 29650 3.059 0.645 0.158 0.041 195 21.7 superiorfrontal
- 8481 7221 17437 2.659 0.540 0.144 0.033 112 13.0 superiorparietal
- 4979 4563 12758 3.111 0.674 0.150 0.033 65 7.7 superiortemporal
- 5409 4620 12672 2.994 0.625 0.151 0.038 75 9.2 supramarginal
- 400 585 1226 2.822 0.587 0.259 0.047 6 1.1 frontalpole
- 687 1030 2948 3.828 0.814 0.228 0.044 9 1.6 temporalpole
- 549 411 1052 2.786 0.343 0.128 0.032 6 0.8 transversetemporal
- 3637 2329 7868 3.178 0.905 0.135 0.044 80 6.5 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 0051266 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 287244
- Total vertex volume 282602 (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) = 1397612 mm^3 (det: 1.393882 )
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 1492 1038 2827 2.960 0.449 0.094 0.016 8 1.0 bankssts
- 1488 1038 3467 2.619 1.018 0.129 0.024 23 1.5 caudalanteriorcingulate
- 3450 2326 8391 3.013 0.672 0.105 0.021 32 2.8 caudalmiddlefrontal
- 2223 1444 3709 2.191 0.517 0.136 0.032 33 2.5 cuneus
- 743 528 2669 3.537 0.795 0.124 0.028 9 0.9 entorhinal
- 4067 2780 9067 2.889 0.642 0.126 0.036 61 5.9 fusiform
- 8987 6119 19877 2.837 0.544 0.122 0.026 108 9.6 inferiorparietal
- 5259 3526 14703 3.292 0.689 0.126 0.032 76 6.6 inferiortemporal
- 1417 908 2896 2.641 0.939 0.120 0.029 19 1.3 isthmuscingulate
- 6537 4314 13239 2.586 0.606 0.141 0.035 95 8.5 lateraloccipital
- 3385 2348 7530 2.765 0.861 0.139 0.040 60 5.7 lateralorbitofrontal
- 3682 2525 7018 2.434 0.732 0.139 0.035 61 4.8 lingual
- 2708 1894 5586 2.332 0.782 0.137 0.041 58 4.8 medialorbitofrontal
- 5512 3777 14244 3.125 0.651 0.128 0.030 79 7.0 middletemporal
- 811 549 2137 3.249 0.709 0.094 0.021 7 0.5 parahippocampal
- 2384 1566 5088 2.882 0.616 0.104 0.024 18 2.0 paracentral
- 1991 1391 4406 2.722 0.567 0.116 0.029 24 2.2 parsopercularis
- 1100 732 2727 2.692 0.608 0.143 0.046 27 2.2 parsorbitalis
- 1727 1228 3386 2.317 0.591 0.117 0.027 22 2.2 parstriangularis
- 1989 1339 2757 2.217 0.586 0.127 0.030 20 2.4 pericalcarine
- 6376 4297 12323 2.500 0.711 0.124 0.027 78 6.5 postcentral
- 2131 1436 4418 2.645 0.931 0.131 0.028 30 2.4 posteriorcingulate
- 7344 4812 15136 2.800 0.572 0.106 0.022 61 6.2 precentral
- 5938 3974 11888 2.791 0.592 0.122 0.029 71 6.7 precuneus
- 1265 862 3102 2.879 0.600 0.129 0.033 20 1.8 rostralanteriorcingulate
- 9663 6523 19509 2.413 0.636 0.128 0.037 170 14.7 rostralmiddlefrontal
- 11513 7813 28032 2.920 0.694 0.121 0.028 144 13.0 superiorfrontal
- 8360 5554 15824 2.493 0.521 0.123 0.028 108 8.5 superiorparietal
- 5306 3528 13115 3.129 0.625 0.104 0.022 48 4.7 superiortemporal
- 4989 3388 11112 2.860 0.544 0.119 0.025 66 5.1 supramarginal
- 526 337 1292 2.507 0.680 0.175 0.080 18 2.0 frontalpole
- 639 447 2472 3.481 0.831 0.127 0.048 10 1.1 temporalpole
- 519 326 992 2.883 0.378 0.141 0.028 8 0.5 transversetemporal
- 3151 2174 7597 3.395 0.775 0.114 0.030 28 3.5 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 0051266 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 287244
- Total vertex volume 282602 (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) = 1397612 mm^3 (det: 1.393882 )
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 1492 911 2827 2.960 0.449 0.124 0.034 25 2.4 bankssts
- 1488 1454 3467 2.619 1.018 0.179 0.048 27 3.1 caudalanteriorcingulate
- 3450 2987 8391 3.013 0.672 0.135 0.030 39 4.8 caudalmiddlefrontal
- 2223 1935 3709 2.191 0.517 0.154 0.036 30 3.9 cuneus
- 743 934 2669 3.537 0.795 0.199 0.044 12 1.6 entorhinal
- 4067 3422 9067 2.889 0.642 0.163 0.043 75 8.3 fusiform
- 8987 7684 19877 2.837 0.544 0.155 0.037 140 15.7 inferiorparietal
- 5259 5191 14703 3.292 0.689 0.171 0.041 93 10.1 inferiortemporal
- 1417 1226 2896 2.641 0.939 0.169 0.045 28 2.7 isthmuscingulate
- 6537 5833 13239 2.586 0.606 0.151 0.038 114 10.9 lateraloccipital
- 3385 3026 7530 2.765 0.861 0.177 0.048 53 7.4 lateralorbitofrontal
- 3682 3296 7018 2.434 0.732 0.162 0.041 56 6.8 lingual
- 2708 2715 5586 2.332 0.782 0.198 0.056 55 7.0 medialorbitofrontal
- 5512 5195 14244 3.125 0.651 0.165 0.040 94 10.2 middletemporal
- 811 744 2137 3.249 0.709 0.145 0.034 8 1.3 parahippocampal
- 2384 1862 5088 2.882 0.616 0.129 0.033 29 3.3 paracentral
- 1991 1814 4406 2.722 0.567 0.159 0.036 27 3.2 parsopercularis
- 1100 1310 2727 2.692 0.608 0.214 0.060 16 2.9 parsorbitalis
- 1727 1621 3386 2.317 0.591 0.168 0.037 26 3.2 parstriangularis
- 1989 1194 2757 2.217 0.586 0.122 0.034 33 2.8 pericalcarine
- 6376 5426 12323 2.500 0.711 0.145 0.033 77 9.4 postcentral
- 2131 1815 4418 2.645 0.931 0.164 0.044 45 4.1 posteriorcingulate
- 7344 5716 15136 2.800 0.572 0.128 0.029 93 9.4 precentral
- 5938 4489 11888 2.791 0.592 0.146 0.042 120 11.2 precuneus
- 1265 1264 3102 2.879 0.600 0.179 0.043 21 2.3 rostralanteriorcingulate
- 9663 9327 19509 2.413 0.636 0.183 0.044 152 20.7 rostralmiddlefrontal
- 11513 10640 28032 2.920 0.694 0.164 0.040 191 20.8 superiorfrontal
- 8360 6899 15824 2.493 0.521 0.147 0.035 118 13.3 superiorparietal
- 5306 4777 13115 3.129 0.625 0.155 0.035 65 8.9 superiortemporal
- 4989 4212 11112 2.860 0.544 0.143 0.035 76 7.9 supramarginal
- 526 710 1292 2.507 0.680 0.259 0.067 10 1.5 frontalpole
- 639 956 2472 3.481 0.831 0.214 0.041 6 1.4 temporalpole
- 519 373 992 2.883 0.378 0.116 0.034 3 0.7 transversetemporal
- 3151 2091 7597 3.395 0.775 0.135 0.037 60 4.6 insula
- PIDs (3565 3568 3571 3574) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Sun Oct 8 07:38:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051266 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.CDaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.a2009s.annot
- #-----------------------------------------
- #@# Cortical Parc 2 rh Sun Oct 8 07:38:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051266 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 3680 of (3680 3683) to complete...
- Waiting for PID 3683 of (3680 3683) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051266 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...
- 24 labels changed using aseg
- relabeling using gibbs priors...
- 000: 8967 changed, 137356 examined...
- 001: 2021 changed, 34709 examined...
- 002: 609 changed, 10665 examined...
- 003: 235 changed, 3446 examined...
- 004: 107 changed, 1363 examined...
- 005: 56 changed, 607 examined...
- 006: 27 changed, 317 examined...
- 007: 12 changed, 157 examined...
- 008: 3 changed, 62 examined...
- 009: 1 changed, 19 examined...
- 010: 0 changed, 7 examined...
- 5 labels changed using aseg
- 000: 258 total segments, 170 labels (2805 vertices) changed
- 001: 99 total segments, 13 labels (55 vertices) changed
- 002: 86 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 43 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1071 vertices marked for relabeling...
- 1071 labels changed in reclassification.
- writing output to ../label/lh.aparc.a2009s.annot...
- classification took 0 minutes and 23 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051266 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...
- 0 labels changed using aseg
- relabeling using gibbs priors...
- 000: 8838 changed, 137112 examined...
- 001: 1976 changed, 35062 examined...
- 002: 582 changed, 10563 examined...
- 003: 249 changed, 3386 examined...
- 004: 113 changed, 1433 examined...
- 005: 46 changed, 650 examined...
- 006: 24 changed, 265 examined...
- 007: 15 changed, 142 examined...
- 008: 11 changed, 84 examined...
- 009: 11 changed, 63 examined...
- 010: 3 changed, 58 examined...
- 011: 2 changed, 22 examined...
- 012: 1 changed, 13 examined...
- 013: 0 changed, 7 examined...
- 0 labels changed using aseg
- 000: 256 total segments, 169 labels (3039 vertices) changed
- 001: 101 total segments, 16 labels (61 vertices) changed
- 002: 85 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 31 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1118 vertices marked for relabeling...
- 1118 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 23 seconds.
- PIDs (3680 3683) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Sun Oct 8 07:38:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0051266 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Sun Oct 8 07:38:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0051266 rh white
- Waiting for PID 3739 of (3739 3742) to complete...
- Waiting for PID 3742 of (3739 3742) 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 0051266 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 295531
- Total vertex volume 291663 (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) = 1397612 mm^3 (det: 1.393882 )
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 1250 882 2979 2.600 0.647 0.140 0.040 22 2.0 G&S_frontomargin
- 1871 1259 3833 2.721 0.466 0.134 0.029 26 2.1 G&S_occipital_inf
- 1907 1275 4324 2.583 0.715 0.118 0.029 22 2.0 G&S_paracentral
- 1614 1128 3863 2.835 0.587 0.140 0.034 24 2.2 G&S_subcentral
- 846 577 2407 2.832 0.640 0.154 0.043 18 1.4 G&S_transv_frontopol
- 2551 1730 5560 2.861 0.603 0.109 0.023 27 2.4 G&S_cingul-Ant
- 1693 1183 3783 3.042 0.477 0.109 0.019 18 1.3 G&S_cingul-Mid-Ant
- 1510 1081 3670 3.076 0.576 0.122 0.025 15 1.5 G&S_cingul-Mid-Post
- 631 390 1883 3.481 0.832 0.138 0.035 11 0.8 G_cingul-Post-dorsal
- 242 167 681 2.976 0.806 0.154 0.050 6 0.4 G_cingul-Post-ventral
- 1871 1356 3186 2.009 0.586 0.150 0.036 32 2.7 G_cuneus
- 1271 870 3935 3.180 0.517 0.123 0.030 20 1.5 G_front_inf-Opercular
- 341 244 1267 3.230 0.468 0.146 0.032 7 0.4 G_front_inf-Orbital
- 1260 858 3273 2.846 0.458 0.116 0.030 19 1.5 G_front_inf-Triangul
- 5814 3954 15707 2.848 0.652 0.143 0.036 119 8.8 G_front_middle
- 7653 5239 23078 3.216 0.669 0.135 0.034 128 10.4 G_front_sup
- 696 467 1647 3.257 0.580 0.121 0.044 9 1.0 G_Ins_lg&S_cent_ins
- 625 426 2217 3.756 0.666 0.132 0.044 12 1.0 G_insular_short
- 1917 1274 4732 2.774 0.567 0.140 0.031 32 2.5 G_occipital_middle
- 1318 848 2961 2.574 0.548 0.127 0.028 17 1.4 G_occipital_sup
- 1618 1070 4633 3.204 0.518 0.129 0.028 31 1.7 G_oc-temp_lat-fusifor
- 2722 1830 5993 2.477 0.826 0.149 0.041 45 4.4 G_oc-temp_med-Lingual
- 1121 731 3500 3.383 0.733 0.099 0.023 9 0.9 G_oc-temp_med-Parahip
- 2406 1658 6556 2.853 0.825 0.148 0.045 49 4.2 G_orbital
- 2013 1408 6376 3.222 0.519 0.145 0.042 40 3.1 G_pariet_inf-Angular
- 2541 1743 7620 3.258 0.645 0.146 0.036 48 3.7 G_pariet_inf-Supramar
- 3011 2003 7578 2.831 0.576 0.137 0.030 54 3.4 G_parietal_sup
- 2473 1567 5900 2.701 0.742 0.119 0.029 34 2.6 G_postcentral
- 2620 1709 7370 3.148 0.550 0.123 0.032 32 3.0 G_precentral
- 2698 1906 8281 3.074 0.659 0.147 0.037 52 3.8 G_precuneus
- 969 653 2255 2.617 0.587 0.147 0.044 27 1.7 G_rectus
- 777 529 1427 2.779 1.306 0.141 0.071 18 1.9 G_subcallosal
- 402 271 868 2.778 0.338 0.123 0.024 6 0.4 G_temp_sup-G_T_transv
- 1734 1157 6388 3.492 0.620 0.126 0.024 28 1.7 G_temp_sup-Lateral
- 715 517 2295 4.051 0.659 0.101 0.019 4 0.6 G_temp_sup-Plan_polar
- 758 521 1611 2.826 0.464 0.085 0.015 5 0.4 G_temp_sup-Plan_tempo
- 3002 1963 8849 3.230 0.674 0.129 0.034 55 3.7 G_temporal_inf
- 2543 1848 9862 3.498 0.633 0.145 0.040 57 3.7 G_temporal_middle
- 335 232 457 2.325 0.555 0.094 0.013 2 0.2 Lat_Fis-ant-Horizont
- 162 114 324 2.724 0.310 0.063 0.009 0 0.0 Lat_Fis-ant-Vertical
- 985 661 1399 2.785 0.532 0.106 0.021 5 0.9 Lat_Fis-post
- 1651 1203 2961 2.143 0.463 0.152 0.038 31 2.3 Pole_occipital
- 1886 1356 6566 3.406 0.732 0.134 0.034 31 2.5 Pole_temporal
- 1782 1235 2612 2.438 0.781 0.122 0.025 15 1.8 S_calcarine
- 3175 2114 4096 2.148 0.542 0.095 0.018 16 2.3 S_central
- 1209 823 1960 2.679 0.532 0.086 0.013 6 0.6 S_cingul-Marginalis
- 462 332 1079 3.389 0.658 0.103 0.020 2 0.4 S_circular_insula_ant
- 1334 936 2462 3.190 0.691 0.094 0.017 5 1.2 S_circular_insula_inf
- 1706 1138 2532 2.827 0.404 0.100 0.018 9 1.3 S_circular_insula_sup
- 1234 864 2596 2.947 0.499 0.105 0.019 11 1.1 S_collat_transv_ant
- 512 346 644 2.382 0.495 0.115 0.021 4 0.4 S_collat_transv_post
- 2617 1784 4201 2.510 0.480 0.099 0.019 15 1.8 S_front_inf
- 2088 1482 3700 2.454 0.493 0.130 0.029 27 2.7 S_front_middle
- 3454 2381 6459 2.738 0.445 0.106 0.022 27 3.0 S_front_sup
- 277 201 413 2.244 0.370 0.114 0.017 2 0.3 S_interm_prim-Jensen
- 3811 2555 6099 2.519 0.447 0.105 0.018 28 2.9 S_intrapariet&P_trans
- 933 638 1168 2.166 0.376 0.112 0.020 6 0.7 S_oc_middle&Lunatus
- 1252 824 1750 2.407 0.421 0.100 0.016 7 0.8 S_oc_sup&transversal
- 919 607 1694 2.752 0.462 0.104 0.017 5 0.7 S_occipital_ant
- 850 585 1602 2.990 0.463 0.085 0.013 3 0.5 S_oc-temp_lat
- 2055 1485 3619 2.829 0.409 0.095 0.014 10 1.1 S_oc-temp_med&Lingual
- 338 233 494 2.220 0.593 0.120 0.022 2 0.4 S_orbital_lateral
- 692 479 1026 2.535 0.686 0.113 0.018 5 0.5 S_orbital_med-olfact
- 1511 1033 2802 2.706 0.614 0.126 0.030 16 1.8 S_orbital-H_Shaped
- 2377 1605 3655 2.590 0.577 0.118 0.020 19 2.0 S_parieto_occipital
- 1569 947 1491 1.900 0.859 0.118 0.017 28 0.9 S_pericallosal
- 3213 2164 5205 2.672 0.470 0.105 0.017 21 2.4 S_postcentral
- 1694 1144 2832 2.794 0.459 0.097 0.016 9 1.1 S_precentral-inf-part
- 1371 944 2384 2.762 0.441 0.101 0.019 10 1.0 S_precentral-sup-part
- 840 589 1472 2.570 0.776 0.127 0.025 8 0.8 S_suborbital
- 1304 893 2158 2.671 0.466 0.101 0.017 7 0.9 S_subparietal
- 2179 1531 3902 2.765 0.494 0.107 0.018 15 1.8 S_temporal_inf
- 5931 4134 11073 2.821 0.469 0.103 0.018 43 4.6 S_temporal_sup
- 244 186 429 2.449 0.348 0.080 0.009 1 0.1 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 0051266 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 287244
- Total vertex volume 282602 (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) = 1397612 mm^3 (det: 1.393882 )
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 968 670 1736 2.157 0.550 0.150 0.060 22 2.3 G&S_frontomargin
- 1298 862 3039 2.790 0.708 0.130 0.033 17 1.6 G&S_occipital_inf
- 1503 963 3237 2.658 0.588 0.121 0.033 17 1.8 G&S_paracentral
- 1620 1102 3648 2.936 0.508 0.144 0.032 27 2.0 G&S_subcentral
- 1559 1008 3771 2.628 0.603 0.153 0.046 43 3.1 G&S_transv_frontopol
- 3406 2361 6934 2.557 0.680 0.122 0.028 46 4.2 G&S_cingul-Ant
- 1622 1118 3845 3.130 0.592 0.113 0.022 14 1.5 G&S_cingul-Mid-Ant
- 1609 1098 3458 2.944 0.520 0.126 0.026 18 1.6 G&S_cingul-Mid-Post
- 638 413 1972 3.389 0.676 0.150 0.042 12 0.9 G_cingul-Post-dorsal
- 272 177 812 3.106 0.717 0.152 0.041 6 0.3 G_cingul-Post-ventral
- 2060 1344 3529 2.143 0.463 0.146 0.037 35 2.7 G_cuneus
- 1381 979 3686 2.873 0.548 0.143 0.041 25 2.2 G_front_inf-Opercular
- 336 227 917 2.759 0.519 0.161 0.057 12 0.9 G_front_inf-Orbital
- 706 525 1969 2.675 0.524 0.135 0.039 12 1.3 G_front_inf-Triangul
- 4235 2823 12139 2.899 0.740 0.143 0.047 105 7.9 G_front_middle
- 7654 5125 22396 3.116 0.721 0.135 0.037 133 11.3 G_front_sup
- 554 409 1896 4.071 0.711 0.119 0.036 5 0.8 G_Ins_lg&S_cent_ins
- 557 372 2020 3.642 0.720 0.123 0.038 9 0.7 G_insular_short
- 2595 1735 6331 2.772 0.466 0.145 0.033 47 3.7 G_occipital_middle
- 1368 878 2568 2.326 0.548 0.139 0.038 22 1.7 G_occipital_sup
- 1592 1074 4047 2.860 0.665 0.127 0.039 32 2.4 G_oc-temp_lat-fusifor
- 2134 1417 4671 2.532 0.827 0.139 0.040 40 2.9 G_oc-temp_med-Lingual
- 1371 909 4639 3.493 0.870 0.119 0.040 17 2.1 G_oc-temp_med-Parahip
- 2557 1714 7056 2.896 0.839 0.149 0.046 63 5.2 G_orbital
- 3036 2083 9114 3.136 0.541 0.151 0.039 61 4.4 G_pariet_inf-Angular
- 2319 1627 6593 3.065 0.596 0.139 0.033 44 3.1 G_pariet_inf-Supramar
- 2672 1782 6165 2.666 0.550 0.136 0.032 46 3.3 G_parietal_sup
- 2294 1478 5183 2.621 0.738 0.133 0.030 34 2.7 G_postcentral
- 2797 1758 7641 3.081 0.555 0.112 0.025 30 2.6 G_precentral
- 2453 1647 6360 2.895 0.591 0.145 0.042 48 3.8 G_precuneus
- 617 443 1605 2.392 0.837 0.170 0.051 18 1.3 G_rectus
- 153 128 485 3.441 0.654 0.161 0.118 3 0.8 G_subcallosal
- 367 212 739 2.845 0.357 0.133 0.029 6 0.3 G_temp_sup-G_T_transv
- 1782 1180 6027 3.413 0.636 0.134 0.033 27 2.4 G_temp_sup-Lateral
- 903 609 2516 3.585 0.796 0.112 0.037 10 1.2 G_temp_sup-Plan_polar
- 611 413 1386 2.887 0.504 0.079 0.012 2 0.3 G_temp_sup-Plan_tempo
- 2808 1881 9890 3.534 0.685 0.144 0.042 57 4.4 G_temporal_inf
- 3286 2184 9946 3.250 0.645 0.139 0.038 62 5.0 G_temporal_middle
- 376 255 503 2.188 0.442 0.093 0.014 2 0.2 Lat_Fis-ant-Horizont
- 97 71 194 2.301 0.550 0.098 0.009 0 0.0 Lat_Fis-ant-Vertical
- 1397 928 2087 2.736 0.457 0.104 0.018 8 1.0 Lat_Fis-post
- 3100 2050 5632 2.435 0.658 0.152 0.040 48 4.9 Pole_occipital
- 1996 1350 6049 3.061 0.735 0.139 0.044 35 3.6 Pole_temporal
- 2000 1385 2854 2.346 0.633 0.112 0.021 15 1.7 S_calcarine
- 3052 2078 3782 2.127 0.530 0.105 0.020 19 2.4 S_central
- 1413 951 2384 2.667 0.589 0.098 0.017 8 1.0 S_cingul-Marginalis
- 487 338 955 3.377 0.662 0.098 0.020 2 0.4 S_circular_insula_ant
- 1195 812 1973 3.022 0.612 0.088 0.016 5 0.9 S_circular_insula_inf
- 1242 877 2036 2.762 0.426 0.094 0.015 5 0.9 S_circular_insula_sup
- 1169 828 2155 2.749 0.457 0.101 0.020 9 0.9 S_collat_transv_ant
- 372 248 704 2.693 0.645 0.136 0.024 5 0.3 S_collat_transv_post
- 2117 1438 3200 2.376 0.582 0.097 0.017 12 1.3 S_front_inf
- 2927 2020 4552 2.139 0.521 0.105 0.020 22 2.4 S_front_middle
- 3037 2093 5675 2.617 0.546 0.099 0.019 26 2.4 S_front_sup
- 208 144 330 2.644 0.381 0.078 0.008 1 0.1 S_interm_prim-Jensen
- 4225 2832 6742 2.487 0.476 0.111 0.020 35 3.4 S_intrapariet&P_trans
- 627 441 1044 2.650 0.584 0.127 0.025 5 0.7 S_oc_middle&Lunatus
- 1345 933 1940 2.379 0.366 0.109 0.022 9 1.1 S_oc_sup&transversal
- 862 553 1489 2.618 0.519 0.103 0.020 6 0.7 S_occipital_ant
- 895 619 1609 3.082 0.392 0.112 0.021 5 0.9 S_oc-temp_lat
- 1756 1245 2907 2.773 0.614 0.117 0.020 16 1.5 S_oc-temp_med&Lingual
- 341 241 438 1.876 0.408 0.111 0.016 2 0.2 S_orbital_lateral
- 575 413 845 2.003 0.820 0.135 0.037 8 1.1 S_orbital_med-olfact
- 1419 983 2504 2.483 0.555 0.124 0.033 15 1.8 S_orbital-H_Shaped
- 2481 1639 3500 2.449 0.554 0.111 0.020 21 2.0 S_parieto_occipital
- 2096 1334 2126 1.830 0.759 0.108 0.019 26 1.4 S_pericallosal
- 2669 1778 4510 2.586 0.430 0.106 0.020 23 1.9 S_postcentral
- 1747 1183 3125 2.812 0.571 0.091 0.013 8 1.1 S_precentral-inf-part
- 1453 971 2154 2.635 0.396 0.079 0.013 5 0.8 S_precentral-sup-part
- 293 216 527 2.240 0.834 0.136 0.023 2 0.4 S_suborbital
- 1286 877 2367 2.886 0.455 0.114 0.028 11 1.3 S_subparietal
- 1543 1060 2592 2.897 0.584 0.105 0.018 8 1.3 S_temporal_inf
- 6924 4720 12504 2.865 0.510 0.094 0.015 41 4.4 S_temporal_sup
- 299 221 647 3.370 0.462 0.133 0.019 3 0.2 S_temporal_transverse
- PIDs (3739 3742) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Sun Oct 8 07:39:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051266 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.DKTaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.DKTatlas.annot
- #-----------------------------------------
- #@# Cortical Parc 3 rh Sun Oct 8 07:39:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051266 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 3816 of (3816 3819) to complete...
- Waiting for PID 3819 of (3816 3819) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051266 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...
- 1460 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2027 changed, 137356 examined...
- 001: 468 changed, 9238 examined...
- 002: 152 changed, 2658 examined...
- 003: 67 changed, 853 examined...
- 004: 29 changed, 360 examined...
- 005: 19 changed, 164 examined...
- 006: 8 changed, 107 examined...
- 007: 2 changed, 52 examined...
- 008: 2 changed, 12 examined...
- 009: 1 changed, 11 examined...
- 010: 0 changed, 9 examined...
- 261 labels changed using aseg
- 000: 67 total segments, 34 labels (336 vertices) changed
- 001: 35 total segments, 2 labels (5 vertices) changed
- 002: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 3 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 707 vertices marked for relabeling...
- 707 labels changed in reclassification.
- writing output to ../label/lh.aparc.DKTatlas.annot...
- classification took 0 minutes and 19 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051266 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...
- 1043 labels changed using aseg
- relabeling using gibbs priors...
- 000: 1905 changed, 137112 examined...
- 001: 413 changed, 9163 examined...
- 002: 106 changed, 2425 examined...
- 003: 38 changed, 691 examined...
- 004: 16 changed, 218 examined...
- 005: 6 changed, 91 examined...
- 006: 5 changed, 40 examined...
- 007: 4 changed, 32 examined...
- 008: 1 changed, 20 examined...
- 009: 1 changed, 7 examined...
- 010: 0 changed, 7 examined...
- 61 labels changed using aseg
- 000: 42 total segments, 9 labels (41 vertices) changed
- 001: 34 total segments, 1 labels (7 vertices) changed
- 002: 33 total segments, 0 labels (0 vertices) changed
- 8 filter iterations complete (10 requested, 0 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1000 vertices marked for relabeling...
- 1000 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 19 seconds.
- PIDs (3816 3819) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Sun Oct 8 07:40:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0051266 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Sun Oct 8 07:40:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0051266 rh white
- Waiting for PID 3883 of (3883 3886) to complete...
- Waiting for PID 3886 of (3883 3886) 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 0051266 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 295531
- Total vertex volume 291663 (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) = 1397612 mm^3 (det: 1.393882 )
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 2096 1415 4477 2.923 0.657 0.117 0.019 30 1.5 caudalanteriorcingulate
- 4402 2970 10046 2.933 0.549 0.115 0.024 44 4.3 caudalmiddlefrontal
- 2967 2081 4818 2.151 0.562 0.131 0.027 37 3.2 cuneus
- 705 484 2199 3.293 0.823 0.114 0.026 6 0.7 entorhinal
- 4040 2808 9480 3.004 0.527 0.119 0.023 51 3.9 fusiform
- 6370 4371 14120 2.827 0.550 0.115 0.025 74 6.4 inferiorparietal
- 5622 3795 14551 3.116 0.684 0.114 0.025 73 5.4 inferiortemporal
- 1514 964 3078 2.680 1.058 0.124 0.030 22 1.6 isthmuscingulate
- 6876 4641 13152 2.482 0.542 0.133 0.029 95 7.5 lateraloccipital
- 4516 3059 9958 2.817 0.770 0.137 0.040 69 7.0 lateralorbitofrontal
- 3866 2637 7941 2.579 0.745 0.138 0.034 54 5.4 lingual
- 2315 1603 4694 2.563 0.869 0.142 0.046 50 3.9 medialorbitofrontal
- 6707 4788 18668 3.161 0.629 0.125 0.029 95 7.5 middletemporal
- 979 658 2418 3.167 0.601 0.080 0.015 5 0.5 parahippocampal
- 2602 1769 5584 2.813 0.632 0.102 0.021 21 1.8 paracentral
- 2030 1381 5015 2.998 0.505 0.099 0.023 20 1.8 parsopercularis
- 911 667 2475 2.833 0.680 0.124 0.024 12 0.8 parsorbitalis
- 2454 1671 4862 2.639 0.490 0.108 0.023 24 2.3 parstriangularis
- 1412 1014 1767 1.976 0.478 0.134 0.031 15 1.6 pericalcarine
- 7537 4995 15181 2.543 0.733 0.114 0.025 79 7.1 postcentral
- 2149 1465 4689 2.806 0.980 0.131 0.025 31 2.1 posteriorcingulate
- 7328 4865 15668 2.857 0.583 0.115 0.025 70 7.0 precentral
- 5610 3889 12969 2.898 0.616 0.125 0.026 69 5.9 precuneus
- 1822 1219 4211 2.982 0.651 0.131 0.034 35 2.2 rostralanteriorcingulate
- 7667 5342 17102 2.591 0.612 0.135 0.035 132 11.0 rostralmiddlefrontal
- 12519 8586 31904 2.969 0.673 0.125 0.029 169 15.0 superiorfrontal
- 6868 4543 13587 2.626 0.518 0.117 0.023 80 6.2 superiorparietal
- 6795 4694 17742 3.151 0.720 0.108 0.021 65 6.0 superiortemporal
- 4983 3414 11759 3.028 0.624 0.132 0.030 67 6.0 supramarginal
- 539 363 1034 2.788 0.331 0.128 0.024 7 0.6 transversetemporal
- 2755 1917 6518 3.326 0.692 0.111 0.030 25 3.4 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 0051266 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 287244
- Total vertex volume 282602 (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) = 1397612 mm^3 (det: 1.393882 )
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 1638 1144 3672 2.588 1.009 0.127 0.023 24 1.7 caudalanteriorcingulate
- 3632 2444 8725 3.005 0.668 0.105 0.021 34 3.0 caudalmiddlefrontal
- 2777 1813 4665 2.208 0.517 0.133 0.031 41 3.0 cuneus
- 652 462 2432 3.622 0.794 0.119 0.024 6 0.7 entorhinal
- 3608 2470 7948 2.891 0.627 0.124 0.036 54 5.2 fusiform
- 8722 5946 19221 2.821 0.549 0.123 0.026 107 9.4 inferiorparietal
- 5723 3853 16045 3.260 0.710 0.128 0.033 83 7.4 inferiortemporal
- 1445 917 2919 2.646 0.925 0.117 0.028 19 1.3 isthmuscingulate
- 6597 4341 13010 2.559 0.593 0.142 0.035 97 8.5 lateraloccipital
- 3957 2706 8800 2.689 0.857 0.145 0.046 79 8.0 lateralorbitofrontal
- 3591 2477 6879 2.435 0.733 0.139 0.035 59 4.7 lingual
- 1857 1314 4267 2.381 0.822 0.136 0.043 38 3.4 medialorbitofrontal
- 6857 4696 16882 3.099 0.624 0.123 0.028 88 8.0 middletemporal
- 873 598 2297 3.292 0.731 0.098 0.022 7 0.6 parahippocampal
- 2520 1654 5505 2.906 0.626 0.103 0.024 18 2.1 paracentral
- 2265 1586 5049 2.727 0.559 0.123 0.030 29 2.8 parsopercularis
- 912 616 2204 2.757 0.594 0.128 0.035 18 1.3 parsorbitalis
- 1654 1159 2923 2.238 0.540 0.118 0.030 23 2.2 parstriangularis
- 1939 1304 2684 2.206 0.572 0.124 0.028 19 2.3 pericalcarine
- 6926 4663 13397 2.518 0.696 0.126 0.027 84 7.2 postcentral
- 2162 1447 4444 2.674 0.917 0.132 0.028 30 2.5 posteriorcingulate
- 7086 4629 14659 2.784 0.563 0.106 0.021 60 5.8 precentral
- 6081 4071 12258 2.786 0.597 0.124 0.031 76 7.0 precuneus
- 1504 1026 3463 2.795 0.689 0.129 0.032 22 2.1 rostralanteriorcingulate
- 7044 4773 14362 2.420 0.628 0.129 0.038 126 10.8 rostralmiddlefrontal
- 14671 9939 34406 2.807 0.722 0.123 0.031 211 18.2 superiorfrontal
- 7053 4700 13619 2.510 0.520 0.121 0.027 90 6.9 superiorparietal
- 6843 4573 17351 3.171 0.659 0.106 0.026 65 6.8 superiortemporal
- 4876 3301 10836 2.872 0.543 0.118 0.026 64 5.1 supramarginal
- 516 326 980 2.859 0.362 0.144 0.028 8 0.5 transversetemporal
- 2733 1910 6703 3.389 0.744 0.110 0.026 22 2.7 insula
- PIDs (3883 3886) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Sun Oct 8 07:41:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- pctsurfcon --s 0051266 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Sun Oct 8 07:41:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts
- pctsurfcon --s 0051266 --rh-only
- Waiting for PID 3984 of (3984 3987) to complete...
- Waiting for PID 3987 of (3984 3987) to complete...
- pctsurfcon --s 0051266 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts/pctsurfcon.log
- Sun Oct 8 07:41:03 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-6.0.0/0051266/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-116 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-6.0.0/0051266/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/tmp.pctsurfcon.3984/lh.wm.mgh --regheader 0051266 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/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-6.0.0/0051266/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 = 70076
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/tmp.pctsurfcon.3984/lh.wm.mgh
- Dim: 137356 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/tmp.pctsurfcon.3984/lh.gm.mgh --projfrac 0.3 --regheader 0051266 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/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-6.0.0/0051266/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 = 85575
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/tmp.pctsurfcon.3984/lh.gm.mgh
- Dim: 137356 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/tmp.pctsurfcon.3984/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/tmp.pctsurfcon.3984/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.w-g.pct.mgh --annot 0051266 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/surf/lh.w-g.pct.mgh --annot 0051266 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-116
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/surf/lh.w-g.pct.mgh
- Vertex Area is 0.680144 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 0051266 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/scripts/pctsurfcon.log
- Sun Oct 8 07:41:03 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-6.0.0/0051266/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-116 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-6.0.0/0051266/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/tmp.pctsurfcon.3987/rh.wm.mgh --regheader 0051266 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/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-6.0.0/0051266/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 = 69198
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/tmp.pctsurfcon.3987/rh.wm.mgh
- Dim: 137112 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/tmp.pctsurfcon.3987/rh.gm.mgh --projfrac 0.3 --regheader 0051266 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/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-6.0.0/0051266/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 = 84988
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/tmp.pctsurfcon.3987/rh.gm.mgh
- Dim: 137112 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/tmp.pctsurfcon.3987/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/tmp.pctsurfcon.3987/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.w-g.pct.mgh --annot 0051266 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/surf/rh.w-g.pct.mgh --annot 0051266 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-116
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/surf/rh.w-g.pct.mgh
- Vertex Area is 0.672602 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 (3984 3987) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Sun Oct 8 07:41:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 650 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 606 voxels changed to hypointensity...
- 1328 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Sun Oct 8 07:41:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266
- mri_aparc2aseg --s 0051266 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt
- #-----------------------------------------
- #@# AParc-to-ASeg a2009s Sun Oct 8 07:41:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266
- mri_aparc2aseg --s 0051266 --volmask --aseg aseg.presurf.hypos --relabel mri/norm.mgz mri/transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca mri/aseg.auto_noCCseg.label_intensities.txt --a2009s
- #-----------------------------------------
- #@# AParc-to-ASeg DKTatlas Sun Oct 8 07:41:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266
- mri_aparc2aseg --s 0051266 --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 4155 of (4155 4158 4161) to complete...
- Waiting for PID 4158 of (4155 4158 4161) to complete...
- Waiting for PID 4161 of (4155 4158 4161) to complete...
- mri_aparc2aseg --s 0051266 --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 0051266
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/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-6.0.0/0051266/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 6.45
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 106
- rescaling Left_Cerebral_Cortex from 61 --> 50
- rescaling Left_Lateral_Ventricle from 13 --> 12
- rescaling Left_Inf_Lat_Vent from 34 --> 29
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 50
- rescaling Left_Thalamus from 94 --> 89
- rescaling Left_Thalamus_Proper from 84 --> 85
- rescaling Left_Caudate from 75 --> 64
- rescaling Left_Putamen from 80 --> 70
- rescaling Left_Pallidum from 98 --> 92
- rescaling Third_Ventricle from 25 --> 16
- rescaling Fourth_Ventricle from 22 --> 10
- rescaling Brain_Stem from 81 --> 85
- rescaling Left_Hippocampus from 57 --> 52
- rescaling Left_Amygdala from 56 --> 58
- rescaling CSF from 32 --> 23
- rescaling Left_Accumbens_area from 62 --> 57
- rescaling Left_VentralDC from 87 --> 88
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- rescaling Right_Cerebral_Cortex from 58 --> 51
- rescaling Right_Lateral_Ventricle from 13 --> 8
- rescaling Right_Inf_Lat_Vent from 25 --> 23
- rescaling Right_Cerebellum_White_Matter from 87 --> 83
- rescaling Right_Cerebellum_Cortex from 59 --> 52
- rescaling Right_Thalamus_Proper from 85 --> 82
- rescaling Right_Caudate from 62 --> 66
- rescaling Right_Putamen from 80 --> 69
- rescaling Right_Pallidum from 97 --> 90
- rescaling Right_Hippocampus from 53 --> 55
- rescaling Right_Amygdala from 55 --> 58
- rescaling Right_Accumbens_area from 65 --> 65
- rescaling Right_VentralDC from 86 --> 92
- rescaling Fifth_Ventricle from 40 --> 20
- rescaling WM_hypointensities from 78 --> 78
- rescaling non_WM_hypointensities from 40 --> 44
- 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 = 568351
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 158 changed.
- pass 2: 9 changed.
- pass 3: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0051266 --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 0051266
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/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-6.0.0/0051266/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 6.45
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 106
- rescaling Left_Cerebral_Cortex from 61 --> 50
- rescaling Left_Lateral_Ventricle from 13 --> 12
- rescaling Left_Inf_Lat_Vent from 34 --> 29
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 50
- rescaling Left_Thalamus from 94 --> 89
- rescaling Left_Thalamus_Proper from 84 --> 85
- rescaling Left_Caudate from 75 --> 64
- rescaling Left_Putamen from 80 --> 70
- rescaling Left_Pallidum from 98 --> 92
- rescaling Third_Ventricle from 25 --> 16
- rescaling Fourth_Ventricle from 22 --> 10
- rescaling Brain_Stem from 81 --> 85
- rescaling Left_Hippocampus from 57 --> 52
- rescaling Left_Amygdala from 56 --> 58
- rescaling CSF from 32 --> 23
- rescaling Left_Accumbens_area from 62 --> 57
- rescaling Left_VentralDC from 87 --> 88
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- rescaling Right_Cerebral_Cortex from 58 --> 51
- rescaling Right_Lateral_Ventricle from 13 --> 8
- rescaling Right_Inf_Lat_Vent from 25 --> 23
- rescaling Right_Cerebellum_White_Matter from 87 --> 83
- rescaling Right_Cerebellum_Cortex from 59 --> 52
- rescaling Right_Thalamus_Proper from 85 --> 82
- rescaling Right_Caudate from 62 --> 66
- rescaling Right_Putamen from 80 --> 69
- rescaling Right_Pallidum from 97 --> 90
- rescaling Right_Hippocampus from 53 --> 55
- rescaling Right_Amygdala from 55 --> 58
- rescaling Right_Accumbens_area from 65 --> 65
- rescaling Right_VentralDC from 86 --> 92
- rescaling Fifth_Ventricle from 40 --> 20
- rescaling WM_hypointensities from 78 --> 78
- rescaling non_WM_hypointensities from 40 --> 44
- 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 = 568375
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 158 changed.
- pass 2: 9 changed.
- pass 3: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0051266 --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 0051266
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/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-6.0.0/0051266/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 6.45
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 106
- rescaling Left_Cerebral_Cortex from 61 --> 50
- rescaling Left_Lateral_Ventricle from 13 --> 12
- rescaling Left_Inf_Lat_Vent from 34 --> 29
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 50
- rescaling Left_Thalamus from 94 --> 89
- rescaling Left_Thalamus_Proper from 84 --> 85
- rescaling Left_Caudate from 75 --> 64
- rescaling Left_Putamen from 80 --> 70
- rescaling Left_Pallidum from 98 --> 92
- rescaling Third_Ventricle from 25 --> 16
- rescaling Fourth_Ventricle from 22 --> 10
- rescaling Brain_Stem from 81 --> 85
- rescaling Left_Hippocampus from 57 --> 52
- rescaling Left_Amygdala from 56 --> 58
- rescaling CSF from 32 --> 23
- rescaling Left_Accumbens_area from 62 --> 57
- rescaling Left_VentralDC from 87 --> 88
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- rescaling Right_Cerebral_Cortex from 58 --> 51
- rescaling Right_Lateral_Ventricle from 13 --> 8
- rescaling Right_Inf_Lat_Vent from 25 --> 23
- rescaling Right_Cerebellum_White_Matter from 87 --> 83
- rescaling Right_Cerebellum_Cortex from 59 --> 52
- rescaling Right_Thalamus_Proper from 85 --> 82
- rescaling Right_Caudate from 62 --> 66
- rescaling Right_Putamen from 80 --> 69
- rescaling Right_Pallidum from 97 --> 90
- rescaling Right_Hippocampus from 53 --> 55
- rescaling Right_Amygdala from 55 --> 58
- rescaling Right_Accumbens_area from 65 --> 65
- rescaling Right_VentralDC from 86 --> 92
- rescaling Fifth_Ventricle from 40 --> 20
- rescaling WM_hypointensities from 78 --> 78
- rescaling non_WM_hypointensities from 40 --> 44
- 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 = 568375
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 158 changed.
- pass 2: 9 changed.
- pass 3: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (4155 4158 4161) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Sun Oct 8 07:49:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Sun Oct 8 07:49:14 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-6.0.0/0051266/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-116 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-6.0.0/0051266/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-116
- machine x86_64
- user ntraut
- input aparc+aseg.mgz
- frame 0
- nErode3d 0
- nErode2d 0
- output aseg.mgz
- Binarizing based on threshold
- min -infinity
- max +infinity
- binval 1
- binvalnot 0
- fstart = 0, fend = 0, nframes = 1
- Replacing 72
- 1: 1000 3
- 2: 2000 42
- 3: 1001 3
- 4: 2001 42
- 5: 1002 3
- 6: 2002 42
- 7: 1003 3
- 8: 2003 42
- 9: 1004 3
- 10: 2004 42
- 11: 1005 3
- 12: 2005 42
- 13: 1006 3
- 14: 2006 42
- 15: 1007 3
- 16: 2007 42
- 17: 1008 3
- 18: 2008 42
- 19: 1009 3
- 20: 2009 42
- 21: 1010 3
- 22: 2010 42
- 23: 1011 3
- 24: 2011 42
- 25: 1012 3
- 26: 2012 42
- 27: 1013 3
- 28: 2013 42
- 29: 1014 3
- 30: 2014 42
- 31: 1015 3
- 32: 2015 42
- 33: 1016 3
- 34: 2016 42
- 35: 1017 3
- 36: 2017 42
- 37: 1018 3
- 38: 2018 42
- 39: 1019 3
- 40: 2019 42
- 41: 1020 3
- 42: 2020 42
- 43: 1021 3
- 44: 2021 42
- 45: 1022 3
- 46: 2022 42
- 47: 1023 3
- 48: 2023 42
- 49: 1024 3
- 50: 2024 42
- 51: 1025 3
- 52: 2025 42
- 53: 1026 3
- 54: 2026 42
- 55: 1027 3
- 56: 2027 42
- 57: 1028 3
- 58: 2028 42
- 59: 1029 3
- 60: 2029 42
- 61: 1030 3
- 62: 2030 42
- 63: 1031 3
- 64: 2031 42
- 65: 1032 3
- 66: 2032 42
- 67: 1033 3
- 68: 2033 42
- 69: 1034 3
- 70: 2034 42
- 71: 1035 3
- 72: 2035 42
- Found 0 values in range
- Counting number of voxels in first frame
- Found 0 voxels in final mask
- Count: 0 0.000000 16777216 0.000000
- mri_binarize done
-
- Started at Sun Oct 8 07:49:14 CEST 2017
- Ended at Sun Oct 8 07:49:20 CEST 2017
- Apas2aseg-Run-Time-Sec 6
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Sun Oct 8 07:49:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266
- 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 0051266
- $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 0051266
- sysname Linux
- hostname tars-116
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1397612 mm^3 (det: 1.393882 )
- Computing euler number
- orig.nofix lheno = -58, rheno = -80
- orig.nofix lhholes = 30, rhholes = 41
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- Loading mri/norm.mgz
- Loading mri/norm.mgz
- Voxel Volume is 1 mm^3
- Generating list of segmentation ids
- Found 50 segmentations
- Computing statistics for each segmentation
- Reporting on 45 segmentations
- Using PrintSegStat
- mri_segstats done
- #-----------------------------------------
- #@# WMParc Sun Oct 8 07:51:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266
- mri_aparc2aseg --s 0051266 --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 0051266
- 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-6.0.0/0051266/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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-6.0.0/0051266/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 8393 vertices from left hemi
- Ripped 8440 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-6.0.0/0051266/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 = 987457
- Used brute-force search on 543 voxels
- Fixing Parahip LH WM
- Found 11 clusters
- 0 k 17.000000
- 1 k 1.000000
- 2 k 8.000000
- 3 k 1.000000
- 4 k 1.000000
- 5 k 2.000000
- 6 k 5.000000
- 7 k 1411.000000
- 8 k 1.000000
- 9 k 1.000000
- 10 k 1.000000
- Fixing Parahip RH WM
- Found 5 clusters
- 0 k 2.000000
- 1 k 2.000000
- 2 k 1209.000000
- 3 k 9.000000
- 4 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 0051266 --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 0051266 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-116
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1397612 mm^3 (det: 1.393882 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 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-6.0.0/0051266/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Sun Oct 8 07:59:43 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 0051266 --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 0051266 --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 0051266 --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 0051266 --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 0051266 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 5071 of (5071 5077 5083 5089 5095) to complete...
- Waiting for PID 5077 of (5071 5077 5083 5089 5095) to complete...
- Waiting for PID 5083 of (5071 5077 5083 5089 5095) to complete...
- Waiting for PID 5089 of (5071 5077 5083 5089 5095) to complete...
- Waiting for PID 5095 of (5071 5077 5083 5089 5095) 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 4129 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 330
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 4459
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 7909 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 760
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 8669
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 4077 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 166
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4243
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 5983 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 400
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 6383
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 5784 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 332
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 6116
- mri_label2label: Done
- PIDs (5071 5077 5083 5089 5095) 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 0051266 --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 0051266 --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 0051266 --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 0051266 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 5155 of (5155 5161 5167 5173) to complete...
- Waiting for PID 5161 of (5155 5161 5167 5173) to complete...
- Waiting for PID 5167 of (5155 5161 5167 5173) to complete...
- Waiting for PID 5173 of (5155 5161 5167 5173) 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 4070 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 193
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4263
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 13589 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 1287
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 14876
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 4181 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 271
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 4452
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 3422 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 832
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 4254
- mri_label2label: Done
- PIDs (5155 5161 5167 5173) 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 0051266 --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 0051266 --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 0051266 --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 0051266 --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 0051266 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 5228 of (5228 5234 5240 5246 5252) to complete...
- Waiting for PID 5234 of (5228 5234 5240 5246 5252) to complete...
- Waiting for PID 5240 of (5228 5234 5240 5246 5252) to complete...
- Waiting for PID 5246 of (5228 5234 5240 5246 5252) to complete...
- Waiting for PID 5252 of (5228 5234 5240 5246 5252) 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 4641 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 659
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 5300
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 8114 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 1910
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 10024
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 2018 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 462
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 2480
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1290 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 148
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1438
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1199 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 153
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1352
- mri_label2label: Done
- PIDs (5228 5234 5240 5246 5252) 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 0051266 --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 0051266 --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 0051266 --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 0051266 --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 0051266 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 5319 of (5319 5325 5331 5337 5343) to complete...
- Waiting for PID 5325 of (5319 5325 5331 5337 5343) to complete...
- Waiting for PID 5331 of (5319 5325 5331 5337 5343) to complete...
- Waiting for PID 5337 of (5319 5325 5331 5337 5343) to complete...
- Waiting for PID 5343 of (5319 5325 5331 5337 5343) 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1014 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 94
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.thresh.label 1108
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 2092 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 185
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 2277
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1504 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 32
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1536
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1996 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 142
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2138
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 2319 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 170
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 2489
- mri_label2label: Done
- PIDs (5319 5325 5331 5337 5343) 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 0051266 --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 0051266 --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 0051266 --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 0051266 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 5393 of (5393 5399 5405 5411) to complete...
- Waiting for PID 5399 of (5393 5399 5405 5411) to complete...
- Waiting for PID 5405 of (5393 5399 5405 5411) to complete...
- Waiting for PID 5411 of (5393 5399 5405 5411) 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1549 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 85
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1634
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 7035 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 617
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 7652
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1912 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 62
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 1974
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 1151 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 315
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1466
- mri_label2label: Done
- PIDs (5393 5399 5405 5411) 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 0051266 --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 0051266 --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 0051266 --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 0051266 --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 0051266 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 5475 of (5475 5481 5487 5493 5499) to complete...
- Waiting for PID 5481 of (5475 5481 5487 5493 5499) to complete...
- Waiting for PID 5487 of (5475 5481 5487 5493 5499) to complete...
- Waiting for PID 5493 of (5475 5481 5487 5493 5499) to complete...
- Waiting for PID 5499 of (5475 5481 5487 5493 5499) 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 3405 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 424
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 3829
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 3334 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 808
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 4142
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 513 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 132
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 645
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 470 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 39
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 509
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.sphere.reg
- Rescaling ... original radius = 100
- Building target registration hash (res=16).
- Building source registration hash (res=16).
- INFO: found 450 nlabel points
- Performing mapping from target back to the source label 137356
- Number of reverse mapping hits = 43
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 493
- mri_label2label: Done
- PIDs (5475 5481 5487 5493 5499) completed and logs appended.
- mris_label2annot --s 0051266 --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-6.0.0/0051266/label
- cmdline mris_label2annot --s 0051266 --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-116
- machine x86_64
- user ntraut
- subject 0051266
- 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-6.0.0/0051266/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 96459 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/label/lh.BA_exvivo.annot
- mris_label2annot --s 0051266 --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-6.0.0/0051266/label
- cmdline mris_label2annot --s 0051266 --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-116
- machine x86_64
- user ntraut
- subject 0051266
- 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-6.0.0/0051266/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 114209 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0051266 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 295531
- Total vertex volume 291663 (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) = 1397612 mm^3 (det: 1.393882 )
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 1189 738 3180 2.876 0.813 0.138 0.035 19 1.4 BA1_exvivo
- 4543 3006 9082 2.773 0.520 0.112 0.022 45 4.2 BA2_exvivo
- 1051 692 1050 1.964 0.430 0.128 0.029 10 1.1 BA3a_exvivo
- 2520 1702 4324 2.165 0.658 0.111 0.024 24 2.4 BA3b_exvivo
- 1689 1145 4211 2.986 0.519 0.108 0.023 14 1.5 BA4a_exvivo
- 1294 838 2179 2.574 0.402 0.089 0.023 10 1.0 BA4p_exvivo
- 9854 6720 25991 3.127 0.595 0.116 0.026 104 10.0 BA6_exvivo
- 2123 1444 4992 2.997 0.546 0.108 0.023 21 1.9 BA44_exvivo
- 3239 2224 7030 2.660 0.518 0.116 0.027 41 3.5 BA45_exvivo
- 2622 1925 4192 2.048 0.563 0.144 0.034 34 3.5 V1_exvivo
- 7187 4909 12839 2.328 0.663 0.143 0.034 109 9.7 V2_exvivo
- 2167 1438 4692 2.789 0.478 0.126 0.026 28 2.2 MT_exvivo
- 634 405 1982 3.446 0.644 0.118 0.037 8 1.1 perirhinal_exvivo
- 785 551 1628 2.928 0.656 0.117 0.025 7 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 0051266 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 295531
- Total vertex volume 291663 (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) = 1397612 mm^3 (det: 1.393882 )
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 754 448 2160 3.011 0.778 0.134 0.036 13 0.8 BA1_exvivo
- 1700 1112 3691 2.776 0.548 0.103 0.017 14 1.2 BA2_exvivo
- 866 577 810 1.950 0.430 0.139 0.031 8 1.0 BA3a_exvivo
- 1504 1038 2088 1.826 0.386 0.093 0.017 9 1.1 BA3b_exvivo
- 1634 1080 3742 2.903 0.510 0.104 0.024 13 1.6 BA4a_exvivo
- 1059 699 1749 2.555 0.406 0.090 0.022 7 0.8 BA4p_exvivo
- 5542 3741 14413 3.113 0.575 0.117 0.025 55 5.2 BA6_exvivo
- 1235 866 3156 2.976 0.536 0.108 0.026 13 1.2 BA44_exvivo
- 1316 885 3343 2.814 0.514 0.122 0.031 22 1.8 BA45_exvivo
- 2828 2064 4518 2.030 0.568 0.148 0.037 40 4.3 V1_exvivo
- 3441 2444 5701 2.161 0.603 0.151 0.038 57 5.0 V2_exvivo
- 583 386 1346 2.889 0.466 0.124 0.021 7 0.5 MT_exvivo
- 300 201 1123 3.632 0.527 0.090 0.015 1 0.2 perirhinal_exvivo
- 385 281 801 2.950 0.643 0.098 0.014 2 0.2 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Sun Oct 8 08:03:11 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 0051266 --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 0051266 --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 0051266 --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 0051266 --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 0051266 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 5616 of (5616 5622 5628 5634 5640) to complete...
- Waiting for PID 5622 of (5616 5622 5628 5634 5640) to complete...
- Waiting for PID 5628 of (5616 5622 5628 5634 5640) to complete...
- Waiting for PID 5634 of (5616 5622 5628 5634 5640) to complete...
- Waiting for PID 5640 of (5616 5622 5628 5634 5640) 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 275
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 4237
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 369
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 7056
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 143
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4123
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 281
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 4803
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 336
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 6083
- mri_label2label: Done
- PIDs (5616 5622 5628 5634 5640) 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 0051266 --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 0051266 --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 0051266 --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 0051266 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 5696 of (5696 5702 5708 5714) to complete...
- Waiting for PID 5702 of (5696 5702 5708 5714) to complete...
- Waiting for PID 5708 of (5696 5702 5708 5714) to complete...
- Waiting for PID 5714 of (5696 5702 5708 5714) 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 211
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 4684
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 964
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 13220
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 636
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 7548
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 592
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 5947
- mri_label2label: Done
- PIDs (5696 5702 5708 5714) 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 0051266 --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 0051266 --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 0051266 --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 0051266 --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 0051266 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 5774 of (5774 5780 5786 5792 5798) to complete...
- Waiting for PID 5780 of (5774 5780 5786 5792 5798) to complete...
- Waiting for PID 5786 of (5774 5780 5786 5792 5798) to complete...
- Waiting for PID 5792 of (5774 5780 5786 5792 5798) to complete...
- Waiting for PID 5798 of (5774 5780 5786 5792 5798) 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 1030
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 5757
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 1722
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 9738
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 566
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.label 2498
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 128
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1166
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 101
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 853
- mri_label2label: Done
- PIDs (5774 5780 5786 5792 5798) 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 0051266 --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 0051266 --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 0051266 --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 0051266 --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 0051266 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 5854 of (5854 5860 5866 5872 5878) to complete...
- Waiting for PID 5860 of (5854 5860 5866 5872 5878) to complete...
- Waiting for PID 5866 of (5854 5860 5866 5872 5878) to complete...
- Waiting for PID 5872 of (5854 5860 5866 5872 5878) to complete...
- Waiting for PID 5878 of (5854 5860 5866 5872 5878) 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 75
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 951
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 98
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 2786
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 40
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1738
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 161
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2344
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 83
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1471
- mri_label2label: Done
- PIDs (5854 5860 5866 5872 5878) 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 0051266 --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 0051266 --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 0051266 --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 0051266 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 5927 of (5927 5933 5939 5945) to complete...
- Waiting for PID 5933 of (5927 5933 5939 5945) to complete...
- Waiting for PID 5939 of (5927 5933 5939 5945) to complete...
- Waiting for PID 5945 of (5927 5933 5939 5945) 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 85
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1574
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 451
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 7410
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 139
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1151
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 99
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1277
- mri_label2label: Done
- PIDs (5927 5933 5939 5945) 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 0051266 --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 0051266 --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 0051266 --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 0051266 --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 0051266 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 5996 of (5996 6002 6008 6014 6020) to complete...
- Waiting for PID 6002 of (5996 6002 6008 6014 6020) to complete...
- Waiting for PID 6008 of (5996 6002 6008 6014 6020) to complete...
- Waiting for PID 6014 of (5996 6002 6008 6014 6020) to complete...
- Waiting for PID 6020 of (5996 6002 6008 6014 6020) 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 692
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 3924
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 830
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 4267
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 94
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 362
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 58
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.thresh.label 752
- 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 0051266 --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 = 0051266
- 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-6.0.0/0051266/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 137112
- Number of reverse mapping hits = 37
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 328
- mri_label2label: Done
- PIDs (5996 6002 6008 6014 6020) completed and logs appended.
- mris_label2annot --s 0051266 --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-6.0.0/0051266/label
- cmdline mris_label2annot --s 0051266 --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-116
- machine x86_64
- user ntraut
- subject 0051266
- 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-6.0.0/0051266/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 98162 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/label/rh.BA_exvivo.annot
- mris_label2annot --s 0051266 --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-6.0.0/0051266/label
- cmdline mris_label2annot --s 0051266 --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-116
- machine x86_64
- user ntraut
- subject 0051266
- 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-6.0.0/0051266/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 115412 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/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 0051266 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 287244
- Total vertex volume 282602 (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) = 1397612 mm^3 (det: 1.393882 )
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 967 598 2392 2.819 0.698 0.146 0.034 18 1.2 BA1_exvivo
- 3200 2109 6043 2.663 0.510 0.111 0.023 29 2.8 BA2_exvivo
- 1087 731 1142 2.058 0.450 0.129 0.028 9 1.2 BA3a_exvivo
- 2027 1409 3240 1.992 0.610 0.127 0.027 27 2.3 BA3b_exvivo
- 1603 1008 3728 3.015 0.562 0.098 0.025 13 1.3 BA4a_exvivo
- 1295 824 2086 2.545 0.417 0.096 0.024 8 1.0 BA4p_exvivo
- 8262 5535 21775 3.074 0.640 0.116 0.026 93 8.5 BA6_exvivo
- 3651 2545 7790 2.765 0.554 0.115 0.025 39 3.5 BA44_exvivo
- 3510 2438 7360 2.447 0.632 0.124 0.031 56 4.7 BA45_exvivo
- 3410 2289 5536 2.208 0.661 0.134 0.038 46 4.6 V1_exvivo
- 6649 4394 11951 2.417 0.623 0.145 0.034 102 8.7 V2_exvivo
- 2241 1484 4975 2.786 0.545 0.121 0.026 25 2.3 MT_exvivo
- 610 433 2409 3.653 0.833 0.103 0.020 5 0.5 perirhinal_exvivo
- 438 300 1030 3.256 0.570 0.144 0.031 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 0051266 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051266/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 287244
- Total vertex volume 282602 (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) = 1397612 mm^3 (det: 1.393882 )
- lhCtxGM: 289258.250 288714.000 diff= 544.2 pctdiff= 0.188
- rhCtxGM: 280172.224 279382.000 diff= 790.2 pctdiff= 0.282
- lhCtxWM: 211427.460 210975.500 diff= 452.0 pctdiff= 0.214
- rhCtxWM: 207921.124 209085.500 diff=-1164.4 pctdiff=-0.560
- SubCortGMVol 62089.000
- SupraTentVol 1069621.058 (1064517.000) diff=5104.058 pctdiff=0.477
- SupraTentVolNotVent 1055403.058 (1050299.000) diff=5104.058 pctdiff=0.484
- BrainSegVol 1208555.000 (1207209.000) diff=1346.000 pctdiff=0.111
- BrainSegVolNotVent 1192338.000 (1192814.058) diff=-476.058 pctdiff=-0.040
- BrainSegVolNotVent 1192338.000
- CerebellumVol 141893.000
- VentChorVol 14218.000
- 3rd4th5thCSF 1999.000
- CSFVol 653.000, OptChiasmVol 146.000
- MaskVol 1561081.000
- 656 399 1675 2.796 0.671 0.141 0.034 11 0.8 BA1_exvivo
- 1738 1165 3562 2.738 0.535 0.107 0.023 15 1.4 BA2_exvivo
- 987 652 907 2.029 0.393 0.130 0.029 8 1.1 BA3a_exvivo
- 1630 1132 2085 1.826 0.480 0.118 0.021 17 1.5 BA3b_exvivo
- 964 631 2370 3.137 0.499 0.111 0.030 9 1.0 BA4a_exvivo
- 1064 695 1705 2.577 0.422 0.093 0.021 5 0.8 BA4p_exvivo
- 5082 3405 12942 3.050 0.611 0.113 0.024 52 4.8 BA6_exvivo
- 904 671 2299 2.693 0.556 0.145 0.042 16 1.5 BA44_exvivo
- 813 606 2324 2.678 0.605 0.139 0.039 15 1.4 BA45_exvivo
- 3253 2183 5196 2.215 0.660 0.131 0.036 42 4.3 V1_exvivo
- 3645 2459 6629 2.357 0.635 0.151 0.037 62 5.2 V2_exvivo
- 341 223 709 2.679 0.386 0.116 0.023 4 0.3 MT_exvivo
- 340 246 1471 3.742 0.746 0.100 0.019 3 0.3 perirhinal_exvivo
- 283 209 642 3.397 0.675 0.130 0.022 2 0.3 entorhinal_exvivo
- Started at Sat Oct 7 21:25:38 CEST 2017
- Ended at Sun Oct 8 08:06:40 CEST 2017
- #@#%# recon-all-run-time-hours 10.684
- recon-all -s 0051266 finished without error at Sun Oct 8 08:06:40 CEST 2017
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