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- Sat Oct 7 16:58:33 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0051324 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/MaxMun_b/0051324/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0051324
- 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-900 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: 66074804 58473436 7601368 1735688 0 55859960
- -/+ buffers/cache: 2613476 63461328
- 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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: 2017/10/07-14:58:33-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-900 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-6.0.0/0051324
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/MaxMun_b/0051324/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/MaxMun_b/0051324/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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/MaxMun_b/0051324/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-6.0.0/0051324/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Sat Oct 7 16:58:35 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/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-6.0.0/0051324/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Sat Oct 7 16:58:43 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/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-900 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 16:58:43 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.26846
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.26846/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.26846/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.26846/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:58:45 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.26846/nu0.mnc ./tmp.mri_nu_correct.mni.26846/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.26846/0/ -iterations 1000 -distance 50
- [ntraut@tars-900:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/] [2017-10-07 16:58:45] 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.26846/0/ ./tmp.mri_nu_correct.mni.26846/nu0.mnc ./tmp.mri_nu_correct.mni.26846/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 33
- CV of field change: 0.000946816
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.26846/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.26846/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.26846/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 16:59:44 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 16:59:44 CEST 2017
- Ended at Sat Oct 7 17:00:21 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Sat Oct 7 17:00:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.7047, pval=0.4932 >= threshold=0.0050)
- awk -f /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/extract_talairach_avi_QA.awk /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/transforms/talairach_avi.log
- TalAviQA: 0.96159
- z-score: -3
- #--------------------------------------------
- #@# Nu Intensity Correction Sat Oct 7 17:00:23 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-6.0.0/0051324/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-900 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 17:00:23 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.27535
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.27535/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.27535/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.27535/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 17:00:25 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.27535/nu0.mnc ./tmp.mri_nu_correct.mni.27535/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.27535/0/
- [ntraut@tars-900:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/] [2017-10-07 17:00:25] 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.27535/0/ ./tmp.mri_nu_correct.mni.27535/nu0.mnc ./tmp.mri_nu_correct.mni.27535/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
- 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
- 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: 50
- CV of field change: 0.00108467
-
-
- --------------------------------------------------------
- Iteration 2 Sat Oct 7 17:01:19 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.27535/nu1.mnc ./tmp.mri_nu_correct.mni.27535/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.27535/1/
- [ntraut@tars-900:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/] [2017-10-07 17:01:19] 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.27535/1/ ./tmp.mri_nu_correct.mni.27535/nu1.mnc ./tmp.mri_nu_correct.mni.27535/nu2.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 21
- CV of field change: 0.000960554
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.27535/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.27535/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-6.0.0/0051324/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.27535/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.27535/ones.mgz
- sysname Linux
- hostname tars-900
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.27535/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.27535/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.27535/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.27535/sum.junk --avgwf ./tmp.mri_nu_correct.mni.27535/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.27535/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.27535/sum.junk --avgwf ./tmp.mri_nu_correct.mni.27535/input.mean.dat
- sysname Linux
- hostname tars-900
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.27535/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.27535/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.27535/ones.mgz --i ./tmp.mri_nu_correct.mni.27535/nu2.mnc --sum ./tmp.mri_nu_correct.mni.27535/sum.junk --avgwf ./tmp.mri_nu_correct.mni.27535/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.27535/ones.mgz --i ./tmp.mri_nu_correct.mni.27535/nu2.mnc --sum ./tmp.mri_nu_correct.mni.27535/sum.junk --avgwf ./tmp.mri_nu_correct.mni.27535/output.mean.dat
- sysname Linux
- hostname tars-900
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.27535/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.27535/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.27535/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.27535/nu2.mnc ./tmp.mri_nu_correct.mni.27535/nu2.mnc mul 1.02495694377205172758
- Saving result to './tmp.mri_nu_correct.mni.27535/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.27535/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.27535/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.27535/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 8 seconds.
- mapping (18, 140) to ( 3, 110)
-
-
- Sat Oct 7 17:02:31 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Sat Oct 7 17:02:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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
- 1.05507 -0.00918 0.00220 -0.33511;
- 0.00261 1.03669 0.40109 -7.52888;
- -0.02010 -0.31960 1.12566 -8.27081;
- 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 = 18
- Starting OpenSpline(): npoints = 18
- 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 64 (64), valley at 36 (36)
- csf peak at 33, setting threshold to 53
- 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 63 (63), valley at 35 (35)
- csf peak at 32, setting threshold to 52
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to T1.mgz
- 3D bias adjustment took 2 minutes and 0 seconds.
- #--------------------------------------------
- #@# Skull Stripping Sat Oct 7 17:04:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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=6.0
- skull bounding box = (45, 69, 11) --> (210, 209, 194)
- using (100, 116, 103) as brain centroid...
- mean wm in atlas = 108, using box (80,99,80) --> (120, 133,125) to find MRI wm
- before smoothing, mri peak at 104
- robust fit to distribution - 103 +- 6.6
- after smoothing, mri peak at 103, scaling input intensities by 1.049
- scaling channel 0 by 1.04854
- initial log_p = -4.739
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.567644 @ (-9.091, -27.273, -9.091)
- max log p = -4.443453 @ (4.545, 4.545, 4.545)
- max log p = -4.419755 @ (2.273, -2.273, -2.273)
- max log p = -4.400971 @ (1.136, 1.136, -1.136)
- max log p = -4.393530 @ (0.568, -0.568, 0.568)
- max log p = -4.393530 @ (0.000, 0.000, 0.000)
- Found translation: (-0.6, -24.4, -7.4): log p = -4.394
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-4.147, old_max_log_p =-4.394 (thresh=-4.4)
- 1.07500 0.00000 0.00000 -9.97645;
- 0.00000 1.06246 0.44009 -86.90463;
- 0.00000 -0.40708 0.98278 62.47320;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-4.147, old_max_log_p =-4.147 (thresh=-4.1)
- 1.07500 0.00000 0.00000 -9.97645;
- 0.00000 1.06246 0.44009 -86.90463;
- 0.00000 -0.40708 0.98278 62.47320;
- 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=-4.047, old_max_log_p =-4.147 (thresh=-4.1)
- 1.05296 -0.04748 0.02088 -5.45843;
- 0.03384 1.13665 0.35779 -94.01412;
- -0.03385 -0.28687 0.98328 50.50199;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-4.047, old_max_log_p =-4.047 (thresh=-4.0)
- 1.05296 -0.04748 0.02088 -5.45843;
- 0.03384 1.13665 0.35779 -94.01412;
- -0.03385 -0.28687 0.98328 50.50199;
- 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=-4.012, old_max_log_p =-4.047 (thresh=-4.0)
- 1.05008 -0.02387 0.01096 -7.44278;
- 0.01592 1.13112 0.38215 -92.64061;
- -0.01736 -0.31651 0.97785 53.02369;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-4.003, old_max_log_p =-4.012 (thresh=-4.0)
- 1.04639 -0.02378 0.01092 -6.97796;
- 0.01592 1.13112 0.38215 -92.64061;
- -0.01736 -0.31651 0.97785 53.02369;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.994, old_max_log_p =-4.003 (thresh=-4.0)
- 1.04516 -0.02376 0.01091 -6.82307;
- 0.01592 1.13112 0.38215 -92.64061;
- -0.01736 -0.31651 0.97785 53.02369;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 7 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.994, old_max_log_p =-3.994 (thresh=-4.0)
- 1.04516 -0.02376 0.01091 -6.82307;
- 0.01592 1.13112 0.38215 -92.64061;
- -0.01736 -0.31651 0.97785 53.02369;
- 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
- 1.04516 -0.02376 0.01091 -6.82307;
- 0.01592 1.13112 0.38215 -92.64061;
- -0.01736 -0.31651 0.97785 53.02369;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 1.04516 -0.02376 0.01091 -6.82307;
- 0.01592 1.13112 0.38215 -92.64061;
- -0.01736 -0.31651 0.97785 53.02369;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.04516 -0.02376 0.01091 -6.82307;
- 0.01592 1.13112 0.38215 -92.64061;
- -0.01736 -0.31651 0.97785 53.02369;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.994 (old=-4.739)
- transform before final EM align:
- 1.04516 -0.02376 0.01091 -6.82307;
- 0.01592 1.13112 0.38215 -92.64061;
- -0.01736 -0.31651 0.97785 53.02369;
- 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
- 1.04516 -0.02376 0.01091 -6.82307;
- 0.01592 1.13112 0.38215 -92.64061;
- -0.01736 -0.31651 0.97785 53.02369;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 1.04516 -0.02376 0.01091 -6.82307;
- 0.01592 1.13112 0.38215 -92.64061;
- -0.01736 -0.31651 0.97785 53.02369;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 012: -log(p) = 4.4 tol 0.000000
- final transform:
- 1.04516 -0.02376 0.01091 -6.82307;
- 0.01592 1.13112 0.38215 -92.64061;
- -0.01736 -0.31651 0.97785 53.02369;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 1350.507691
- mri_em_register stimesec 1.503771
- 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 157581
- mri_em_register ru_majflt 0
- mri_em_register ru_nswap 0
- mri_em_register ru_inblock 148912
- mri_em_register ru_oublock 24
- mri_em_register ru_msgsnd 0
- mri_em_register ru_msgrcv 0
- mri_em_register ru_nsignals 0
- mri_em_register ru_nvcsw 95
- mri_em_register ru_nivcsw 5136
- registration took 11 minutes and 43 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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=128 y=141 z=110 r=68
- first estimation of the main basin volume: 1334373 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 16 found in the rest of the brain
- global maximum in x=150, y=136, z=77, Imax=255
- CSF=18, 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=8825507198 voxels, voxel volume =1.000
- = 8825507198 mmm3 = 8825506.816 cm3
- done.
- PostAnalyze...Basin Prior
- 14 basins merged thanks to atlas
- ***** 0 basin(s) merged in 1 iteration(s)
- ***** 0 voxel(s) added to the main basin
- done.
- Weighting the input with prior template
- ****************TEMPLATE DEFORMATION****************
- second estimation of the COG coord: x=128,y=148, z=104, r=10158 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=1, CSF_intensity=2, CSF_MAX=47 , nb = 44360
- RIGHT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = -1035254719
- LEFT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = -1046482004
- RIGHT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=50 , nb = 1051046757
- LEFT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=51 , nb = 1058654546
- OTHER CSF_MIN=1, CSF_intensity=2, CSF_MAX=3 , nb = 1077532074
- Problem with the least square interpolation in GM_MIN calculation.
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 47, 36, 27, 65
- after analyzing : 26, 36, 36, 43
- RIGHT_CER
- before analyzing : 3, 3, 21, 54
- after analyzing : 3, 17, 25, 26
- LEFT_CER
- before analyzing : 3, 3, 20, 55
- after analyzing : 3, 17, 25, 26
- RIGHT_BRAIN
- before analyzing : 50, 37, 28, 65
- after analyzing : 28, 37, 37, 44
- LEFT_BRAIN
- before analyzing : 51, 38, 27, 64
- after analyzing : 30, 38, 38, 44
- OTHER
- before analyzing : 3, 5, 71, 95
- after analyzing : 3, 49, 71, 60
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...61 iterations
- *********************VALIDATION*********************
- curvature mean = -0.013, std = 0.010
- curvature mean = 69.465, std = 7.014
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 4.08, sigma = 6.46
- after rotation: sse = 4.08, sigma = 6.46
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 4.61, its var is 6.64
- before Erosion-Dilatation 2.18% of inacurate vertices
- after Erosion-Dilatation 1.54% 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...43 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1588383 voxels, voxel volume = 1.000 mm3
- = 1588383 mmm3 = 1588.383 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 23.475431
- mri_watershed stimesec 0.386941
- mri_watershed ru_maxrss 820380
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 212434
- mri_watershed ru_majflt 2
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 13968
- mri_watershed ru_oublock 2640
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 1114
- mri_watershed ru_nivcsw 206
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Sat Oct 7 17:16:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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=15.0
- skull bounding box = (62, 82, 24) --> (197, 208, 191)
- using (107, 124, 108) as brain centroid...
- mean wm in atlas = 107, using box (90,109,87) --> (123, 139,128) to find MRI wm
- before smoothing, mri peak at 104
- robust fit to distribution - 104 +- 6.4
- after smoothing, mri peak at 104, scaling input intensities by 1.029
- scaling channel 0 by 1.02885
- initial log_p = -4.544
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.118443 @ (-9.091, -27.273, -9.091)
- max log p = -3.964396 @ (4.545, -4.545, 4.545)
- max log p = -3.898541 @ (2.273, 2.273, 2.273)
- max log p = -3.895545 @ (1.136, 1.136, -1.136)
- max log p = -3.878737 @ (0.568, -1.705, -2.841)
- max log p = -3.878737 @ (0.000, 0.000, 0.000)
- Found translation: (-0.6, -30.1, -6.3): log p = -3.879
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.720, old_max_log_p =-3.879 (thresh=-3.9)
- 1.00000 0.00000 0.00000 -0.56818;
- 0.00000 1.03837 0.27823 -63.59654;
- 0.00000 -0.25882 0.96593 43.21329;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.717, old_max_log_p =-3.720 (thresh=-3.7)
- 1.00000 0.00000 0.00000 -0.56818;
- 0.00000 0.99570 0.40193 -70.15472;
- 0.00000 -0.42155 0.99045 64.78014;
- 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=-3.587, old_max_log_p =-3.717 (thresh=-3.7)
- 1.00000 0.00000 0.00000 -0.56818;
- 0.00000 0.97703 0.39439 -68.40732;
- 0.00000 -0.39813 0.93543 68.84359;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.579, old_max_log_p =-3.587 (thresh=-3.6)
- 1.01820 -0.03337 -0.01108 1.40254;
- 0.03333 1.01920 0.33842 -71.34608;
- 0.00000 -0.33963 0.97721 55.73100;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 4 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.579, old_max_log_p =-3.579 (thresh=-3.6)
- 1.01820 -0.03337 -0.01108 1.40254;
- 0.03333 1.01920 0.33842 -71.34608;
- 0.00000 -0.33963 0.97721 55.73100;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.547, old_max_log_p =-3.579 (thresh=-3.6)
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03345 1.01997 0.34762 -71.47997;
- -0.00027 -0.34918 0.97783 57.13053;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.538, old_max_log_p =-3.547 (thresh=-3.5)
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03353 1.02236 0.34844 -71.92709;
- -0.00027 -0.34918 0.97783 57.13053;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 7 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.538, old_max_log_p =-3.538 (thresh=-3.5)
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03353 1.02236 0.34844 -71.92709;
- -0.00027 -0.34918 0.97783 57.13053;
- 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
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03353 1.02236 0.34844 -71.92709;
- -0.00027 -0.34918 0.97783 57.13053;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03353 1.02236 0.34844 -71.92709;
- -0.00027 -0.34918 0.97783 57.13053;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03353 1.02236 0.34844 -71.92709;
- -0.00027 -0.34918 0.97783 57.13053;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.538 (old=-4.544)
- transform before final EM align:
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03353 1.02236 0.34844 -71.92709;
- -0.00027 -0.34918 0.97783 57.13053;
- 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
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03353 1.02236 0.34844 -71.92709;
- -0.00027 -0.34918 0.97783 57.13053;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03353 1.02236 0.34844 -71.92709;
- -0.00027 -0.34918 0.97783 57.13053;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 012: -log(p) = 4.0 tol 0.000000
- final transform:
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03353 1.02236 0.34844 -71.92709;
- -0.00027 -0.34918 0.97783 57.13053;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 1124.217093
- mri_em_register stimesec 1.288804
- 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 158990
- 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 129
- mri_em_register ru_nivcsw 3737
- registration took 9 minutes and 39 seconds.
- #--------------------------------------
- #@# CA Normalize Sat Oct 7 17:26:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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=15.0
- skull bounding box = (62, 82, 24) --> (197, 208, 191)
- using (107, 124, 108) as brain centroid...
- mean wm in atlas = 107, using box (90,109,87) --> (123, 139,128) to find MRI wm
- before smoothing, mri peak at 104
- robust fit to distribution - 104 +- 6.4
- after smoothing, mri peak at 104, scaling input intensities by 1.029
- scaling channel 0 by 1.02885
- using 246344 sample points...
- INFO: compute sample coordinates transform
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03353 1.02236 0.34844 -71.92709;
- -0.00027 -0.34918 0.97783 57.13053;
- 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 (128, 86, 31) --> (194, 199, 188)
- Left_Cerebral_White_Matter: limiting intensities to 101.0 --> 132.0
- 2 of 31 (6.5%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (65, 86, 30) --> (130, 192, 188)
- Right_Cerebral_White_Matter: limiting intensities to 100.0 --> 132.0
- 0 of 42 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (131, 174, 62) --> (179, 213, 114)
- Left_Cerebellum_White_Matter: limiting intensities to 118.0 --> 132.0
- 7 of 17 (41.2%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (87, 174, 60) --> (130, 213, 114)
- Right_Cerebellum_White_Matter: limiting intensities to 124.0 --> 132.0
- 3 of 4 (75.0%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (113, 158, 94) --> (147, 223, 124)
- Brain_Stem: limiting intensities to 98.0 --> 132.0
- 0 of 20 (0.0%) samples deleted
- using 114 total control points for intensity normalization...
- bias field = 0.881 +- 0.105
- 0 of 102 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (128, 86, 31) --> (194, 199, 188)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 1 of 121 (0.8%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (65, 86, 30) --> (130, 192, 188)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 0 of 149 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (131, 174, 62) --> (179, 213, 114)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 41 of 49 (83.7%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (87, 174, 60) --> (130, 213, 114)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 20 of 55 (36.4%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (113, 158, 94) --> (147, 223, 124)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 50 of 96 (52.1%) samples deleted
- using 470 total control points for intensity normalization...
- bias field = 0.992 +- 0.065
- 0 of 355 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (128, 86, 31) --> (194, 199, 188)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 6 of 205 (2.9%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (65, 86, 30) --> (130, 192, 188)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 4 of 210 (1.9%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (131, 174, 62) --> (179, 213, 114)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 29 of 74 (39.2%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (87, 174, 60) --> (130, 213, 114)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 46 of 60 (76.7%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (113, 158, 94) --> (147, 223, 124)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 121 of 183 (66.1%) samples deleted
- using 732 total control points for intensity normalization...
- bias field = 0.998 +- 0.057
- 0 of 519 control points discarded
- writing normalized volume to norm.mgz...
- writing control points to ctrl_pts.mgz
- freeing GCA...done.
- normalization took 1 minutes and 46 seconds.
- #--------------------------------------
- #@# CA Reg Sat Oct 7 17:28:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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) = 1.15 (predicted orig area = 7.0)
- label assignment complete, 0 changed (0.00%)
- freeing gibbs priors...done.
- average std[0] = 5.0
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.039
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.934, neg=0, invalid=762
- 0001: dt=221.952000, rms=0.858 (8.161%), neg=0, invalid=762
- 0002: dt=363.011806, rms=0.821 (4.260%), neg=0, invalid=762
- 0003: dt=159.853211, rms=0.800 (2.581%), neg=0, invalid=762
- 0004: dt=335.323944, rms=0.785 (1.894%), neg=0, invalid=762
- 0005: dt=177.012658, rms=0.774 (1.311%), neg=0, invalid=762
- 0006: dt=149.333333, rms=0.769 (0.720%), neg=0, invalid=762
- 0007: dt=517.888000, rms=0.759 (1.220%), neg=0, invalid=762
- 0008: dt=110.976000, rms=0.756 (0.518%), neg=0, invalid=762
- 0009: dt=1775.616000, rms=0.744 (1.555%), neg=0, invalid=762
- 0010: dt=295.936000, rms=0.736 (1.045%), neg=0, invalid=762
- 0011: dt=32.368000, rms=0.736 (0.018%), neg=0, invalid=762
- 0012: dt=32.368000, rms=0.736 (0.015%), neg=0, invalid=762
- 0013: dt=32.368000, rms=0.736 (-0.029%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.736, neg=0, invalid=762
- 0014: dt=129.472000, rms=0.735 (0.153%), neg=0, invalid=762
- 0015: dt=517.888000, rms=0.733 (0.271%), neg=0, invalid=762
- 0016: dt=517.888000, rms=0.731 (0.286%), neg=0, invalid=762
- 0017: dt=129.472000, rms=0.731 (0.025%), neg=0, invalid=762
- 0018: dt=129.472000, rms=0.730 (0.055%), neg=0, invalid=762
- 0019: dt=129.472000, rms=0.730 (0.091%), neg=0, invalid=762
- 0020: dt=129.472000, rms=0.729 (0.131%), neg=0, invalid=762
- 0021: dt=129.472000, rms=0.727 (0.166%), neg=0, invalid=762
- 0022: dt=129.472000, rms=0.726 (0.189%), neg=0, invalid=762
- 0023: dt=129.472000, rms=0.725 (0.207%), neg=0, invalid=762
- 0024: dt=129.472000, rms=0.723 (0.216%), neg=0, invalid=762
- 0025: dt=129.472000, rms=0.721 (0.221%), neg=0, invalid=762
- 0026: dt=129.472000, rms=0.720 (0.225%), neg=0, invalid=762
- 0027: dt=129.472000, rms=0.718 (0.207%), neg=0, invalid=762
- 0028: dt=129.472000, rms=0.717 (0.195%), neg=0, invalid=762
- 0029: dt=129.472000, rms=0.716 (0.158%), neg=0, invalid=762
- 0030: dt=129.472000, rms=0.715 (0.152%), neg=0, invalid=762
- 0031: dt=129.472000, rms=0.714 (0.157%), neg=0, invalid=762
- 0032: dt=129.472000, rms=0.713 (0.142%), neg=0, invalid=762
- 0033: dt=129.472000, rms=0.711 (0.145%), neg=0, invalid=762
- 0034: dt=129.472000, rms=0.711 (0.133%), neg=0, invalid=762
- 0035: dt=129.472000, rms=0.710 (0.140%), neg=0, invalid=762
- 0036: dt=129.472000, rms=0.709 (0.144%), neg=0, invalid=762
- 0037: dt=129.472000, rms=0.708 (0.115%), neg=0, invalid=762
- 0038: dt=129.472000, rms=0.707 (0.100%), neg=0, invalid=762
- 0039: dt=517.888000, rms=0.707 (0.027%), neg=0, invalid=762
- 0040: dt=517.888000, rms=0.706 (0.050%), neg=0, invalid=762
- 0041: dt=517.888000, rms=0.707 (-0.374%), neg=0, invalid=762
- setting smoothness coefficient to 0.154
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.714, neg=0, invalid=762
- 0042: dt=36.288000, rms=0.712 (0.283%), neg=0, invalid=762
- 0043: dt=145.152000, rms=0.702 (1.496%), neg=0, invalid=762
- 0044: dt=145.152000, rms=0.696 (0.766%), neg=0, invalid=762
- 0045: dt=81.777778, rms=0.692 (0.560%), neg=0, invalid=762
- 0046: dt=45.891473, rms=0.688 (0.579%), neg=0, invalid=762
- 0047: dt=99.855422, rms=0.685 (0.453%), neg=0, invalid=762
- 0048: dt=36.288000, rms=0.683 (0.313%), neg=0, invalid=762
- 0049: dt=248.832000, rms=0.680 (0.452%), neg=0, invalid=762
- 0050: dt=62.208000, rms=0.673 (1.034%), neg=0, invalid=762
- 0051: dt=6.480000, rms=0.673 (0.010%), neg=0, invalid=762
- 0052: dt=6.480000, rms=0.673 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.673, neg=0, invalid=762
- 0053: dt=9.072000, rms=0.673 (0.080%), neg=0, invalid=762
- 0054: dt=9.072000, rms=0.673 (0.004%), neg=0, invalid=762
- 0055: dt=9.072000, rms=0.673 (0.002%), neg=0, invalid=762
- 0056: dt=9.072000, rms=0.673 (-0.013%), neg=0, invalid=762
- setting smoothness coefficient to 0.588
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.700, neg=0, invalid=762
- 0057: dt=9.600000, rms=0.698 (0.228%), neg=0, invalid=762
- 0058: dt=32.000000, rms=0.691 (1.077%), neg=0, invalid=762
- 0059: dt=44.800000, rms=0.686 (0.760%), neg=0, invalid=762
- 0060: dt=11.200000, rms=0.684 (0.267%), neg=0, invalid=762
- 0061: dt=11.200000, rms=0.681 (0.319%), neg=0, invalid=762
- 0062: dt=32.000000, rms=0.678 (0.471%), neg=0, invalid=762
- 0063: dt=44.800000, rms=0.678 (0.064%), neg=0, invalid=762
- 0064: dt=22.400000, rms=0.677 (0.198%), neg=0, invalid=762
- 0065: dt=22.400000, rms=0.674 (0.354%), neg=0, invalid=762
- 0066: dt=22.400000, rms=0.673 (0.125%), neg=0, invalid=762
- 0067: dt=22.400000, rms=0.673 (-0.075%), neg=0, invalid=762
- 0068: dt=0.700000, rms=0.673 (0.000%), neg=0, invalid=762
- 0069: dt=1.600000, rms=0.673 (0.000%), neg=0, invalid=762
- 0070: dt=2.800000, rms=0.673 (0.003%), neg=0, invalid=762
- 0071: dt=11.200000, rms=0.673 (0.014%), neg=0, invalid=762
- 0072: dt=44.800000, rms=0.672 (0.229%), neg=0, invalid=762
- 0073: dt=0.000000, rms=0.672 (0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.672, neg=0, invalid=762
- 0074: dt=0.000000, rms=0.672 (0.062%), neg=0, invalid=762
- 0075: dt=0.000000, rms=0.672 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 2.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.727, neg=0, invalid=762
- 0076: dt=0.000000, rms=0.727 (0.053%), neg=0, invalid=762
- 0077: dt=0.000000, rms=0.727 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.727, neg=0, invalid=762
- 0078: dt=0.000000, rms=0.727 (0.053%), neg=0, invalid=762
- 0079: dt=0.000000, rms=0.727 (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=0.833, neg=0, invalid=762
- 0080: dt=1.029777, rms=0.825 (0.900%), neg=0, invalid=762
- 0081: dt=0.448000, rms=0.825 (0.071%), neg=0, invalid=762
- 0082: dt=0.448000, rms=0.825 (0.010%), neg=0, invalid=762
- 0083: dt=0.448000, rms=0.825 (-0.145%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.825, neg=0, invalid=762
- 0084: dt=0.448000, rms=0.825 (0.073%), neg=0, invalid=762
- 0085: dt=0.112000, rms=0.824 (0.002%), neg=0, invalid=762
- 0086: dt=0.112000, rms=0.824 (0.002%), neg=0, invalid=762
- 0087: dt=0.112000, rms=0.824 (-0.004%), 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=0.694, neg=0, invalid=762
- 0088: dt=0.957642, rms=0.671 (3.365%), neg=0, invalid=762
- 0089: dt=0.096000, rms=0.670 (0.190%), neg=0, invalid=762
- 0090: dt=0.096000, rms=0.670 (-0.120%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.670, neg=0, invalid=762
- 0091: dt=0.028000, rms=0.669 (0.078%), neg=0, invalid=762
- 0092: dt=0.001500, rms=0.669 (0.001%), neg=0, invalid=762
- 0093: dt=0.001500, rms=0.669 (-0.001%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.10100 (14)
- Left_Lateral_Ventricle (4): linear fit = 0.69 x + 0.0 (2194 voxels, overlap=0.515)
- Left_Lateral_Ventricle (4): linear fit = 0.69 x + 0.0 (2194 voxels, peak = 14), gca=13.7
- gca peak = 0.15565 (16)
- mri peak = 0.11082 (16)
- Right_Lateral_Ventricle (43): linear fit = 0.86 x + 0.0 (2116 voxels, overlap=0.821)
- Right_Lateral_Ventricle (43): linear fit = 0.86 x + 0.0 (2116 voxels, peak = 14), gca=13.7
- gca peak = 0.26829 (96)
- mri peak = 0.08588 (99)
- Right_Pallidum (52): linear fit = 1.04 x + 0.0 (885 voxels, overlap=1.003)
- Right_Pallidum (52): linear fit = 1.04 x + 0.0 (885 voxels, peak = 100), gca=100.3
- gca peak = 0.20183 (93)
- mri peak = 0.08026 (102)
- Left_Pallidum (13): linear fit = 1.07 x + 0.0 (760 voxels, overlap=0.983)
- Left_Pallidum (13): linear fit = 1.07 x + 0.0 (760 voxels, peak = 99), gca=99.0
- gca peak = 0.21683 (55)
- mri peak = 0.09651 (65)
- Right_Hippocampus (53): linear fit = 1.15 x + 0.0 (744 voxels, overlap=0.849)
- Right_Hippocampus (53): linear fit = 1.15 x + 0.0 (744 voxels, peak = 64), gca=63.5
- gca peak = 0.30730 (58)
- mri peak = 0.06897 (67)
- Left_Hippocampus (17): linear fit = 1.12 x + 0.0 (382 voxels, overlap=0.838)
- Left_Hippocampus (17): linear fit = 1.12 x + 0.0 (382 voxels, peak = 65), gca=64.7
- gca peak = 0.11430 (101)
- mri peak = 0.07325 (106)
- Right_Cerebral_White_Matter (41): linear fit = 1.05 x + 0.0 (59344 voxels, overlap=0.687)
- Right_Cerebral_White_Matter (41): linear fit = 1.05 x + 0.0 (59344 voxels, peak = 107), gca=106.6
- gca peak = 0.12076 (102)
- mri peak = 0.06508 (108)
- Left_Cerebral_White_Matter (2): linear fit = 1.07 x + 0.0 (56534 voxels, overlap=0.656)
- Left_Cerebral_White_Matter (2): linear fit = 1.07 x + 0.0 (56534 voxels, peak = 109), gca=108.6
- gca peak = 0.14995 (59)
- mri peak = 0.02788 (56)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (19929 voxels, overlap=0.824)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (19929 voxels, peak = 60), gca=60.5
- gca peak = 0.15082 (58)
- mri peak = 0.03290 (63)
- Right_Cerebral_Cortex (42): linear fit = 1.10 x + 0.0 (20759 voxels, overlap=0.536)
- Right_Cerebral_Cortex (42): linear fit = 1.10 x + 0.0 (20759 voxels, peak = 64), gca=63.5
- gca peak = 0.14161 (67)
- mri peak = 0.09865 (74)
- Right_Caudate (50): linear fit = 1.09 x + 0.0 (619 voxels, overlap=0.615)
- Right_Caudate (50): linear fit = 1.09 x + 0.0 (619 voxels, peak = 73), gca=72.7
- gca peak = 0.15243 (71)
- mri peak = 0.07906 (74)
- Left_Caudate (11): linear fit = 1.03 x + 0.0 (895 voxels, overlap=0.907)
- Left_Caudate (11): linear fit = 1.03 x + 0.0 (895 voxels, peak = 73), gca=73.5
- gca peak = 0.13336 (57)
- mri peak = 0.02088 (42)
- Left_Cerebellum_Cortex (8): linear fit = 1.12 x + 0.0 (10439 voxels, overlap=0.000)
- Left_Cerebellum_Cortex (8): linear fit = 1.12 x + 0.0 (10439 voxels, peak = 64), gca=63.6
- gca peak = 0.13252 (56)
- mri peak = 0.03113 (63)
- Right_Cerebellum_Cortex (47): linear fit = 1.12 x + 0.0 (11979 voxels, overlap=0.181)
- Right_Cerebellum_Cortex (47): linear fit = 1.12 x + 0.0 (11979 voxels, peak = 62), gca=62.4
- gca peak = 0.18181 (84)
- mri peak = 0.04170 (65)
- Left_Cerebellum_White_Matter (7): linear fit = 0.79 x + 0.0 (7082 voxels, overlap=0.016)
- Left_Cerebellum_White_Matter (7): linear fit = 0.79 x + 0.0 (7082 voxels, peak = 66), gca=65.9
- gca peak = 0.20573 (83)
- mri peak = 0.04258 (83)
- Right_Cerebellum_White_Matter (46): linear fit = 1.01 x + 0.0 (6299 voxels, overlap=0.901)
- Right_Cerebellum_White_Matter (46): linear fit = 1.01 x + 0.0 (6299 voxels, peak = 84), gca=84.2
- gca peak = 0.21969 (57)
- mri peak = 0.08629 (65)
- Left_Amygdala (18): linear fit = 1.16 x + 0.0 (398 voxels, overlap=0.553)
- Left_Amygdala (18): linear fit = 1.16 x + 0.0 (398 voxels, peak = 66), gca=66.4
- gca peak = 0.39313 (56)
- mri peak = 0.08907 (67)
- Right_Amygdala (54): linear fit = 1.13 x + 0.0 (495 voxels, overlap=0.771)
- Right_Amygdala (54): linear fit = 1.13 x + 0.0 (495 voxels, peak = 64), gca=63.6
- gca peak = 0.14181 (85)
- mri peak = 0.05725 (93)
- Left_Thalamus_Proper (10): linear fit = 1.07 x + 0.0 (4319 voxels, overlap=0.852)
- Left_Thalamus_Proper (10): linear fit = 1.07 x + 0.0 (4319 voxels, peak = 91), gca=90.5
- gca peak = 0.11978 (83)
- mri peak = 0.07287 (87)
- Right_Thalamus_Proper (49): linear fit = 1.05 x + 0.0 (3595 voxels, overlap=0.805)
- Right_Thalamus_Proper (49): linear fit = 1.05 x + 0.0 (3595 voxels, peak = 88), gca=87.6
- gca peak = 0.13399 (79)
- mri peak = 0.05567 (86)
- Left_Putamen (12): linear fit = 1.09 x + 0.0 (2031 voxels, overlap=0.867)
- Left_Putamen (12): linear fit = 1.09 x + 0.0 (2031 voxels, peak = 86), gca=85.7
- gca peak = 0.14159 (79)
- mri peak = 0.05243 (84)
- Right_Putamen (51): linear fit = 1.10 x + 0.0 (2309 voxels, overlap=0.999)
- Right_Putamen (51): linear fit = 1.10 x + 0.0 (2309 voxels, peak = 87), gca=86.5
- gca peak = 0.10025 (80)
- mri peak = 0.08980 (83)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (10310 voxels, overlap=0.402)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (10310 voxels, peak = 88), gca=87.6
- gca peak = 0.13281 (86)
- mri peak = 0.06849 (98)
- Right_VentralDC (60): linear fit = 1.12 x + 0.0 (1202 voxels, overlap=0.277)
- Right_VentralDC (60): linear fit = 1.12 x + 0.0 (1202 voxels, peak = 96), gca=95.9
- gca peak = 0.12801 (89)
- mri peak = 0.07561 (96)
- Left_VentralDC (28): linear fit = 1.10 x + 0.0 (1481 voxels, overlap=0.540)
- Left_VentralDC (28): linear fit = 1.10 x + 0.0 (1481 voxels, peak = 97), gca=97.5
- gca peak = 0.20494 (23)
- mri peak = 0.11852 (21)
- Third_Ventricle (14): linear fit = 0.75 x + 0.0 (133 voxels, overlap=0.544)
- Third_Ventricle (14): linear fit = 0.75 x + 0.0 (133 voxels, peak = 17), gca=17.4
- gca peak = 0.15061 (21)
- mri peak = 0.09176 (16)
- Fourth_Ventricle (15): linear fit = 0.86 x + 0.0 (363 voxels, overlap=0.786)
- Fourth_Ventricle (15): linear fit = 0.86 x + 0.0 (363 voxels, peak = 18), gca=18.0
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.18056 (32)
- gca peak Left_Thalamus = 0.64095 (94)
- gca peak CSF = 0.20999 (34)
- gca peak Left_Accumbens_area = 0.39030 (62)
- gca peak Left_undetermined = 0.95280 (25)
- gca peak Left_vessel = 0.67734 (53)
- gca peak Left_choroid_plexus = 0.09433 (44)
- gca peak Right_Inf_Lat_Vent = 0.23544 (26)
- gca peak Right_Accumbens_area = 0.30312 (64)
- gca peak Right_vessel = 0.46315 (51)
- gca peak Right_choroid_plexus = 0.14086 (44)
- gca peak Fifth_Ventricle = 0.51669 (36)
- gca peak WM_hypointensities = 0.09722 (76)
- gca peak non_WM_hypointensities = 0.11899 (47)
- gca peak Optic_Chiasm = 0.39033 (72)
- label assignment complete, 0 changed (0.00%)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.11 x + 0.0
- estimating mean wm scale to be 1.06 x + 0.0
- estimating mean csf scale to be 0.79 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=0.696, neg=0, invalid=762
- 0094: dt=116.286472, rms=0.684 (1.658%), neg=0, invalid=762
- 0095: dt=369.920000, rms=0.679 (0.737%), neg=0, invalid=762
- 0096: dt=129.472000, rms=0.677 (0.379%), neg=0, invalid=762
- 0097: dt=129.472000, rms=0.676 (0.120%), neg=0, invalid=762
- 0098: dt=443.904000, rms=0.674 (0.305%), neg=0, invalid=762
- 0099: dt=73.984000, rms=0.673 (0.127%), neg=0, invalid=762
- 0100: dt=369.920000, rms=0.672 (0.107%), neg=0, invalid=762
- 0101: dt=129.472000, rms=0.671 (0.163%), neg=0, invalid=762
- 0102: dt=110.976000, rms=0.671 (0.018%), neg=0, invalid=762
- 0103: dt=110.976000, rms=0.670 (0.063%), neg=0, invalid=762
- 0104: dt=110.976000, rms=0.670 (0.089%), neg=0, invalid=762
- 0105: dt=110.976000, rms=0.669 (0.101%), neg=0, invalid=762
- 0106: dt=110.976000, rms=0.668 (0.114%), neg=0, invalid=762
- 0107: dt=110.976000, rms=0.668 (0.138%), neg=0, invalid=762
- 0108: dt=110.976000, rms=0.666 (0.153%), neg=0, invalid=762
- 0109: dt=110.976000, rms=0.666 (0.141%), neg=0, invalid=762
- 0110: dt=110.976000, rms=0.665 (0.124%), neg=0, invalid=762
- 0111: dt=110.976000, rms=0.664 (0.112%), neg=0, invalid=762
- 0112: dt=110.976000, rms=0.663 (0.106%), neg=0, invalid=762
- 0113: dt=110.976000, rms=0.663 (0.102%), neg=0, invalid=762
- 0114: dt=110.976000, rms=0.662 (0.082%), neg=0, invalid=762
- 0115: dt=110.976000, rms=0.662 (0.074%), neg=0, invalid=762
- 0116: dt=110.976000, rms=0.661 (0.069%), neg=0, invalid=762
- 0117: dt=110.976000, rms=0.661 (0.066%), neg=0, invalid=762
- 0118: dt=110.976000, rms=0.660 (0.064%), neg=0, invalid=762
- 0119: dt=110.976000, rms=0.660 (0.061%), neg=0, invalid=762
- 0120: dt=110.976000, rms=0.659 (0.057%), neg=0, invalid=762
- 0121: dt=110.976000, rms=0.659 (0.065%), neg=0, invalid=762
- 0122: dt=110.976000, rms=0.659 (0.074%), neg=0, invalid=762
- 0123: dt=110.976000, rms=0.658 (0.078%), neg=0, invalid=762
- 0124: dt=110.976000, rms=0.658 (0.073%), neg=0, invalid=762
- 0125: dt=110.976000, rms=0.657 (0.066%), neg=0, invalid=762
- 0126: dt=110.976000, rms=0.657 (0.058%), neg=0, invalid=762
- 0127: dt=110.976000, rms=0.656 (0.064%), neg=0, invalid=762
- 0128: dt=110.976000, rms=0.656 (0.067%), neg=0, invalid=762
- 0129: dt=110.976000, rms=0.655 (0.072%), neg=0, invalid=762
- 0130: dt=110.976000, rms=0.655 (0.069%), neg=0, invalid=762
- 0131: dt=110.976000, rms=0.655 (0.061%), neg=0, invalid=762
- 0132: dt=110.976000, rms=0.654 (0.056%), neg=0, invalid=762
- 0133: dt=110.976000, rms=0.654 (0.055%), neg=0, invalid=762
- 0134: dt=110.976000, rms=0.653 (0.054%), neg=0, invalid=762
- 0135: dt=110.976000, rms=0.653 (0.049%), neg=0, invalid=762
- 0136: dt=110.976000, rms=0.653 (0.049%), neg=0, invalid=762
- 0137: dt=110.976000, rms=0.653 (0.046%), neg=0, invalid=762
- 0138: dt=110.976000, rms=0.652 (0.046%), neg=0, invalid=762
- 0139: dt=110.976000, rms=0.652 (0.046%), neg=0, invalid=762
- 0140: dt=110.976000, rms=0.652 (0.043%), neg=0, invalid=762
- 0141: dt=110.976000, rms=0.651 (0.042%), neg=0, invalid=762
- 0142: dt=110.976000, rms=0.651 (0.041%), neg=0, invalid=762
- 0143: dt=110.976000, rms=0.651 (0.040%), neg=0, invalid=762
- 0144: dt=110.976000, rms=0.651 (0.041%), neg=0, invalid=762
- 0145: dt=110.976000, rms=0.650 (0.038%), neg=0, invalid=762
- 0146: dt=110.976000, rms=0.650 (0.036%), neg=0, invalid=762
- 0147: dt=110.976000, rms=0.650 (0.034%), neg=0, invalid=762
- 0148: dt=110.976000, rms=0.650 (0.035%), neg=0, invalid=762
- 0149: dt=110.976000, rms=0.649 (0.035%), neg=0, invalid=762
- 0150: dt=110.976000, rms=0.649 (0.034%), neg=0, invalid=762
- 0151: dt=110.976000, rms=0.649 (0.033%), neg=0, invalid=762
- 0152: dt=110.976000, rms=0.649 (0.033%), neg=0, invalid=762
- 0153: dt=110.976000, rms=0.649 (0.032%), neg=0, invalid=762
- 0154: dt=110.976000, rms=0.648 (0.033%), neg=0, invalid=762
- 0155: dt=110.976000, rms=0.648 (0.033%), neg=0, invalid=762
- 0156: dt=110.976000, rms=0.648 (0.033%), neg=0, invalid=762
- 0157: dt=110.976000, rms=0.648 (0.030%), neg=0, invalid=762
- 0158: dt=110.976000, rms=0.648 (0.031%), neg=0, invalid=762
- 0159: dt=110.976000, rms=0.647 (0.030%), neg=0, invalid=762
- 0160: dt=110.976000, rms=0.647 (0.028%), neg=0, invalid=762
- 0161: dt=110.976000, rms=0.647 (0.028%), neg=0, invalid=762
- 0162: dt=110.976000, rms=0.647 (0.003%), neg=0, invalid=762
- 0163: dt=110.976000, rms=0.647 (0.006%), neg=0, invalid=762
- 0164: dt=110.976000, rms=0.647 (0.008%), neg=0, invalid=762
- 0165: dt=110.976000, rms=0.647 (0.010%), neg=0, invalid=762
- 0166: dt=110.976000, rms=0.647 (0.011%), neg=0, invalid=762
- 0167: dt=110.976000, rms=0.647 (0.013%), neg=0, invalid=762
- 0168: dt=110.976000, rms=0.647 (0.014%), neg=0, invalid=762
- 0169: dt=110.976000, rms=0.646 (0.014%), neg=0, invalid=762
- 0170: dt=110.976000, rms=0.646 (0.015%), neg=0, invalid=762
- 0171: dt=110.976000, rms=0.646 (0.016%), neg=0, invalid=762
- 0172: dt=110.976000, rms=0.646 (0.016%), neg=0, invalid=762
- 0173: dt=1183.744000, rms=0.646 (0.012%), neg=0, invalid=762
- 0174: dt=147.968000, rms=0.646 (0.005%), neg=0, invalid=762
- 0175: dt=147.968000, rms=0.646 (0.017%), neg=0, invalid=762
- 0176: dt=147.968000, rms=0.646 (0.005%), neg=0, invalid=762
- 0177: dt=36.992000, rms=0.646 (0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.646, neg=0, invalid=762
- 0178: dt=129.472000, rms=0.645 (0.166%), neg=0, invalid=762
- 0179: dt=443.904000, rms=0.645 (0.112%), neg=0, invalid=762
- 0180: dt=92.480000, rms=0.644 (0.021%), neg=0, invalid=762
- 0181: dt=92.480000, rms=0.644 (0.017%), neg=0, invalid=762
- 0182: dt=92.480000, rms=0.644 (0.023%), neg=0, invalid=762
- 0183: dt=92.480000, rms=0.644 (0.027%), neg=0, invalid=762
- 0184: dt=92.480000, rms=0.644 (0.028%), neg=0, invalid=762
- 0185: dt=92.480000, rms=0.644 (0.029%), neg=0, invalid=762
- 0186: dt=92.480000, rms=0.643 (0.027%), neg=0, invalid=762
- 0187: dt=92.480000, rms=0.643 (0.024%), neg=0, invalid=762
- 0188: dt=92.480000, rms=0.643 (0.022%), neg=0, invalid=762
- 0189: dt=2071.552000, rms=0.642 (0.107%), neg=0, invalid=762
- 0190: dt=129.472000, rms=0.642 (0.052%), neg=0, invalid=762
- 0191: dt=0.000000, rms=0.642 (0.001%), neg=0, invalid=762
- 0192: dt=0.850000, rms=0.642 (-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=0.644, neg=0, invalid=762
- 0193: dt=98.666667, rms=0.641 (0.513%), neg=0, invalid=762
- 0194: dt=103.680000, rms=0.635 (0.881%), neg=0, invalid=762
- 0195: dt=145.152000, rms=0.632 (0.486%), neg=0, invalid=762
- 0196: dt=25.920000, rms=0.630 (0.216%), neg=0, invalid=762
- 0197: dt=6.480000, rms=0.630 (0.054%), neg=0, invalid=762
- 0198: dt=0.141750, rms=0.630 (0.002%), neg=0, invalid=762
- 0199: dt=0.070875, rms=0.630 (0.001%), neg=0, invalid=762
- 0200: dt=0.035437, rms=0.630 (0.001%), neg=0, invalid=762
- 0201: dt=0.017719, rms=0.630 (0.000%), neg=0, invalid=762
- 0202: dt=0.008859, rms=0.630 (0.000%), neg=0, invalid=762
- 0203: dt=0.007594, rms=0.630 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.631, neg=0, invalid=762
- 0204: dt=135.245283, rms=0.625 (0.819%), neg=0, invalid=762
- 0205: dt=82.944000, rms=0.622 (0.489%), neg=0, invalid=762
- 0206: dt=86.276243, rms=0.621 (0.213%), neg=0, invalid=762
- 0207: dt=145.152000, rms=0.618 (0.406%), neg=0, invalid=762
- 0208: dt=36.288000, rms=0.617 (0.175%), neg=0, invalid=762
- 0209: dt=145.152000, rms=0.616 (0.242%), neg=0, invalid=762
- 0210: dt=88.000000, rms=0.614 (0.263%), neg=0, invalid=762
- 0211: dt=73.552239, rms=0.613 (0.143%), neg=0, invalid=762
- 0212: dt=145.152000, rms=0.612 (0.275%), neg=0, invalid=762
- 0213: dt=36.288000, rms=0.611 (0.103%), neg=0, invalid=762
- 0214: dt=145.152000, rms=0.610 (0.198%), neg=0, invalid=762
- 0215: dt=103.680000, rms=0.609 (0.195%), neg=0, invalid=762
- 0216: dt=62.728477, rms=0.608 (0.109%), neg=0, invalid=762
- 0217: dt=145.152000, rms=0.607 (0.212%), neg=0, invalid=762
- 0218: dt=82.944000, rms=0.606 (0.094%), neg=0, invalid=762
- 0219: dt=103.680000, rms=0.605 (0.148%), neg=0, invalid=762
- 0220: dt=65.488372, rms=0.605 (0.098%), neg=0, invalid=762
- 0221: dt=145.152000, rms=0.604 (0.160%), neg=0, invalid=762
- 0222: dt=36.288000, rms=0.603 (0.072%), neg=0, invalid=762
- 0223: dt=103.680000, rms=0.603 (0.117%), neg=0, invalid=762
- 0224: dt=145.152000, rms=0.602 (0.139%), neg=0, invalid=762
- 0225: dt=9.072000, rms=0.602 (0.016%), neg=0, invalid=762
- 0226: dt=9.072000, rms=0.602 (0.018%), neg=0, invalid=762
- 0227: dt=2.268000, rms=0.602 (0.005%), neg=0, invalid=762
- 0228: dt=2.268000, rms=0.601 (0.005%), neg=0, invalid=762
- 0229: dt=0.008859, rms=0.601 (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=0.607, neg=0, invalid=762
- 0230: dt=0.000000, rms=0.606 (0.085%), neg=0, invalid=762
- 0231: dt=0.000000, rms=0.606 (0.000%), neg=0, invalid=762
- 0232: dt=0.000244, rms=0.606 (0.000%), neg=0, invalid=762
- 0233: dt=0.000001, rms=0.606 (0.000%), neg=0, invalid=762
- 0234: dt=0.000000, rms=0.606 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.607, neg=0, invalid=762
- 0235: dt=0.000000, rms=0.606 (0.085%), neg=0, invalid=762
- 0236: dt=0.000000, rms=0.606 (0.000%), neg=0, invalid=762
- 0237: dt=0.000002, rms=0.606 (0.000%), neg=0, invalid=762
- 0238: dt=0.000001, rms=0.606 (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=0.622, neg=0, invalid=762
- 0239: dt=4.032000, rms=0.608 (2.205%), neg=0, invalid=762
- 0240: dt=4.032000, rms=0.598 (1.658%), neg=0, invalid=762
- 0241: dt=4.032000, rms=0.591 (1.253%), neg=0, invalid=762
- 0242: dt=4.032000, rms=0.585 (0.969%), neg=0, invalid=762
- 0243: dt=4.032000, rms=0.580 (0.774%), neg=0, invalid=762
- 0244: dt=4.032000, rms=0.577 (0.583%), neg=0, invalid=762
- 0245: dt=4.032000, rms=0.574 (0.525%), neg=0, invalid=762
- 0246: dt=4.032000, rms=0.572 (0.357%), neg=0, invalid=762
- 0247: dt=4.032000, rms=0.570 (0.374%), neg=0, invalid=762
- 0248: dt=4.032000, rms=0.569 (0.233%), neg=0, invalid=762
- 0249: dt=4.032000, rms=0.567 (0.272%), neg=0, invalid=762
- 0250: dt=4.032000, rms=0.566 (0.169%), neg=0, invalid=762
- 0251: dt=4.032000, rms=0.565 (0.193%), neg=0, invalid=762
- 0252: dt=4.032000, rms=0.564 (0.133%), neg=0, invalid=762
- 0253: dt=4.032000, rms=0.563 (0.127%), neg=0, invalid=762
- 0254: dt=4.032000, rms=0.563 (0.112%), neg=0, invalid=762
- 0255: dt=4.032000, rms=0.562 (0.079%), neg=0, invalid=762
- 0256: dt=4.032000, rms=0.562 (0.101%), neg=0, invalid=762
- 0257: dt=4.032000, rms=0.561 (0.068%), neg=0, invalid=762
- 0258: dt=1.008000, rms=0.561 (0.024%), neg=0, invalid=762
- 0259: dt=0.252000, rms=0.561 (0.007%), neg=0, invalid=762
- 0260: dt=0.063000, rms=0.561 (0.002%), neg=0, invalid=762
- 0261: dt=0.003938, rms=0.561 (0.000%), neg=0, invalid=762
- 0262: dt=0.002813, rms=0.561 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.562, neg=0, invalid=762
- 0263: dt=6.000000, rms=0.561 (0.149%), neg=0, invalid=762
- 0264: dt=3.428571, rms=0.561 (0.022%), neg=0, invalid=762
- 0265: dt=3.428571, rms=0.561 (0.028%), neg=0, invalid=762
- 0266: dt=3.428571, rms=0.561 (0.025%), neg=0, invalid=762
- 0267: dt=3.428571, rms=0.560 (0.011%), neg=0, invalid=762
- 0268: dt=4.032000, rms=0.560 (0.047%), neg=0, invalid=762
- 0269: dt=5.600000, rms=0.560 (0.025%), neg=0, invalid=762
- 0270: dt=5.600000, rms=0.560 (0.070%), neg=0, invalid=762
- 0271: dt=5.600000, rms=0.559 (0.087%), neg=0, invalid=762
- 0272: dt=5.600000, rms=0.558 (0.133%), neg=0, invalid=762
- 0273: dt=5.600000, rms=0.558 (0.132%), neg=0, invalid=762
- 0274: dt=5.600000, rms=0.557 (0.123%), neg=0, invalid=762
- 0275: dt=5.600000, rms=0.556 (0.131%), neg=0, invalid=762
- 0276: dt=5.600000, rms=0.556 (0.137%), neg=0, invalid=762
- 0277: dt=5.600000, rms=0.555 (0.130%), neg=0, invalid=762
- 0278: dt=5.600000, rms=0.554 (0.103%), neg=0, invalid=762
- 0279: dt=5.600000, rms=0.553 (0.136%), neg=0, invalid=762
- 0280: dt=5.600000, rms=0.553 (0.134%), neg=0, invalid=762
- 0281: dt=5.600000, rms=0.552 (0.096%), neg=0, invalid=762
- 0282: dt=5.600000, rms=0.552 (0.062%), neg=0, invalid=762
- 0283: dt=5.600000, rms=0.551 (0.090%), neg=0, invalid=762
- 0284: dt=5.600000, rms=0.551 (0.136%), neg=0, invalid=762
- 0285: dt=5.600000, rms=0.550 (0.069%), neg=0, invalid=762
- 0286: dt=5.600000, rms=0.550 (0.015%), neg=0, invalid=762
- 0287: dt=5.600000, rms=0.550 (0.096%), neg=0, invalid=762
- 0288: dt=5.600000, rms=0.549 (0.133%), neg=0, invalid=762
- 0289: dt=5.600000, rms=0.549 (0.001%), neg=0, invalid=762
- 0290: dt=5.600000, rms=0.549 (0.035%), neg=0, invalid=762
- 0291: dt=5.600000, rms=0.548 (0.112%), neg=0, invalid=762
- 0292: dt=5.600000, rms=0.548 (0.016%), neg=0, invalid=762
- 0293: dt=5.600000, rms=0.548 (0.014%), neg=0, invalid=762
- 0294: dt=4.032000, rms=0.547 (0.077%), neg=0, invalid=762
- 0295: dt=0.000000, rms=0.547 (0.000%), neg=0, invalid=762
- 0296: dt=0.150000, rms=0.547 (-0.001%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.563, neg=0, invalid=762
- 0297: dt=0.000000, rms=0.562 (0.088%), neg=0, invalid=762
- 0298: dt=0.000000, rms=0.562 (0.000%), neg=0, invalid=762
- 0299: dt=0.100000, rms=0.562 (-0.154%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.563, neg=0, invalid=762
- 0300: dt=0.000000, rms=0.562 (0.088%), neg=0, invalid=762
- 0301: dt=0.000000, rms=0.562 (0.000%), neg=0, invalid=762
- 0302: dt=0.100000, rms=0.562 (-0.144%), 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=0.538, neg=0, invalid=762
- 0303: dt=0.448000, rms=0.522 (2.898%), neg=0, invalid=762
- 0304: dt=0.448000, rms=0.519 (0.692%), neg=0, invalid=762
- 0305: dt=0.448000, rms=0.517 (0.379%), neg=0, invalid=762
- 0306: dt=0.448000, rms=0.516 (0.210%), neg=0, invalid=762
- 0307: dt=0.448000, rms=0.515 (0.184%), neg=0, invalid=762
- 0308: dt=0.384000, rms=0.514 (0.102%), neg=0, invalid=762
- 0309: dt=0.384000, rms=0.514 (0.107%), neg=0, invalid=762
- 0310: dt=0.112000, rms=0.513 (0.040%), neg=0, invalid=762
- 0311: dt=0.112000, rms=0.513 (0.031%), neg=0, invalid=762
- 0312: dt=0.112000, rms=0.513 (0.056%), neg=0, invalid=762
- 0313: dt=0.112000, rms=0.513 (0.068%), neg=0, invalid=762
- 0314: dt=0.112000, rms=0.512 (0.077%), neg=0, invalid=762
- 0315: dt=0.112000, rms=0.512 (0.077%), neg=0, invalid=762
- 0316: dt=0.112000, rms=0.511 (0.078%), neg=0, invalid=762
- 0317: dt=0.112000, rms=0.511 (0.076%), neg=0, invalid=762
- 0318: dt=0.112000, rms=0.511 (0.071%), neg=0, invalid=762
- 0319: dt=0.112000, rms=0.510 (0.062%), neg=0, invalid=762
- 0320: dt=0.112000, rms=0.510 (0.053%), neg=0, invalid=762
- 0321: dt=0.112000, rms=0.510 (0.044%), neg=0, invalid=762
- 0322: dt=0.112000, rms=0.510 (0.035%), neg=0, invalid=762
- 0323: dt=0.112000, rms=0.509 (0.026%), neg=0, invalid=762
- 0324: dt=0.112000, rms=0.509 (0.023%), neg=0, invalid=762
- 0325: dt=0.112000, rms=0.509 (0.012%), neg=0, invalid=762
- 0326: dt=0.000000, rms=0.509 (0.004%), neg=0, invalid=762
- 0327: dt=0.050000, rms=0.509 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.510, neg=0, invalid=762
- 0328: dt=0.320000, rms=0.506 (0.809%), neg=0, invalid=762
- 0329: dt=0.320000, rms=0.505 (0.224%), neg=0, invalid=762
- 0330: dt=0.320000, rms=0.504 (0.070%), neg=0, invalid=762
- 0331: dt=0.192000, rms=0.504 (0.017%), neg=0, invalid=762
- 0332: dt=0.192000, rms=0.504 (0.016%), neg=0, invalid=762
- 0333: dt=0.192000, rms=0.504 (0.008%), neg=0, invalid=762
- 0334: dt=0.192000, rms=0.504 (-0.000%), neg=0, invalid=762
- label assignment complete, 0 changed (0.00%)
- ********************* ALLOWING NEGATIVE NODES IN DEFORMATION********************************
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.008
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.502, neg=0, invalid=762
- 0335: dt=23.120000, rms=0.501 (0.124%), neg=0, invalid=762
- 0336: dt=0.007902, rms=0.501 (0.002%), neg=0, invalid=762
- 0337: dt=0.007902, rms=0.501 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.502, neg=0, invalid=762
- 0338: dt=129.472000, rms=0.501 (0.176%), neg=0, invalid=762
- 0339: dt=129.472000, rms=0.501 (0.038%), neg=0, invalid=762
- 0340: dt=129.472000, rms=0.501 (-0.031%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.501, neg=0, invalid=762
- 0341: dt=9.072000, rms=0.501 (0.128%), neg=0, invalid=762
- 0342: dt=9.072000, rms=0.501 (0.015%), neg=0, invalid=762
- 0343: dt=9.072000, rms=0.501 (0.007%), neg=0, invalid=762
- 0344: dt=9.072000, rms=0.501 (-0.009%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.501, neg=0, invalid=762
- 0345: dt=98.102190, rms=0.499 (0.386%), neg=0, invalid=762
- 0346: dt=36.288000, rms=0.499 (0.138%), neg=0, invalid=762
- 0347: dt=36.288000, rms=0.498 (0.053%), neg=0, invalid=762
- 0348: dt=36.288000, rms=0.498 (0.086%), neg=0, invalid=762
- 0349: dt=36.288000, rms=0.497 (0.121%), neg=0, invalid=762
- 0350: dt=36.288000, rms=0.497 (0.116%), neg=0, invalid=762
- 0351: dt=36.288000, rms=0.496 (0.105%), neg=0, invalid=762
- 0352: dt=124.416000, rms=0.496 (0.033%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.497, neg=0, invalid=762
- 0353: dt=31.046070, rms=0.494 (0.658%), neg=0, invalid=762
- 0354: dt=6.400000, rms=0.494 (0.012%), neg=0, invalid=762
- 0355: dt=6.400000, rms=0.493 (0.112%), neg=0, invalid=762
- 0356: dt=6.400000, rms=0.492 (0.154%), neg=0, invalid=762
- 0357: dt=6.400000, rms=0.491 (0.170%), neg=0, invalid=762
- 0358: dt=6.400000, rms=0.491 (0.152%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 1 iterations, nbhd size=0, neg = 0
- 0359: dt=6.400000, rms=0.490 (0.097%), neg=0, invalid=762
- iter 0, gcam->neg = 9
- after 10 iterations, nbhd size=1, neg = 0
- 0360: dt=6.400000, rms=0.490 (0.038%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 1 iterations, nbhd size=0, neg = 0
- 0361: dt=44.800000, rms=0.489 (0.205%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 3 iterations, nbhd size=0, neg = 0
- 0362: dt=25.600000, rms=0.488 (0.155%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 9 iterations, nbhd size=1, neg = 0
- 0363: dt=25.600000, rms=0.488 (-0.150%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.489, neg=0, invalid=762
- 0364: dt=24.083333, rms=0.486 (0.462%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 8 iterations, nbhd size=1, neg = 0
- 0365: dt=27.726210, rms=0.483 (0.816%), neg=0, invalid=762
- 0366: dt=2.800000, rms=0.482 (0.040%), neg=0, invalid=762
- 0367: dt=2.800000, rms=0.482 (0.036%), neg=0, invalid=762
- 0368: dt=2.800000, rms=0.482 (-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=0.487, neg=0, invalid=762
- 0369: dt=4.842105, rms=0.485 (0.264%), neg=0, invalid=762
- iter 0, gcam->neg = 351
- after 18 iterations, nbhd size=1, neg = 0
- 0370: dt=8.810573, rms=0.482 (0.638%), neg=0, invalid=762
- 0371: dt=0.720000, rms=0.482 (0.009%), neg=0, invalid=762
- 0372: dt=0.720000, rms=0.482 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.483, neg=0, invalid=762
- 0373: dt=2.731707, rms=0.482 (0.179%), neg=0, invalid=762
- iter 0, gcam->neg = 116
- after 13 iterations, nbhd size=1, neg = 0
- 0374: dt=17.261084, rms=0.478 (0.720%), neg=0, invalid=762
- 0375: dt=2.880000, rms=0.478 (0.043%), neg=0, invalid=762
- 0376: dt=2.880000, rms=0.478 (0.109%), neg=0, invalid=762
- 0377: dt=2.880000, rms=0.477 (0.161%), neg=0, invalid=762
- 0378: dt=2.880000, rms=0.476 (0.183%), neg=0, invalid=762
- 0379: dt=2.880000, rms=0.475 (0.179%), neg=0, invalid=762
- 0380: dt=2.880000, rms=0.475 (0.153%), neg=0, invalid=762
- 0381: dt=2.880000, rms=0.474 (0.128%), neg=0, invalid=762
- 0382: dt=2.880000, rms=0.473 (0.126%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0383: dt=2.880000, rms=0.473 (0.125%), neg=0, invalid=762
- 0384: dt=2.880000, rms=0.472 (0.116%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0385: dt=11.520000, rms=0.472 (0.052%), neg=0, invalid=762
- iter 0, gcam->neg = 113
- after 13 iterations, nbhd size=1, neg = 0
- 0386: dt=11.520000, rms=0.472 (-0.016%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.477, neg=0, invalid=762
- 0387: dt=0.000050, rms=0.477 (0.130%), neg=0, invalid=762
- 0388: dt=0.000000, rms=0.477 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.477, neg=0, invalid=762
- 0389: dt=0.000000, rms=0.477 (0.130%), neg=0, invalid=762
- 0390: dt=0.000000, rms=0.477 (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=0.469, neg=0, invalid=762
- iter 0, gcam->neg = 1495
- after 14 iterations, nbhd size=1, neg = 0
- 0391: dt=1.724373, rms=0.445 (5.215%), neg=0, invalid=762
- 0392: dt=0.000013, rms=0.445 (0.006%), neg=0, invalid=762
- 0393: dt=0.000013, rms=0.445 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.446, neg=0, invalid=762
- 0394: dt=0.064000, rms=0.445 (0.198%), neg=0, invalid=762
- 0395: dt=0.005000, rms=0.445 (0.002%), neg=0, invalid=762
- 0396: dt=0.005000, rms=0.445 (-0.001%), 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=0.434, neg=0, invalid=762
- 0397: dt=18.496000, rms=0.434 (0.012%), neg=0, invalid=762
- 0398: dt=0.361250, rms=0.434 (0.000%), neg=0, invalid=762
- 0399: dt=0.361250, rms=0.434 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.434, neg=0, invalid=762
- 0400: dt=92.480000, rms=0.434 (0.026%), neg=0, invalid=762
- 0401: dt=73.984000, rms=0.434 (0.002%), neg=0, invalid=762
- 0402: dt=73.984000, rms=0.434 (-0.003%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.434, neg=0, invalid=762
- 0403: dt=0.000000, rms=0.434 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.434, neg=0, invalid=762
- 0404: dt=5.333333, rms=0.434 (0.000%), neg=0, invalid=762
- 0405: dt=6.480000, rms=0.434 (0.000%), neg=0, invalid=762
- 0406: dt=6.480000, rms=0.434 (0.001%), neg=0, invalid=762
- 0407: dt=6.480000, rms=0.434 (0.000%), neg=0, invalid=762
- 0408: dt=6.480000, rms=0.434 (-0.001%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.434, neg=0, invalid=762
- 0409: dt=11.200000, rms=0.434 (0.133%), neg=0, invalid=762
- 0410: dt=8.000000, rms=0.434 (0.030%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 1 iterations, nbhd size=0, neg = 0
- 0411: dt=8.000000, rms=0.434 (0.001%), neg=0, invalid=762
- iter 0, gcam->neg = 11
- after 8 iterations, nbhd size=1, neg = 0
- 0412: dt=8.000000, rms=0.434 (-0.076%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.434, neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 1 iterations, nbhd size=0, neg = 0
- 0413: dt=38.400000, rms=0.432 (0.351%), neg=0, invalid=762
- iter 0, gcam->neg = 56
- after 10 iterations, nbhd size=1, neg = 0
- 0414: dt=75.764706, rms=0.430 (0.537%), neg=0, invalid=762
- 0415: dt=9.600000, rms=0.429 (0.086%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 7 iterations, nbhd size=1, neg = 0
- 0416: dt=9.600000, rms=0.429 (-0.006%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.432, neg=0, invalid=762
- iter 0, gcam->neg = 16
- after 9 iterations, nbhd size=1, neg = 0
- 0417: dt=6.800000, rms=0.431 (0.125%), neg=0, invalid=762
- iter 0, gcam->neg = 36
- after 11 iterations, nbhd size=1, neg = 0
- 0418: dt=9.061224, rms=0.430 (0.136%), neg=0, invalid=762
- 0419: dt=0.252000, rms=0.430 (0.000%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0420: dt=0.252000, rms=0.430 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.430, neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 7 iterations, nbhd size=1, neg = 0
- 0421: dt=7.444444, rms=0.430 (0.192%), neg=0, invalid=762
- iter 0, gcam->neg = 144
- after 13 iterations, nbhd size=1, neg = 0
- 0422: dt=14.734177, rms=0.428 (0.430%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 1 iterations, nbhd size=0, neg = 0
- 0423: dt=2.000000, rms=0.428 (0.011%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0424: dt=2.000000, rms=0.428 (0.016%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 4 iterations, nbhd size=0, neg = 0
- 0425: dt=2.000000, rms=0.428 (0.015%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 3 iterations, nbhd size=0, neg = 0
- 0426: dt=2.000000, rms=0.428 (0.013%), neg=0, invalid=762
- iter 0, gcam->neg = 50
- after 9 iterations, nbhd size=1, neg = 0
- 0427: dt=15.272727, rms=0.427 (0.163%), neg=0, invalid=762
- 0428: dt=0.252000, rms=0.427 (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=0.432, neg=0, invalid=762
- 0429: dt=0.000000, rms=0.432 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.432, neg=0, invalid=762
- 0430: dt=0.000000, rms=0.432 (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=0.423, neg=0, invalid=762
- iter 0, gcam->neg = 626
- after 16 iterations, nbhd size=1, neg = 0
- 0431: dt=0.937273, rms=0.415 (1.956%), neg=0, invalid=762
- 0432: dt=0.012000, rms=0.415 (0.001%), neg=0, invalid=762
- 0433: dt=0.012000, rms=0.415 (0.000%), neg=0, invalid=762
- 0434: dt=0.012000, rms=0.415 (-0.003%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.415, neg=0, invalid=762
- 0435: dt=0.256000, rms=0.414 (0.216%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0436: dt=0.384000, rms=0.413 (0.228%), neg=0, invalid=762
- iter 0, gcam->neg = 14
- after 0 iterations, nbhd size=0, neg = 0
- 0437: dt=0.448000, rms=0.413 (0.148%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 1 iterations, nbhd size=0, neg = 0
- 0438: dt=0.448000, rms=0.413 (0.042%), neg=0, invalid=762
- iter 0, gcam->neg = 13
- after 1 iterations, nbhd size=0, neg = 0
- 0439: dt=0.448000, rms=0.412 (0.083%), neg=0, invalid=762
- iter 0, gcam->neg = 46
- after 11 iterations, nbhd size=1, neg = 0
- 0440: dt=0.448000, rms=0.412 (-0.008%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 2 hours, 4 minutes and 11 seconds.
- mri_ca_register utimesec 8419.642019
- mri_ca_register stimesec 8.907645
- mri_ca_register ru_maxrss 1342232
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 4178803
- mri_ca_register ru_majflt 0
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 0
- mri_ca_register ru_oublock 65040
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 3917
- mri_ca_register ru_nivcsw 26296
- FSRUNTIME@ mri_ca_register 2.0696 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Sat Oct 7 19:32:14 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-900
- 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-6.0.0/0051324/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 6.97
- 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 = 0.09046 (14)
- Left_Lateral_Ventricle (4): linear fit = 0.70 x + 0.0 (4010 voxels, overlap=0.743)
- Left_Lateral_Ventricle (4): linear fit = 0.70 x + 0.0 (4010 voxels, peak = 14), gca=14.1
- gca peak = 0.17677 (13)
- mri peak = 0.09826 (16)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (4715 voxels, overlap=0.810)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (4715 voxels, peak = 13), gca=13.5
- gca peak = 0.28129 (95)
- mri peak = 0.10915 (101)
- Right_Pallidum (52): linear fit = 1.05 x + 0.0 (621 voxels, overlap=1.014)
- Right_Pallidum (52): linear fit = 1.05 x + 0.0 (621 voxels, peak = 100), gca=100.2
- gca peak = 0.16930 (96)
- mri peak = 0.09150 (101)
- Left_Pallidum (13): linear fit = 1.05 x + 0.0 (612 voxels, overlap=0.872)
- Left_Pallidum (13): linear fit = 1.05 x + 0.0 (612 voxels, peak = 101), gca=101.3
- gca peak = 0.24553 (55)
- mri peak = 0.07445 (65)
- Right_Hippocampus (53): linear fit = 1.13 x + 0.0 (1218 voxels, overlap=0.939)
- Right_Hippocampus (53): linear fit = 1.13 x + 0.0 (1218 voxels, peak = 62), gca=62.4
- gca peak = 0.30264 (59)
- mri peak = 0.07400 (65)
- Left_Hippocampus (17): linear fit = 1.13 x + 0.0 (963 voxels, overlap=1.016)
- Left_Hippocampus (17): linear fit = 1.13 x + 0.0 (963 voxels, peak = 67), gca=67.0
- gca peak = 0.07580 (103)
- mri peak = 0.07596 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (38034 voxels, overlap=0.693)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (38034 voxels, peak = 107), gca=106.6
- gca peak = 0.07714 (104)
- mri peak = 0.07017 (109)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (38575 voxels, overlap=0.612)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (38575 voxels, peak = 109), gca=108.7
- gca peak = 0.09712 (58)
- mri peak = 0.03180 (63)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (23335 voxels, overlap=0.913)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (23335 voxels, peak = 59), gca=59.4
- gca peak = 0.11620 (58)
- mri peak = 0.03293 (62)
- Right_Cerebral_Cortex (42): linear fit = 1.10 x + 0.0 (25291 voxels, overlap=0.869)
- Right_Cerebral_Cortex (42): linear fit = 1.10 x + 0.0 (25291 voxels, peak = 64), gca=63.5
- gca peak = 0.30970 (66)
- mri peak = 0.08179 (75)
- Right_Caudate (50): linear fit = 1.14 x + 0.0 (1181 voxels, overlap=0.171)
- Right_Caudate (50): linear fit = 1.14 x + 0.0 (1181 voxels, peak = 76), gca=75.6
- gca peak = 0.15280 (69)
- mri peak = 0.08788 (75)
- Left_Caudate (11): linear fit = 1.04 x + 0.0 (1172 voxels, overlap=0.925)
- Left_Caudate (11): linear fit = 1.04 x + 0.0 (1172 voxels, peak = 72), gca=72.1
- gca peak = 0.13902 (56)
- mri peak = 0.04175 (58)
- Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (5213 voxels, overlap=0.657)
- Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (5213 voxels, peak = 59), gca=58.5
- gca peak = 0.14777 (55)
- mri peak = 0.05372 (63)
- Right_Cerebellum_Cortex (47): linear fit = 1.13 x + 0.0 (7018 voxels, overlap=0.587)
- Right_Cerebellum_Cortex (47): linear fit = 1.13 x + 0.0 (7018 voxels, peak = 62), gca=62.4
- gca peak = 0.16765 (84)
- mri peak = 0.05028 (88)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (3375 voxels, overlap=0.905)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (3375 voxels, peak = 86), gca=86.1
- gca peak = 0.18739 (84)
- mri peak = 0.07351 (84)
- Right_Cerebellum_White_Matter (46): linear fit = 1.02 x + 0.0 (2280 voxels, overlap=0.910)
- Right_Cerebellum_White_Matter (46): linear fit = 1.02 x + 0.0 (2280 voxels, peak = 86), gca=86.1
- gca peak = 0.29869 (57)
- mri peak = 0.07955 (65)
- Left_Amygdala (18): linear fit = 1.13 x + 0.0 (449 voxels, overlap=1.025)
- Left_Amygdala (18): linear fit = 1.13 x + 0.0 (449 voxels, peak = 65), gca=64.7
- gca peak = 0.33601 (57)
- mri peak = 0.08146 (67)
- Right_Amygdala (54): linear fit = 1.13 x + 0.0 (580 voxels, overlap=0.565)
- Right_Amygdala (54): linear fit = 1.13 x + 0.0 (580 voxels, peak = 65), gca=64.7
- gca peak = 0.11131 (90)
- mri peak = 0.05949 (88)
- Left_Thalamus_Proper (10): linear fit = 1.05 x + 0.0 (3910 voxels, overlap=0.835)
- Left_Thalamus_Proper (10): linear fit = 1.05 x + 0.0 (3910 voxels, peak = 95), gca=94.9
- gca peak = 0.11793 (83)
- mri peak = 0.07152 (87)
- Right_Thalamus_Proper (49): linear fit = 1.07 x + 0.0 (3873 voxels, overlap=0.680)
- Right_Thalamus_Proper (49): linear fit = 1.07 x + 0.0 (3873 voxels, peak = 88), gca=88.4
- gca peak = 0.08324 (81)
- mri peak = 0.05566 (86)
- Left_Putamen (12): linear fit = 1.04 x + 0.0 (1654 voxels, overlap=0.877)
- Left_Putamen (12): linear fit = 1.04 x + 0.0 (1654 voxels, peak = 85), gca=84.6
- gca peak = 0.10360 (77)
- mri peak = 0.05988 (84)
- Right_Putamen (51): linear fit = 1.08 x + 0.0 (1665 voxels, overlap=0.884)
- Right_Putamen (51): linear fit = 1.08 x + 0.0 (1665 voxels, peak = 83), gca=82.8
- gca peak = 0.08424 (78)
- mri peak = 0.08742 (83)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (8904 voxels, overlap=0.476)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (8904 voxels, peak = 85), gca=85.4
- gca peak = 0.12631 (89)
- mri peak = 0.06725 (97)
- Right_VentralDC (60): linear fit = 1.12 x + 0.0 (1316 voxels, overlap=0.567)
- Right_VentralDC (60): linear fit = 1.12 x + 0.0 (1316 voxels, peak = 100), gca=100.1
- gca peak = 0.14500 (87)
- mri peak = 0.07034 (96)
- Left_VentralDC (28): linear fit = 1.10 x + 0.0 (1237 voxels, overlap=0.778)
- Left_VentralDC (28): linear fit = 1.10 x + 0.0 (1237 voxels, peak = 95), gca=95.3
- gca peak = 0.14975 (24)
- mri peak = 0.12346 (21)
- Third_Ventricle (14): linear fit = 0.75 x + 0.0 (243 voxels, overlap=0.477)
- Third_Ventricle (14): linear fit = 0.75 x + 0.0 (243 voxels, peak = 18), gca=17.9
- gca peak = 0.19357 (14)
- mri peak = 0.14050 (16)
- Fourth_Ventricle (15): linear fit = 1.10 x + 0.0 (120 voxels, overlap=0.842)
- Fourth_Ventricle (15): linear fit = 1.10 x + 0.0 (120 voxels, peak = 15), gca=15.3
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16825 (27)
- gca peak Left_Thalamus = 1.00000 (94)
- gca peak CSF = 0.23379 (36)
- gca peak Left_Accumbens_area = 0.70037 (62)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.75997 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.24655 (23)
- gca peak Right_Accumbens_area = 0.45042 (65)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65475 (32)
- gca peak WM_hypointensities = 0.07854 (76)
- gca peak non_WM_hypointensities = 0.08491 (43)
- gca peak Optic_Chiasm = 0.71127 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.11 x + 0.0
- estimating mean wm scale to be 1.04 x + 0.0
- estimating mean csf scale to be 0.90 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.19905 (14)
- mri peak = 0.09046 (14)
- Left_Lateral_Ventricle (4): linear fit = 1.03 x + 0.0 (4010 voxels, overlap=0.990)
- Left_Lateral_Ventricle (4): linear fit = 1.03 x + 0.0 (4010 voxels, peak = 14), gca=14.5
- gca peak = 0.19108 (13)
- mri peak = 0.09826 (16)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (4715 voxels, overlap=0.745)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (4715 voxels, peak = 13), gca=13.5
- gca peak = 0.27298 (101)
- mri peak = 0.10915 (101)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (621 voxels, overlap=1.011)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (621 voxels, peak = 100), gca=100.5
- gca peak = 0.16685 (101)
- mri peak = 0.09150 (101)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (612 voxels, overlap=1.007)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (612 voxels, peak = 102), gca=101.5
- gca peak = 0.26834 (63)
- mri peak = 0.07445 (65)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (1218 voxels, overlap=1.011)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (1218 voxels, peak = 63), gca=63.0
- gca peak = 0.28034 (64)
- mri peak = 0.07400 (65)
- Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (963 voxels, overlap=1.012)
- Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (963 voxels, peak = 64), gca=64.0
- gca peak = 0.07501 (106)
- mri peak = 0.07596 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (38034 voxels, overlap=0.825)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (38034 voxels, peak = 105), gca=105.5
- gca peak = 0.07788 (109)
- mri peak = 0.07017 (109)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (38575 voxels, overlap=0.801)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (38575 voxels, peak = 109), gca=109.0
- gca peak = 0.09505 (59)
- mri peak = 0.03180 (63)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (23335 voxels, overlap=0.952)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (23335 voxels, peak = 60), gca=60.5
- gca peak = 0.10617 (64)
- mri peak = 0.03293 (62)
- Right_Cerebral_Cortex (42): linear fit = 1.05 x + 0.0 (25291 voxels, overlap=0.975)
- Right_Cerebral_Cortex (42): linear fit = 1.05 x + 0.0 (25291 voxels, peak = 68), gca=67.5
- gca peak = 0.24441 (76)
- mri peak = 0.08179 (75)
- Right_Caudate (50): linear fit = 0.98 x + 0.0 (1181 voxels, overlap=1.005)
- Right_Caudate (50): linear fit = 0.98 x + 0.0 (1181 voxels, peak = 74), gca=74.1
- gca peak = 0.15227 (72)
- mri peak = 0.08788 (75)
- Left_Caudate (11): linear fit = 0.99 x + 0.0 (1172 voxels, overlap=1.002)
- Left_Caudate (11): linear fit = 0.99 x + 0.0 (1172 voxels, peak = 71), gca=70.9
- gca peak = 0.13202 (57)
- mri peak = 0.04175 (58)
- Left_Cerebellum_Cortex (8): linear fit = 1.02 x + 0.0 (5213 voxels, overlap=0.833)
- Left_Cerebellum_Cortex (8): linear fit = 1.02 x + 0.0 (5213 voxels, peak = 58), gca=58.4
- gca peak = 0.13429 (62)
- mri peak = 0.05372 (63)
- Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (7018 voxels, overlap=0.973)
- Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (7018 voxels, peak = 61), gca=61.1
- gca peak = 0.15744 (86)
- mri peak = 0.05028 (88)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (3375 voxels, overlap=0.961)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (3375 voxels, peak = 86), gca=85.6
- gca peak = 0.15728 (86)
- mri peak = 0.07351 (84)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (2280 voxels, overlap=0.966)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (2280 voxels, peak = 86), gca=85.6
- gca peak = 0.24352 (66)
- mri peak = 0.07955 (65)
- Left_Amygdala (18): linear fit = 1.01 x + 0.0 (449 voxels, overlap=1.020)
- Left_Amygdala (18): linear fit = 1.01 x + 0.0 (449 voxels, peak = 67), gca=67.0
- gca peak = 0.31297 (65)
- mri peak = 0.08146 (67)
- Right_Amygdala (54): linear fit = 1.01 x + 0.0 (580 voxels, overlap=1.012)
- Right_Amygdala (54): linear fit = 1.01 x + 0.0 (580 voxels, peak = 66), gca=66.0
- gca peak = 0.10558 (95)
- mri peak = 0.05949 (88)
- Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (3910 voxels, overlap=0.972)
- Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (3910 voxels, peak = 93), gca=92.6
- gca peak = 0.10630 (86)
- mri peak = 0.07152 (87)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (3873 voxels, overlap=0.926)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (3873 voxels, peak = 86), gca=86.0
- gca peak = 0.07460 (79)
- mri peak = 0.05566 (86)
- Left_Putamen (12): linear fit = 0.99 x + 0.0 (1654 voxels, overlap=0.983)
- Left_Putamen (12): linear fit = 0.99 x + 0.0 (1654 voxels, peak = 78), gca=77.8
- gca peak = 0.10530 (81)
- mri peak = 0.05988 (84)
- Right_Putamen (51): linear fit = 0.99 x + 0.0 (1665 voxels, overlap=0.992)
- Right_Putamen (51): linear fit = 0.99 x + 0.0 (1665 voxels, peak = 80), gca=79.8
- gca peak = 0.07773 (86)
- mri peak = 0.08742 (83)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (8904 voxels, overlap=0.726)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (8904 voxels, peak = 86), gca=85.6
- gca peak = 0.09997 (100)
- mri peak = 0.06725 (97)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1316 voxels, overlap=0.880)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1316 voxels, peak = 100), gca=100.5
- gca peak = 0.13986 (95)
- mri peak = 0.07034 (96)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1237 voxels, overlap=0.933)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1237 voxels, peak = 95), gca=95.5
- gca peak = 0.21286 (19)
- mri peak = 0.12346 (21)
- Third_Ventricle (14): linear fit = 1.00 x + 0.0 (243 voxels, overlap=1.009)
- Third_Ventricle (14): linear fit = 1.00 x + 0.0 (243 voxels, peak = 19), gca=19.0
- gca peak = 0.19627 (16)
- mri peak = 0.14050 (16)
- Fourth_Ventricle (15): linear fit = 0.92 x + 0.0 (120 voxels, overlap=0.793)
- Fourth_Ventricle (15): linear fit = 0.92 x + 0.0 (120 voxels, peak = 15), gca=14.6
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.15131 (30)
- gca peak Left_Thalamus = 0.64095 (104)
- gca peak CSF = 0.22410 (32)
- gca peak Left_Accumbens_area = 0.73030 (65)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.75962 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.21972 (26)
- gca peak Right_Accumbens_area = 0.29776 (74)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.54107 (29)
- gca peak WM_hypointensities = 0.07747 (79)
- gca peak non_WM_hypointensities = 0.09744 (45)
- gca peak Optic_Chiasm = 0.61094 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.02 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 1.00 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
- 71034 voxels changed in iteration 0 of unlikely voxel relabeling
- 200 voxels changed in iteration 1 of unlikely voxel relabeling
- 12 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 46393 gm and wm labels changed (%28 to gray, %72 to white out of all changed labels)
- 429 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 76736 changed. image ll: -2.135, PF=0.500
- pass 2: 20917 changed. image ll: -2.134, PF=0.500
- pass 3: 6361 changed.
- pass 4: 2183 changed.
- 47416 voxels changed in iteration 0 of unlikely voxel relabeling
- 254 voxels changed in iteration 1 of unlikely voxel relabeling
- 10 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
- 8656 voxels changed in iteration 0 of unlikely voxel relabeling
- 131 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
- 7353 voxels changed in iteration 0 of unlikely voxel relabeling
- 77 voxels changed in iteration 1 of unlikely voxel relabeling
- 11 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 6047 voxels changed in iteration 0 of unlikely voxel relabeling
- 33 voxels changed in iteration 1 of unlikely voxel relabeling
- 1 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- MRItoUCHAR: min=0, max=85
- MRItoUCHAR: converting to UCHAR
- writing labeled volume to aseg.auto_noCCseg.mgz
- mri_ca_label utimesec 3651.648864
- mri_ca_label stimesec 1.626752
- mri_ca_label ru_maxrss 2104848
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 714478
- mri_ca_label ru_majflt 0
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 65032
- mri_ca_label ru_oublock 496
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 241
- mri_ca_label ru_nivcsw 8275
- auto-labeling took 60 minutes and 7 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/transforms/cc_up.lta 0051324
- 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-6.0.0/0051324/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/norm.mgz
- 26625 voxels in left wm, 24657 in right wm, xrange [126, 132]
- searching rotation angles z=[-7 7], y=[-7 7]
-
searching scale 1 Z rot -7.2
searching scale 1 Z rot -7.0
searching scale 1 Z rot -6.7
searching scale 1 Z rot -6.5
searching scale 1 Z rot -6.2
searching scale 1 Z rot -6.0
searching scale 1 Z rot -5.7
searching scale 1 Z rot -5.5
searching scale 1 Z rot -5.2
searching scale 1 Z rot -5.0
searching scale 1 Z rot -4.7
searching scale 1 Z rot -4.5
searching scale 1 Z rot -4.2
searching scale 1 Z rot -4.0
searching scale 1 Z rot -3.7
searching scale 1 Z rot -3.5
searching scale 1 Z rot -3.2
searching scale 1 Z rot -3.0
searching scale 1 Z rot -2.7
searching scale 1 Z rot -2.5
searching scale 1 Z rot -2.2
searching scale 1 Z rot -2.0
searching scale 1 Z rot -1.7
searching scale 1 Z rot -1.5
searching scale 1 Z rot -1.2
searching scale 1 Z rot -1.0
searching scale 1 Z rot -0.7
searching scale 1 Z rot -0.5
searching scale 1 Z rot -0.2
searching scale 1 Z rot 0.0
searching scale 1 Z rot 0.3
searching scale 1 Z rot 0.5
searching scale 1 Z rot 0.8
searching scale 1 Z rot 1.0
searching scale 1 Z rot 1.3
searching scale 1 Z rot 1.5
searching scale 1 Z rot 1.8
searching scale 1 Z rot 2.0
searching scale 1 Z rot 2.3
searching scale 1 Z rot 2.5
searching scale 1 Z rot 2.8
searching scale 1 Z rot 3.0
searching scale 1 Z rot 3.3
searching scale 1 Z rot 3.5
searching scale 1 Z rot 3.8
searching scale 1 Z rot 4.0
searching scale 1 Z rot 4.3
searching scale 1 Z rot 4.5
searching scale 1 Z rot 4.8
searching scale 1 Z rot 5.0
searching scale 1 Z rot 5.3
searching scale 1 Z rot 5.5
searching scale 1 Z rot 5.8
searching scale 1 Z rot 6.0
searching scale 1 Z rot 6.3 global minimum found at slice 129.0, rotations (-0.26, -0.50)
- final transformation (x=129.0, yr=-0.257, zr=-0.498):
- 0.99995 0.00868 -0.00448 -1.69739;
- -0.00868 0.99996 0.00004 -0.87857;
- 0.00448 0.00000 0.99999 32.42331;
- 0.00000 0.00000 0.00000 1.00000;
- updating x range to be [125, 130] in xformed coordinates
- best xformed slice 128
- cc center is found at 128 130 95
- eigenvectors:
- 0.00064 0.00145 1.00000;
- -0.31115 -0.95036 0.00158;
- 0.95036 -0.31115 -0.00016;
- error in mid anterior detected - correcting...
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/aseg.auto.mgz...
- corpus callosum segmentation took 0.5 minutes
- #--------------------------------------
- #@# Merge ASeg Sat Oct 7 20:32:53 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Sat Oct 7 20:32:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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...
- 1651 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 108
- gm peak at 65 (65), valley at 33 (33)
- csf peak at 17, setting threshold to 49
- 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 65 (65), valley at 33 (33)
- csf peak at 15, setting threshold to 48
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to brain.mgz
- 3D bias adjustment took 2 minutes and 58 seconds.
- #--------------------------------------------
- #@# Mask BFS Sat Oct 7 20:35:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1557809 voxels in mask (pct= 9.29)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Sat Oct 7 20:35:53 CEST 2017
- mri_segment -mprage brain.mgz wm.seg.mgz
- doing initial intensity segmentation...
- using local statistics to label ambiguous voxels...
- computing class statistics for intensity windows...
- WM (104.0): 105.1 +- 5.1 [79.0 --> 125.0]
- GM (71.0) : 68.2 +- 10.4 [30.0 --> 95.0]
- setting bottom of white matter range to 78.6
- setting top of gray matter range to 89.0
- 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...
- 5369 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 3174 filled
- 1247 bright non-wm voxels segmented.
- 3837 diagonally connected voxels added...
- white matter segmentation took 1.6 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 0.49 minutes
- reading wm segmentation from wm.seg.mgz...
- 133 voxels added to wm to prevent paths from MTL structures to cortex
- 3502 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 68735 voxels turned on, 20596 voxels turned off.
- propagating editing to output volume from wm.seg.mgz
- 115,126,128 old 0 new 0
- 115,126,128 old 0 new 0
- writing edited volume to wm.asegedit.mgz....
- mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz
- Iteration Number : 1
- pass 1 (xy+): 22 found - 22 modified | TOTAL: 22
- pass 2 (xy+): 0 found - 22 modified | TOTAL: 22
- pass 1 (xy-): 19 found - 19 modified | TOTAL: 41
- pass 2 (xy-): 0 found - 19 modified | TOTAL: 41
- pass 1 (yz+): 14 found - 14 modified | TOTAL: 55
- pass 2 (yz+): 0 found - 14 modified | TOTAL: 55
- pass 1 (yz-): 20 found - 20 modified | TOTAL: 75
- pass 2 (yz-): 0 found - 20 modified | TOTAL: 75
- pass 1 (xz+): 21 found - 21 modified | TOTAL: 96
- pass 2 (xz+): 0 found - 21 modified | TOTAL: 96
- pass 1 (xz-): 19 found - 19 modified | TOTAL: 115
- pass 2 (xz-): 0 found - 19 modified | TOTAL: 115
- Iteration Number : 1
- pass 1 (+++): 38 found - 38 modified | TOTAL: 38
- pass 2 (+++): 0 found - 38 modified | TOTAL: 38
- pass 1 (+++): 39 found - 39 modified | TOTAL: 77
- pass 2 (+++): 0 found - 39 modified | TOTAL: 77
- pass 1 (+++): 23 found - 23 modified | TOTAL: 100
- pass 2 (+++): 0 found - 23 modified | TOTAL: 100
- pass 1 (+++): 31 found - 31 modified | TOTAL: 131
- pass 2 (+++): 0 found - 31 modified | TOTAL: 131
- Iteration Number : 1
- pass 1 (++): 122 found - 122 modified | TOTAL: 122
- pass 2 (++): 0 found - 122 modified | TOTAL: 122
- pass 1 (+-): 114 found - 114 modified | TOTAL: 236
- pass 2 (+-): 0 found - 114 modified | TOTAL: 236
- pass 1 (--): 105 found - 105 modified | TOTAL: 341
- pass 2 (--): 0 found - 105 modified | TOTAL: 341
- pass 1 (-+): 103 found - 103 modified | TOTAL: 444
- pass 2 (-+): 0 found - 103 modified | TOTAL: 444
- Iteration Number : 2
- pass 1 (xy+): 9 found - 9 modified | TOTAL: 9
- pass 2 (xy+): 0 found - 9 modified | TOTAL: 9
- pass 1 (xy-): 12 found - 12 modified | TOTAL: 21
- pass 2 (xy-): 0 found - 12 modified | TOTAL: 21
- pass 1 (yz+): 16 found - 16 modified | TOTAL: 37
- pass 2 (yz+): 0 found - 16 modified | TOTAL: 37
- pass 1 (yz-): 20 found - 20 modified | TOTAL: 57
- pass 2 (yz-): 0 found - 20 modified | TOTAL: 57
- pass 1 (xz+): 10 found - 10 modified | TOTAL: 67
- pass 2 (xz+): 0 found - 10 modified | TOTAL: 67
- pass 1 (xz-): 6 found - 6 modified | TOTAL: 73
- pass 2 (xz-): 0 found - 6 modified | TOTAL: 73
- 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 (+++): 2 found - 2 modified | TOTAL: 2
- pass 2 (+++): 0 found - 2 modified | TOTAL: 2
- Iteration Number : 2
- pass 1 (++): 6 found - 6 modified | TOTAL: 6
- pass 2 (++): 0 found - 6 modified | TOTAL: 6
- pass 1 (+-): 5 found - 5 modified | TOTAL: 11
- pass 2 (+-): 0 found - 5 modified | TOTAL: 11
- pass 1 (--): 7 found - 7 modified | TOTAL: 18
- pass 2 (--): 0 found - 7 modified | TOTAL: 18
- pass 1 (-+): 5 found - 5 modified | TOTAL: 23
- pass 2 (-+): 0 found - 5 modified | TOTAL: 23
- 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-): 3 found - 3 modified | TOTAL: 3
- pass 2 (yz-): 0 found - 3 modified | TOTAL: 3
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 3
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 3
- 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 (--): 1 found - 1 modified | TOTAL: 2
- pass 2 (--): 0 found - 1 modified | TOTAL: 2
- pass 1 (-+): 0 found - 0 modified | TOTAL: 2
- 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 = 793 (out of 576958: 0.137445)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Sat Oct 7 20:38:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03353 1.02236 0.34844 -71.92711;
- -0.00027 -0.34918 0.97783 57.13052;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 1.02179 -0.03348 -0.01112 0.96157;
- 0.03353 1.02236 0.34844 -71.92711;
- -0.00027 -0.34918 0.97783 57.13052;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 1327 (min = 350, max = 1400), aspect = 0.42 (min = 0.10, max = 0.75)
- no need to search
- using seed (126, 120, 154), TAL = (2.0, 26.0, 8.0)
- talairach voxel to voxel transform
- 0.97763 0.03193 -0.00026 1.37141;
- -0.02866 0.87107 -0.31072 80.43234;
- -0.00996 0.31107 0.91171 -29.70296;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (126, 120, 154) --> (2.0, 26.0, 8.0)
- done.
- writing output to filled.mgz...
- filling took 0.7 minutes
- talairach cc position changed to (2.00, 26.00, 8.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(20.00, 26.00, 8.00) SRC: (110.75, 134.01, 146.95)
- search lh wm seed point around talairach space (-16.00, 26.00, 8.00), SRC: (145.94, 132.98, 146.59)
- 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 Sat Oct 7 20:38:43 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz
- Iteration Number : 1
- pass 1 (xy+): 2 found - 2 modified | TOTAL: 2
- pass 2 (xy+): 0 found - 2 modified | TOTAL: 2
- pass 1 (xy-): 4 found - 4 modified | TOTAL: 6
- pass 2 (xy-): 0 found - 4 modified | TOTAL: 6
- pass 1 (yz+): 1 found - 1 modified | TOTAL: 7
- pass 2 (yz+): 0 found - 1 modified | TOTAL: 7
- pass 1 (yz-): 4 found - 4 modified | TOTAL: 11
- pass 2 (yz-): 0 found - 4 modified | TOTAL: 11
- pass 1 (xz+): 1 found - 1 modified | TOTAL: 12
- pass 2 (xz+): 0 found - 1 modified | TOTAL: 12
- pass 1 (xz-): 3 found - 3 modified | TOTAL: 15
- pass 2 (xz-): 0 found - 3 modified | TOTAL: 15
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 2 found - 2 modified | TOTAL: 2
- pass 2 (+++): 0 found - 2 modified | TOTAL: 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 2
- Iteration Number : 1
- pass 1 (++): 3 found - 3 modified | TOTAL: 3
- pass 2 (++): 0 found - 3 modified | TOTAL: 3
- pass 1 (+-): 0 found - 0 modified | TOTAL: 3
- pass 1 (--): 1 found - 1 modified | TOTAL: 4
- pass 2 (--): 0 found - 1 modified | TOTAL: 4
- pass 1 (-+): 0 found - 0 modified | TOTAL: 4
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 21 (out of 280659: 0.007482)
- 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 30: 212 vertices, 255 faces
- slice 40: 4540 vertices, 4816 faces
- slice 50: 14760 vertices, 15242 faces
- slice 60: 28200 vertices, 28678 faces
- slice 70: 41509 vertices, 41981 faces
- slice 80: 54439 vertices, 54871 faces
- slice 90: 66510 vertices, 66974 faces
- slice 100: 79603 vertices, 80106 faces
- slice 110: 92307 vertices, 92856 faces
- slice 120: 104655 vertices, 105148 faces
- slice 130: 116115 vertices, 116599 faces
- slice 140: 126219 vertices, 126614 faces
- slice 150: 134747 vertices, 135146 faces
- slice 160: 141655 vertices, 142029 faces
- slice 170: 147781 vertices, 148074 faces
- slice 180: 152073 vertices, 152351 faces
- slice 190: 154208 vertices, 154352 faces
- slice 200: 154208 vertices, 154352 faces
- slice 210: 154208 vertices, 154352 faces
- slice 220: 154208 vertices, 154352 faces
- slice 230: 154208 vertices, 154352 faces
- slice 240: 154208 vertices, 154352 faces
- slice 250: 154208 vertices, 154352 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...
- 154208 voxel in cpt #1: X=-144 [v=154208,e=463056,f=308704] located at (-27.504442, -28.624397, -16.073608)
- For the whole surface: X=-144 [v=154208,e=463056,f=308704]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Tessellate rh Sat Oct 7 20:38:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz
- Iteration Number : 1
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy-): 0 found - 1 modified | TOTAL: 1
- pass 1 (yz+): 1 found - 1 modified | TOTAL: 2
- pass 2 (yz+): 0 found - 1 modified | TOTAL: 2
- pass 1 (yz-): 2 found - 2 modified | TOTAL: 4
- pass 2 (yz-): 0 found - 2 modified | TOTAL: 4
- pass 1 (xz+): 2 found - 2 modified | TOTAL: 6
- pass 2 (xz+): 0 found - 2 modified | TOTAL: 6
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 6
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 6 (out of 282182: 0.002126)
- 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: 2667 vertices, 2866 faces
- slice 50: 10261 vertices, 10615 faces
- slice 60: 22329 vertices, 22850 faces
- slice 70: 35390 vertices, 35829 faces
- slice 80: 48733 vertices, 49196 faces
- slice 90: 61241 vertices, 61691 faces
- slice 100: 74007 vertices, 74453 faces
- slice 110: 86033 vertices, 86495 faces
- slice 120: 98116 vertices, 98591 faces
- slice 130: 109130 vertices, 109622 faces
- slice 140: 119864 vertices, 120274 faces
- slice 150: 128759 vertices, 129134 faces
- slice 160: 136262 vertices, 136591 faces
- slice 170: 142326 vertices, 142588 faces
- slice 180: 146609 vertices, 146824 faces
- slice 190: 149018 vertices, 149118 faces
- slice 200: 149018 vertices, 149118 faces
- slice 210: 149018 vertices, 149118 faces
- slice 220: 149018 vertices, 149118 faces
- slice 230: 149018 vertices, 149118 faces
- slice 240: 149018 vertices, 149118 faces
- slice 250: 149018 vertices, 149118 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...
- 149018 voxel in cpt #1: X=-100 [v=149018,e=447354,f=298236] located at (26.743710, -25.983231, -16.277033)
- For the whole surface: X=-100 [v=149018,e=447354,f=298236]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Sat Oct 7 20:38:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Sat Oct 7 20:38:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 10144 of (10144 10147) to complete...
- Waiting for PID 10147 of (10144 10147) 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 (10144 10147) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Sat Oct 7 20:39:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Sat Oct 7 20:39:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 10193 of (10193 10196) to complete...
- Waiting for PID 10196 of (10193 10196) 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 = 48.8 mm, total surface area = 79873 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 0.8 minutes
-
step 000: RMS=0.163 (target=0.015)
step 005: RMS=0.125 (target=0.015)
step 010: RMS=0.097 (target=0.015)
step 015: RMS=0.083 (target=0.015)
step 020: RMS=0.073 (target=0.015)
step 025: RMS=0.065 (target=0.015)
step 030: RMS=0.061 (target=0.015)
step 035: RMS=0.057 (target=0.015)
step 040: RMS=0.055 (target=0.015)
step 045: RMS=0.053 (target=0.015)
step 050: RMS=0.053 (target=0.015)
step 055: RMS=0.053 (target=0.015)
step 060: RMS=0.053 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 47.701748
- mris_inflate stimesec 0.108983
- mris_inflate ru_maxrss 225816
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 32374
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 10872
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2337
- mris_inflate ru_nivcsw 3356
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 47.7 mm, total surface area = 77779 mm^2
- writing inflated surface to ../surf/rh.inflated.nofix
- inflation took 0.8 minutes
-
step 000: RMS=0.159 (target=0.015)
step 005: RMS=0.121 (target=0.015)
step 010: RMS=0.091 (target=0.015)
step 015: RMS=0.077 (target=0.015)
step 020: RMS=0.067 (target=0.015)
step 025: RMS=0.058 (target=0.015)
step 030: RMS=0.052 (target=0.015)
step 035: RMS=0.047 (target=0.015)
step 040: RMS=0.044 (target=0.015)
step 045: RMS=0.042 (target=0.015)
step 050: RMS=0.041 (target=0.015)
step 055: RMS=0.040 (target=0.015)
step 060: RMS=0.039 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 45.993008
- mris_inflate stimesec 0.095985
- mris_inflate ru_maxrss 217940
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 31426
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 10504
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2072
- mris_inflate ru_nivcsw 3381
- PIDs (10193 10196) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Sat Oct 7 20:39:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Sat Oct 7 20:39:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 10255 of (10255 10259) to complete...
- Waiting for PID 10259 of (10255 10259) 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 0.92 +- 0.58 (0.00-->8.61) (max @ vno 65483 --> 65493)
- face area 0.03 +- 0.03 (-0.21-->0.62)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.314...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=175.175, avgs=0
- 005/300: dt: 0.9000, rms radial error=174.916, avgs=0
- 010/300: dt: 0.9000, rms radial error=174.361, avgs=0
- 015/300: dt: 0.9000, rms radial error=173.631, avgs=0
- 020/300: dt: 0.9000, rms radial error=172.799, avgs=0
- 025/300: dt: 0.9000, rms radial error=171.909, avgs=0
- 030/300: dt: 0.9000, rms radial error=170.987, avgs=0
- 035/300: dt: 0.9000, rms radial error=170.051, avgs=0
- 040/300: dt: 0.9000, rms radial error=169.107, avgs=0
- 045/300: dt: 0.9000, rms radial error=168.161, avgs=0
- 050/300: dt: 0.9000, rms radial error=167.215, avgs=0
- 055/300: dt: 0.9000, rms radial error=166.272, avgs=0
- 060/300: dt: 0.9000, rms radial error=165.331, avgs=0
- 065/300: dt: 0.9000, rms radial error=164.395, avgs=0
- 070/300: dt: 0.9000, rms radial error=163.464, avgs=0
- 075/300: dt: 0.9000, rms radial error=162.539, avgs=0
- 080/300: dt: 0.9000, rms radial error=161.619, avgs=0
- 085/300: dt: 0.9000, rms radial error=160.704, avgs=0
- 090/300: dt: 0.9000, rms radial error=159.794, avgs=0
- 095/300: dt: 0.9000, rms radial error=158.890, avgs=0
- 100/300: dt: 0.9000, rms radial error=157.990, avgs=0
- 105/300: dt: 0.9000, rms radial error=157.095, avgs=0
- 110/300: dt: 0.9000, rms radial error=156.204, avgs=0
- 115/300: dt: 0.9000, rms radial error=155.319, avgs=0
- 120/300: dt: 0.9000, rms radial error=154.438, avgs=0
- 125/300: dt: 0.9000, rms radial error=153.566, avgs=0
- 130/300: dt: 0.9000, rms radial error=152.702, avgs=0
- 135/300: dt: 0.9000, rms radial error=151.843, avgs=0
- 140/300: dt: 0.9000, rms radial error=150.990, avgs=0
- 145/300: dt: 0.9000, rms radial error=150.141, avgs=0
- 150/300: dt: 0.9000, rms radial error=149.299, avgs=0
- 155/300: dt: 0.9000, rms radial error=148.460, avgs=0
- 160/300: dt: 0.9000, rms radial error=147.626, avgs=0
- 165/300: dt: 0.9000, rms radial error=146.796, avgs=0
- 170/300: dt: 0.9000, rms radial error=145.971, avgs=0
- 175/300: dt: 0.9000, rms radial error=145.151, avgs=0
- 180/300: dt: 0.9000, rms radial error=144.335, avgs=0
- 185/300: dt: 0.9000, rms radial error=143.524, avgs=0
- 190/300: dt: 0.9000, rms radial error=142.717, avgs=0
- 195/300: dt: 0.9000, rms radial error=141.915, avgs=0
- 200/300: dt: 0.9000, rms radial error=141.117, avgs=0
- 205/300: dt: 0.9000, rms radial error=140.324, avgs=0
- 210/300: dt: 0.9000, rms radial error=139.535, avgs=0
- 215/300: dt: 0.9000, rms radial error=138.750, avgs=0
- 220/300: dt: 0.9000, rms radial error=137.970, avgs=0
- 225/300: dt: 0.9000, rms radial error=137.194, avgs=0
- 230/300: dt: 0.9000, rms radial error=136.422, avgs=0
- 235/300: dt: 0.9000, rms radial error=135.655, avgs=0
- 240/300: dt: 0.9000, rms radial error=134.892, avgs=0
- 245/300: dt: 0.9000, rms radial error=134.132, avgs=0
- 250/300: dt: 0.9000, rms radial error=133.378, avgs=0
- 255/300: dt: 0.9000, rms radial error=132.627, avgs=0
- 260/300: dt: 0.9000, rms radial error=131.880, avgs=0
- 265/300: dt: 0.9000, rms radial error=131.138, avgs=0
- 270/300: dt: 0.9000, rms radial error=130.400, avgs=0
- 275/300: dt: 0.9000, rms radial error=129.665, avgs=0
- 280/300: dt: 0.9000, rms radial error=128.935, avgs=0
- 285/300: dt: 0.9000, rms radial error=128.209, avgs=0
- 290/300: dt: 0.9000, rms radial error=127.487, avgs=0
- 295/300: dt: 0.9000, rms radial error=126.769, avgs=0
- 300/300: dt: 0.9000, rms radial error=126.056, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 18124.91
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00007
- epoch 2 (K=40.0), pass 1, starting sse = 3149.30
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00005
- epoch 3 (K=160.0), pass 1, starting sse = 368.90
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.02/10 = 0.00191
- epoch 4 (K=640.0), pass 1, starting sse = 37.29
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.04/10 = 0.00354
- final distance error %29.43
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.07 hours
- mris_sphere utimesec 269.001105
- mris_sphere stimesec 0.184971
- mris_sphere ru_maxrss 226016
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 32932
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10896
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 8360
- mris_sphere ru_nivcsw 19073
- FSRUNTIME@ mris_sphere 0.0748 hours 1 threads
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- doing quick spherical unfolding.
- setting seed for random number genererator to 1234
- $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- reading original vertex positions...
- unfolding cortex into spherical form...
- surface projected - minimizing metric distortion...
- vertex spacing 0.95 +- 0.56 (0.00-->6.71) (max @ vno 116374 --> 116383)
- face area 0.03 +- 0.03 (-0.28-->0.95)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.322...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=175.161, avgs=0
- 005/300: dt: 0.9000, rms radial error=174.903, avgs=0
- 010/300: dt: 0.9000, rms radial error=174.351, avgs=0
- 015/300: dt: 0.9000, rms radial error=173.628, avgs=0
- 020/300: dt: 0.9000, rms radial error=172.805, avgs=0
- 025/300: dt: 0.9000, rms radial error=171.924, avgs=0
- 030/300: dt: 0.9000, rms radial error=171.011, avgs=0
- 035/300: dt: 0.9000, rms radial error=170.082, avgs=0
- 040/300: dt: 0.9000, rms radial error=169.143, avgs=0
- 045/300: dt: 0.9000, rms radial error=168.202, avgs=0
- 050/300: dt: 0.9000, rms radial error=167.260, avgs=0
- 055/300: dt: 0.9000, rms radial error=166.321, avgs=0
- 060/300: dt: 0.9000, rms radial error=165.383, avgs=0
- 065/300: dt: 0.9000, rms radial error=164.450, avgs=0
- 070/300: dt: 0.9000, rms radial error=163.521, avgs=0
- 075/300: dt: 0.9000, rms radial error=162.596, avgs=0
- 080/300: dt: 0.9000, rms radial error=161.678, avgs=0
- 085/300: dt: 0.9000, rms radial error=160.767, avgs=0
- 090/300: dt: 0.9000, rms radial error=159.861, avgs=0
- 095/300: dt: 0.9000, rms radial error=158.961, avgs=0
- 100/300: dt: 0.9000, rms radial error=158.067, avgs=0
- 105/300: dt: 0.9000, rms radial error=157.178, avgs=0
- 110/300: dt: 0.9000, rms radial error=156.294, avgs=0
- 115/300: dt: 0.9000, rms radial error=155.414, avgs=0
- 120/300: dt: 0.9000, rms radial error=154.539, avgs=0
- 125/300: dt: 0.9000, rms radial error=153.670, avgs=0
- 130/300: dt: 0.9000, rms radial error=152.806, avgs=0
- 135/300: dt: 0.9000, rms radial error=151.947, avgs=0
- 140/300: dt: 0.9000, rms radial error=151.093, avgs=0
- 145/300: dt: 0.9000, rms radial error=150.244, avgs=0
- 150/300: dt: 0.9000, rms radial error=149.399, avgs=0
- 155/300: dt: 0.9000, rms radial error=148.559, avgs=0
- 160/300: dt: 0.9000, rms radial error=147.724, avgs=0
- 165/300: dt: 0.9000, rms radial error=146.893, avgs=0
- 170/300: dt: 0.9000, rms radial error=146.068, avgs=0
- 175/300: dt: 0.9000, rms radial error=145.247, avgs=0
- 180/300: dt: 0.9000, rms radial error=144.431, avgs=0
- 185/300: dt: 0.9000, rms radial error=143.619, avgs=0
- 190/300: dt: 0.9000, rms radial error=142.812, avgs=0
- 195/300: dt: 0.9000, rms radial error=142.010, avgs=0
- 200/300: dt: 0.9000, rms radial error=141.211, avgs=0
- 205/300: dt: 0.9000, rms radial error=140.417, avgs=0
- 210/300: dt: 0.9000, rms radial error=139.627, avgs=0
- 215/300: dt: 0.9000, rms radial error=138.842, avgs=0
- 220/300: dt: 0.9000, rms radial error=138.060, avgs=0
- 225/300: dt: 0.9000, rms radial error=137.284, avgs=0
- 230/300: dt: 0.9000, rms radial error=136.511, avgs=0
- 235/300: dt: 0.9000, rms radial error=135.743, avgs=0
- 240/300: dt: 0.9000, rms radial error=134.979, avgs=0
- 245/300: dt: 0.9000, rms radial error=134.220, avgs=0
- 250/300: dt: 0.9000, rms radial error=133.465, avgs=0
- 255/300: dt: 0.9000, rms radial error=132.714, avgs=0
- 260/300: dt: 0.9000, rms radial error=131.968, avgs=0
- 265/300: dt: 0.9000, rms radial error=131.226, avgs=0
- 270/300: dt: 0.9000, rms radial error=130.487, avgs=0
- 275/300: dt: 0.9000, rms radial error=129.753, avgs=0
- 280/300: dt: 0.9000, rms radial error=129.023, avgs=0
- 285/300: dt: 0.9000, rms radial error=128.297, avgs=0
- 290/300: dt: 0.9000, rms radial error=127.575, avgs=0
- 295/300: dt: 0.9000, rms radial error=126.857, avgs=0
- 300/300: dt: 0.9000, rms radial error=126.143, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 17300.57
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00011
- epoch 2 (K=40.0), pass 1, starting sse = 2871.85
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00031
- epoch 3 (K=160.0), pass 1, starting sse = 293.48
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.09/11 = 0.00777
- epoch 4 (K=640.0), pass 1, starting sse = 20.66
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.18/16 = 0.01147
- final distance error %26.06
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.08 hours
- mris_sphere utimesec 287.851239
- mris_sphere stimesec 0.145977
- mris_sphere ru_maxrss 218132
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 31982
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 10488
- mris_sphere ru_oublock 10528
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 9176
- mris_sphere ru_nivcsw 19511
- FSRUNTIME@ mris_sphere 0.0780 hours 1 threads
- PIDs (10255 10259) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Sat Oct 7 20:44:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Sat Oct 7 20:44:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Sat Oct 7 20:44:30 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051324 lh
- #@# Fix Topology rh Sat Oct 7 20:44:30 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051324 rh
- Waiting for PID 10482 of (10482 10485) to complete...
- Waiting for PID 10485 of (10482 10485) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051324 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=-144 (nv=154208, nf=308704, ne=463056, g=73)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 11 iterations
- marking ambiguous vertices...
- 14157 ambiguous faces found in tessellation
- segmenting defects...
- 57 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 34 into 33
- -merging segment 56 into 55
- 55 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.4492 (-4.7246)
- -vertex loglikelihood: -6.3537 (-3.1769)
- -normal dot loglikelihood: -3.6408 (-3.6408)
- -quad curv loglikelihood: -6.2155 (-3.1078)
- Total Loglikelihood : -25.6593
- CORRECTING DEFECT 0 (vertices=86, convex hull=106, v0=526)
- After retessellation of defect 0 (v0=526), euler #=-52 (146201,436427,290174) : difference with theory (-52) = 0
- CORRECTING DEFECT 1 (vertices=35, convex hull=78, v0=1159)
- After retessellation of defect 1 (v0=1159), euler #=-51 (146215,436501,290235) : difference with theory (-51) = 0
- CORRECTING DEFECT 2 (vertices=217, convex hull=189, v0=1162)
- After retessellation of defect 2 (v0=1162), euler #=-51 (146296,436863,290516) : difference with theory (-50) = 1
- CORRECTING DEFECT 3 (vertices=63, convex hull=130, v0=6039)
- After retessellation of defect 3 (v0=6039), euler #=-50 (146312,436967,290605) : difference with theory (-49) = 1
- CORRECTING DEFECT 4 (vertices=41, convex hull=73, v0=8647)
- After retessellation of defect 4 (v0=8647), euler #=-49 (146337,437071,290685) : difference with theory (-48) = 1
- CORRECTING DEFECT 5 (vertices=77, convex hull=109, v0=8745)
- After retessellation of defect 5 (v0=8745), euler #=-48 (146381,437252,290823) : difference with theory (-47) = 1
- CORRECTING DEFECT 6 (vertices=21, convex hull=68, v0=12100)
- After retessellation of defect 6 (v0=12100), euler #=-47 (146389,437300,290864) : difference with theory (-46) = 1
- CORRECTING DEFECT 7 (vertices=41, convex hull=70, v0=19716)
- After retessellation of defect 7 (v0=19716), euler #=-46 (146410,437390,290934) : difference with theory (-45) = 1
- CORRECTING DEFECT 8 (vertices=27, convex hull=52, v0=24803)
- After retessellation of defect 8 (v0=24803), euler #=-45 (146419,437436,290972) : difference with theory (-44) = 1
- CORRECTING DEFECT 9 (vertices=39, convex hull=59, v0=26458)
- After retessellation of defect 9 (v0=26458), euler #=-44 (146428,437487,291015) : difference with theory (-43) = 1
- CORRECTING DEFECT 10 (vertices=8, convex hull=27, v0=28192)
- After retessellation of defect 10 (v0=28192), euler #=-43 (146430,437506,291033) : difference with theory (-42) = 1
- CORRECTING DEFECT 11 (vertices=62, convex hull=89, v0=32774)
- After retessellation of defect 11 (v0=32774), euler #=-42 (146469,437664,291153) : difference with theory (-41) = 1
- CORRECTING DEFECT 12 (vertices=30, convex hull=46, v0=33220)
- After retessellation of defect 12 (v0=33220), euler #=-41 (146477,437704,291186) : difference with theory (-40) = 1
- CORRECTING DEFECT 13 (vertices=18, convex hull=26, v0=45114)
- After retessellation of defect 13 (v0=45114), euler #=-40 (146479,437717,291198) : difference with theory (-39) = 1
- CORRECTING DEFECT 14 (vertices=72, convex hull=80, v0=48915)
- After retessellation of defect 14 (v0=48915), euler #=-39 (146506,437831,291286) : difference with theory (-38) = 1
- CORRECTING DEFECT 15 (vertices=53, convex hull=84, v0=50064)
- After retessellation of defect 15 (v0=50064), euler #=-38 (146517,437901,291346) : difference with theory (-37) = 1
- CORRECTING DEFECT 16 (vertices=32, convex hull=32, v0=50507)
- After retessellation of defect 16 (v0=50507), euler #=-37 (146519,437918,291362) : difference with theory (-36) = 1
- CORRECTING DEFECT 17 (vertices=39, convex hull=76, v0=51224)
- After retessellation of defect 17 (v0=51224), euler #=-36 (146534,437997,291427) : difference with theory (-35) = 1
- CORRECTING DEFECT 18 (vertices=10, convex hull=18, v0=53151)
- After retessellation of defect 18 (v0=53151), euler #=-35 (146535,438004,291434) : difference with theory (-34) = 1
- CORRECTING DEFECT 19 (vertices=66, convex hull=105, v0=58434)
- After retessellation of defect 19 (v0=58434), euler #=-34 (146576,438173,291563) : difference with theory (-33) = 1
- CORRECTING DEFECT 20 (vertices=4396, convex hull=831, v0=60196)
- XL defect detected...
- After retessellation of defect 20 (v0=60196), euler #=-34 (146922,439657,292701) : difference with theory (-32) = 2
- CORRECTING DEFECT 21 (vertices=109, convex hull=110, v0=61371)
- After retessellation of defect 21 (v0=61371), euler #=-33 (146950,439794,292811) : difference with theory (-31) = 2
- CORRECTING DEFECT 22 (vertices=34, convex hull=62, v0=63972)
- After retessellation of defect 22 (v0=63972), euler #=-32 (146967,439869,292870) : difference with theory (-30) = 2
- CORRECTING DEFECT 23 (vertices=80, convex hull=105, v0=66310)
- After retessellation of defect 23 (v0=66310), euler #=-31 (147002,440017,292984) : difference with theory (-29) = 2
- CORRECTING DEFECT 24 (vertices=53, convex hull=44, v0=67335)
- After retessellation of defect 24 (v0=67335), euler #=-30 (147012,440063,293021) : difference with theory (-28) = 2
- CORRECTING DEFECT 25 (vertices=21, convex hull=49, v0=68526)
- After retessellation of defect 25 (v0=68526), euler #=-29 (147023,440115,293063) : difference with theory (-27) = 2
- CORRECTING DEFECT 26 (vertices=24, convex hull=70, v0=77488)
- After retessellation of defect 26 (v0=77488), euler #=-28 (147036,440182,293118) : difference with theory (-26) = 2
- CORRECTING DEFECT 27 (vertices=34, convex hull=42, v0=78109)
- After retessellation of defect 27 (v0=78109), euler #=-27 (147040,440213,293146) : difference with theory (-25) = 2
- CORRECTING DEFECT 28 (vertices=120, convex hull=46, v0=89365)
- After retessellation of defect 28 (v0=89365), euler #=-26 (147054,440272,293192) : difference with theory (-24) = 2
- CORRECTING DEFECT 29 (vertices=38, convex hull=54, v0=97170)
- After retessellation of defect 29 (v0=97170), euler #=-25 (147072,440348,293251) : difference with theory (-23) = 2
- CORRECTING DEFECT 30 (vertices=49, convex hull=73, v0=101234)
- After retessellation of defect 30 (v0=101234), euler #=-24 (147095,440448,293329) : difference with theory (-22) = 2
- CORRECTING DEFECT 31 (vertices=14, convex hull=22, v0=107836)
- After retessellation of defect 31 (v0=107836), euler #=-23 (147098,440463,293342) : difference with theory (-21) = 2
- CORRECTING DEFECT 32 (vertices=53, convex hull=118, v0=108037)
- After retessellation of defect 32 (v0=108037), euler #=-22 (147127,440596,293447) : difference with theory (-20) = 2
- CORRECTING DEFECT 33 (vertices=413, convex hull=172, v0=110323)
- After retessellation of defect 33 (v0=110323), euler #=-20 (147136,440706,293550) : difference with theory (-19) = 1
- CORRECTING DEFECT 34 (vertices=26, convex hull=41, v0=112333)
- After retessellation of defect 34 (v0=112333), euler #=-19 (147149,440760,293592) : difference with theory (-18) = 1
- CORRECTING DEFECT 35 (vertices=41, convex hull=59, v0=114858)
- After retessellation of defect 35 (v0=114858), euler #=-18 (147166,440832,293648) : difference with theory (-17) = 1
- CORRECTING DEFECT 36 (vertices=33, convex hull=69, v0=116297)
- After retessellation of defect 36 (v0=116297), euler #=-17 (147190,440930,293723) : difference with theory (-16) = 1
- CORRECTING DEFECT 37 (vertices=11, convex hull=23, v0=119370)
- After retessellation of defect 37 (v0=119370), euler #=-16 (147191,440940,293733) : difference with theory (-15) = 1
- CORRECTING DEFECT 38 (vertices=119, convex hull=57, v0=120218)
- After retessellation of defect 38 (v0=120218), euler #=-15 (147197,440982,293770) : difference with theory (-14) = 1
- CORRECTING DEFECT 39 (vertices=40, convex hull=64, v0=122632)
- After retessellation of defect 39 (v0=122632), euler #=-14 (147208,441040,293818) : difference with theory (-13) = 1
- CORRECTING DEFECT 40 (vertices=67, convex hull=99, v0=125202)
- After retessellation of defect 40 (v0=125202), euler #=-13 (147232,441160,293915) : difference with theory (-12) = 1
- CORRECTING DEFECT 41 (vertices=237, convex hull=150, v0=128614)
- After retessellation of defect 41 (v0=128614), euler #=-12 (147304,441449,294133) : difference with theory (-11) = 1
- CORRECTING DEFECT 42 (vertices=47, convex hull=74, v0=129541)
- After retessellation of defect 42 (v0=129541), euler #=-11 (147320,441533,294202) : difference with theory (-10) = 1
- CORRECTING DEFECT 43 (vertices=144, convex hull=99, v0=130249)
- After retessellation of defect 43 (v0=130249), euler #=-10 (147357,441688,294321) : difference with theory (-9) = 1
- CORRECTING DEFECT 44 (vertices=77, convex hull=84, v0=130347)
- After retessellation of defect 44 (v0=130347), euler #=-9 (147370,441763,294384) : difference with theory (-8) = 1
- CORRECTING DEFECT 45 (vertices=23, convex hull=20, v0=131042)
- After retessellation of defect 45 (v0=131042), euler #=-8 (147370,441770,294392) : difference with theory (-7) = 1
- CORRECTING DEFECT 46 (vertices=232, convex hull=81, v0=133698)
- After retessellation of defect 46 (v0=133698), euler #=-7 (147426,441971,294538) : difference with theory (-6) = 1
- CORRECTING DEFECT 47 (vertices=35, convex hull=78, v0=135243)
- After retessellation of defect 47 (v0=135243), euler #=-6 (147447,442068,294615) : difference with theory (-5) = 1
- CORRECTING DEFECT 48 (vertices=50, convex hull=105, v0=138174)
- After retessellation of defect 48 (v0=138174), euler #=-5 (147481,442210,294724) : difference with theory (-4) = 1
- CORRECTING DEFECT 49 (vertices=34, convex hull=75, v0=139048)
- After retessellation of defect 49 (v0=139048), euler #=-4 (147492,442272,294776) : difference with theory (-3) = 1
- CORRECTING DEFECT 50 (vertices=63, convex hull=82, v0=147728)
- After retessellation of defect 50 (v0=147728), euler #=-3 (147513,442373,294857) : difference with theory (-2) = 1
- CORRECTING DEFECT 51 (vertices=74, convex hull=89, v0=150523)
- After retessellation of defect 51 (v0=150523), euler #=-2 (147545,442504,294957) : difference with theory (-1) = 1
- CORRECTING DEFECT 52 (vertices=36, convex hull=74, v0=152512)
- After retessellation of defect 52 (v0=152512), euler #=-1 (147557,442566,295008) : difference with theory (0) = 1
- CORRECTING DEFECT 53 (vertices=117, convex hull=115, v0=153208)
- After retessellation of defect 53 (v0=153208), euler #=0 (147602,442750,295148) : difference with theory (1) = 1
- CORRECTING DEFECT 54 (vertices=60, convex hull=122, v0=153298)
- After retessellation of defect 54 (v0=153298), euler #=2 (147611,442827,295218) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.26 (0.06-->25.24) (max @ vno 85076 --> 89893)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.26 (0.06-->25.24) (max @ vno 85076 --> 89893)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 157 mutations (31.5%), 341 crossovers (68.5%), 950 vertices were eliminated
- building final representation...
- 6597 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=147611, nf=295218, ne=442827, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 60.0 minutes
- 0 defective edges
- removing intersecting faces
- 000: 606 intersecting
- 001: 23 intersecting
- 002: 5 intersecting
- mris_fix_topology utimesec 3598.889885
- mris_fix_topology stimesec 0.236963
- mris_fix_topology ru_maxrss 537184
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 64148
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 10856
- mris_fix_topology ru_oublock 14328
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 551
- mris_fix_topology ru_nivcsw 4687
- FSRUNTIME@ mris_fix_topology lh 0.9994 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051324 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=-100 (nv=149018, nf=298236, ne=447354, g=51)
- 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 9 iterations
- marking ambiguous vertices...
- 4769 ambiguous faces found in tessellation
- segmenting defects...
- 56 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- 56 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.2603 (-4.6302)
- -vertex loglikelihood: -6.2528 (-3.1264)
- -normal dot loglikelihood: -3.6160 (-3.6160)
- -quad curv loglikelihood: -6.6193 (-3.3097)
- Total Loglikelihood : -25.7485
- CORRECTING DEFECT 0 (vertices=41, convex hull=82, v0=2115)
- After retessellation of defect 0 (v0=2115), euler #=-52 (145929,436074,290093) : difference with theory (-53) = -1
- CORRECTING DEFECT 1 (vertices=52, convex hull=102, v0=3156)
- After retessellation of defect 1 (v0=3156), euler #=-51 (145967,436234,290216) : difference with theory (-52) = -1
- CORRECTING DEFECT 2 (vertices=23, convex hull=61, v0=6495)
- After retessellation of defect 2 (v0=6495), euler #=-50 (145980,436294,290264) : difference with theory (-51) = -1
- CORRECTING DEFECT 3 (vertices=137, convex hull=155, v0=7217)
- After retessellation of defect 3 (v0=7217), euler #=-49 (146037,436534,290448) : difference with theory (-50) = -1
- CORRECTING DEFECT 4 (vertices=39, convex hull=42, v0=11949)
- After retessellation of defect 4 (v0=11949), euler #=-48 (146043,436569,290478) : difference with theory (-49) = -1
- CORRECTING DEFECT 5 (vertices=225, convex hull=83, v0=12952)
- After retessellation of defect 5 (v0=12952), euler #=-47 (146059,436648,290542) : difference with theory (-48) = -1
- CORRECTING DEFECT 6 (vertices=52, convex hull=85, v0=15064)
- After retessellation of defect 6 (v0=15064), euler #=-46 (146083,436759,290630) : difference with theory (-47) = -1
- CORRECTING DEFECT 7 (vertices=57, convex hull=84, v0=20307)
- After retessellation of defect 7 (v0=20307), euler #=-45 (146104,436860,290711) : difference with theory (-46) = -1
- CORRECTING DEFECT 8 (vertices=23, convex hull=56, v0=33362)
- After retessellation of defect 8 (v0=33362), euler #=-44 (146114,436911,290753) : difference with theory (-45) = -1
- CORRECTING DEFECT 9 (vertices=168, convex hull=202, v0=40764)
- After retessellation of defect 9 (v0=40764), euler #=-43 (146173,437180,290964) : difference with theory (-44) = -1
- CORRECTING DEFECT 10 (vertices=31, convex hull=59, v0=41257)
- After retessellation of defect 10 (v0=41257), euler #=-42 (146183,437232,291007) : difference with theory (-43) = -1
- CORRECTING DEFECT 11 (vertices=9, convex hull=31, v0=43095)
- After retessellation of defect 11 (v0=43095), euler #=-41 (146184,437246,291021) : difference with theory (-42) = -1
- CORRECTING DEFECT 12 (vertices=34, convex hull=52, v0=47374)
- After retessellation of defect 12 (v0=47374), euler #=-40 (146202,437322,291080) : difference with theory (-41) = -1
- CORRECTING DEFECT 13 (vertices=87, convex hull=106, v0=51353)
- After retessellation of defect 13 (v0=51353), euler #=-39 (146239,437481,291203) : difference with theory (-40) = -1
- CORRECTING DEFECT 14 (vertices=33, convex hull=59, v0=52856)
- After retessellation of defect 14 (v0=52856), euler #=-38 (146249,437537,291250) : difference with theory (-39) = -1
- CORRECTING DEFECT 15 (vertices=41, convex hull=65, v0=54408)
- After retessellation of defect 15 (v0=54408), euler #=-37 (146265,437612,291310) : difference with theory (-38) = -1
- CORRECTING DEFECT 16 (vertices=34, convex hull=49, v0=55727)
- After retessellation of defect 16 (v0=55727), euler #=-36 (146279,437672,291357) : difference with theory (-37) = -1
- CORRECTING DEFECT 17 (vertices=10, convex hull=14, v0=57799)
- After retessellation of defect 17 (v0=57799), euler #=-35 (146280,437677,291362) : difference with theory (-36) = -1
- CORRECTING DEFECT 18 (vertices=55, convex hull=94, v0=63686)
- After retessellation of defect 18 (v0=63686), euler #=-34 (146313,437814,291467) : difference with theory (-35) = -1
- CORRECTING DEFECT 19 (vertices=38, convex hull=91, v0=67140)
- After retessellation of defect 19 (v0=67140), euler #=-33 (146326,437890,291531) : difference with theory (-34) = -1
- CORRECTING DEFECT 20 (vertices=45, convex hull=64, v0=73645)
- After retessellation of defect 20 (v0=73645), euler #=-32 (146346,437978,291600) : difference with theory (-33) = -1
- CORRECTING DEFECT 21 (vertices=151, convex hull=120, v0=77109)
- After retessellation of defect 21 (v0=77109), euler #=-31 (146358,438070,291681) : difference with theory (-32) = -1
- CORRECTING DEFECT 22 (vertices=36, convex hull=51, v0=78422)
- After retessellation of defect 22 (v0=78422), euler #=-30 (146374,438138,291734) : difference with theory (-31) = -1
- CORRECTING DEFECT 23 (vertices=171, convex hull=184, v0=79513)
- After retessellation of defect 23 (v0=79513), euler #=-29 (146467,438504,292008) : difference with theory (-30) = -1
- CORRECTING DEFECT 24 (vertices=55, convex hull=98, v0=84815)
- After retessellation of defect 24 (v0=84815), euler #=-28 (146498,438636,292110) : difference with theory (-29) = -1
- CORRECTING DEFECT 25 (vertices=7, convex hull=14, v0=96525)
- After retessellation of defect 25 (v0=96525), euler #=-27 (146500,438644,292117) : difference with theory (-28) = -1
- CORRECTING DEFECT 26 (vertices=65, convex hull=86, v0=97826)
- After retessellation of defect 26 (v0=97826), euler #=-26 (146525,438757,292206) : difference with theory (-27) = -1
- CORRECTING DEFECT 27 (vertices=29, convex hull=70, v0=98070)
- After retessellation of defect 27 (v0=98070), euler #=-25 (146544,438843,292274) : difference with theory (-26) = -1
- CORRECTING DEFECT 28 (vertices=49, convex hull=114, v0=104711)
- After retessellation of defect 28 (v0=104711), euler #=-24 (146580,439002,292398) : difference with theory (-25) = -1
- CORRECTING DEFECT 29 (vertices=154, convex hull=114, v0=106488)
- After retessellation of defect 29 (v0=106488), euler #=-23 (146645,439253,292585) : difference with theory (-24) = -1
- CORRECTING DEFECT 30 (vertices=26, convex hull=58, v0=110623)
- After retessellation of defect 30 (v0=110623), euler #=-22 (146661,439324,292641) : difference with theory (-23) = -1
- CORRECTING DEFECT 31 (vertices=104, convex hull=137, v0=113229)
- After retessellation of defect 31 (v0=113229), euler #=-21 (146708,439526,292797) : difference with theory (-22) = -1
- CORRECTING DEFECT 32 (vertices=8, convex hull=28, v0=115404)
- After retessellation of defect 32 (v0=115404), euler #=-20 (146708,439533,292805) : difference with theory (-21) = -1
- CORRECTING DEFECT 33 (vertices=21, convex hull=15, v0=115450)
- After retessellation of defect 33 (v0=115450), euler #=-19 (146711,439544,292814) : difference with theory (-20) = -1
- CORRECTING DEFECT 34 (vertices=67, convex hull=61, v0=115653)
- After retessellation of defect 34 (v0=115653), euler #=-18 (146729,439625,292878) : difference with theory (-19) = -1
- CORRECTING DEFECT 35 (vertices=13, convex hull=33, v0=117547)
- After retessellation of defect 35 (v0=117547), euler #=-17 (146733,439650,292900) : difference with theory (-18) = -1
- CORRECTING DEFECT 36 (vertices=20, convex hull=28, v0=118860)
- After retessellation of defect 36 (v0=118860), euler #=-16 (146734,439664,292914) : difference with theory (-17) = -1
- CORRECTING DEFECT 37 (vertices=31, convex hull=55, v0=118926)
- After retessellation of defect 37 (v0=118926), euler #=-15 (146750,439738,292973) : difference with theory (-16) = -1
- CORRECTING DEFECT 38 (vertices=10, convex hull=30, v0=119566)
- After retessellation of defect 38 (v0=119566), euler #=-14 (146751,439751,292986) : difference with theory (-15) = -1
- CORRECTING DEFECT 39 (vertices=53, convex hull=93, v0=119627)
- After retessellation of defect 39 (v0=119627), euler #=-13 (146779,439871,293079) : difference with theory (-14) = -1
- CORRECTING DEFECT 40 (vertices=25, convex hull=66, v0=121748)
- After retessellation of defect 40 (v0=121748), euler #=-12 (146793,439937,293132) : difference with theory (-13) = -1
- CORRECTING DEFECT 41 (vertices=27, convex hull=30, v0=122838)
- After retessellation of defect 41 (v0=122838), euler #=-11 (146797,439961,293153) : difference with theory (-12) = -1
- CORRECTING DEFECT 42 (vertices=28, convex hull=26, v0=125289)
- After retessellation of defect 42 (v0=125289), euler #=-10 (146802,439983,293171) : difference with theory (-11) = -1
- CORRECTING DEFECT 43 (vertices=96, convex hull=84, v0=127763)
- After retessellation of defect 43 (v0=127763), euler #=-9 (146821,440073,293243) : difference with theory (-10) = -1
- CORRECTING DEFECT 44 (vertices=82, convex hull=92, v0=127926)
- After retessellation of defect 44 (v0=127926), euler #=-8 (146847,440195,293340) : difference with theory (-9) = -1
- CORRECTING DEFECT 45 (vertices=98, convex hull=94, v0=128689)
- After retessellation of defect 45 (v0=128689), euler #=-8 (146873,440327,293446) : difference with theory (-8) = 0
- CORRECTING DEFECT 46 (vertices=20, convex hull=19, v0=131093)
- After retessellation of defect 46 (v0=131093), euler #=-7 (146874,440335,293454) : difference with theory (-7) = 0
- CORRECTING DEFECT 47 (vertices=102, convex hull=101, v0=131783)
- After retessellation of defect 47 (v0=131783), euler #=-6 (146897,440455,293552) : difference with theory (-6) = 0
- CORRECTING DEFECT 48 (vertices=33, convex hull=42, v0=131902)
- After retessellation of defect 48 (v0=131902), euler #=-5 (146904,440497,293588) : difference with theory (-5) = 0
- CORRECTING DEFECT 49 (vertices=11, convex hull=24, v0=132764)
- After retessellation of defect 49 (v0=132764), euler #=-4 (146906,440512,293602) : difference with theory (-4) = 0
- CORRECTING DEFECT 50 (vertices=108, convex hull=111, v0=135532)
- After retessellation of defect 50 (v0=135532), euler #=-3 (146947,440693,293743) : difference with theory (-3) = 0
- CORRECTING DEFECT 51 (vertices=27, convex hull=51, v0=139358)
- After retessellation of defect 51 (v0=139358), euler #=-2 (146962,440758,293794) : difference with theory (-2) = 0
- CORRECTING DEFECT 52 (vertices=39, convex hull=76, v0=142535)
- After retessellation of defect 52 (v0=142535), euler #=-1 (146987,440865,293877) : difference with theory (-1) = 0
- CORRECTING DEFECT 53 (vertices=19, convex hull=76, v0=145132)
- After retessellation of defect 53 (v0=145132), euler #=0 (146998,440926,293928) : difference with theory (0) = 0
- CORRECTING DEFECT 54 (vertices=52, convex hull=77, v0=145898)
- After retessellation of defect 54 (v0=145898), euler #=1 (147019,441022,294004) : difference with theory (1) = 0
- CORRECTING DEFECT 55 (vertices=40, convex hull=67, v0=148248)
- After retessellation of defect 55 (v0=148248), euler #=2 (147034,441096,294064) : 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-->8.64) (max @ vno 128465 --> 134743)
- 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-->8.64) (max @ vno 128465 --> 134743)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 156 mutations (32.7%), 321 crossovers (67.3%), 147 vertices were eliminated
- building final representation...
- 1984 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=147034, nf=294064, ne=441096, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 29.7 minutes
- 0 defective edges
- removing intersecting faces
- 000: 233 intersecting
- 001: 8 intersecting
- 002: 5 intersecting
- expanding nbhd size to 2
- 003: 8 intersecting
- mris_fix_topology utimesec 1779.022547
- mris_fix_topology stimesec 0.275958
- mris_fix_topology ru_maxrss 463172
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 54692
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 10488
- mris_fix_topology ru_oublock 14144
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 421
- mris_fix_topology ru_nivcsw 5340
- FSRUNTIME@ mris_fix_topology rh 0.4942 hours 1 threads
- PIDs (10482 10485) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 147611 - 442827 + 295218 = 2 --> 0 holes
- F =2V-4: 295218 = 295222-4 (0)
- 2E=3F: 885654 = 885654 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 147034 - 441096 + 294064 = 2 --> 0 holes
- F =2V-4: 294064 = 294068-4 (0)
- 2E=3F: 882192 = 882192 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 165 intersecting
- 001: 18 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 25 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Sat Oct 7 21:44:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051324 lh
- #--------------------------------------------
- #@# Make White Surf rh Sat Oct 7 21:44:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051324 rh
- Waiting for PID 14460 of (14460 14463) to complete...
- Waiting for PID 14463 of (14460 14463) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051324 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-6.0.0/0051324/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- 22813 bright wm thresholded.
- 1864 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.orig...
- computing class statistics...
- border white: 280448 voxels (1.67%)
- border gray 318193 voxels (1.90%)
- WM (95.0): 95.7 +- 8.4 [70.0 --> 110.0]
- GM (71.0) : 69.5 +- 11.0 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 55.0 (was 70)
- setting MAX_BORDER_WHITE to 107.4 (was 105)
- setting MIN_BORDER_WHITE to 66.0 (was 85)
- setting MAX_CSF to 43.9 (was 40)
- setting MAX_GRAY to 90.6 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 55.0 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 32.9 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.81 +- 0.23 (0.01-->8.75) (max @ vno 72451 --> 146753)
- face area 0.28 +- 0.13 (0.00-->5.22)
- mean absolute distance = 0.77 +- 0.94
- 3607 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=99+-7.0, GM=66+-8.7
- mean inside = 91.1, mean outside = 72.9
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- mean border=77.6, 74 (74) missing vertices, mean dist 0.3 [0.7 (%33.7)->0.8 (%66.3))]
- %49 local maxima, %46 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 (0.11-->8.41) (max @ vno 72451 --> 146753)
- face area 0.28 +- 0.13 (0.00-->4.03)
- mean absolute distance = 0.41 +- 0.72
- 5138 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=3693419.5, rms=10.469
- 001: dt: 0.5000, sse=2138268.2, rms=7.446 (28.876%)
- 002: dt: 0.5000, sse=1440795.9, rms=5.554 (25.406%)
- 003: dt: 0.5000, sse=1116766.0, rms=4.405 (20.687%)
- 004: dt: 0.5000, sse=970289.6, rms=3.770 (14.420%)
- 005: dt: 0.5000, sse=912555.4, rms=3.486 (7.533%)
- 006: dt: 0.5000, sse=887152.8, rms=3.349 (3.939%)
- rms = 3.30, time step reduction 1 of 3 to 0.250...
- 007: dt: 0.5000, sse=878634.3, rms=3.301 (1.411%)
- 008: dt: 0.2500, sse=718718.6, rms=2.166 (34.391%)
- 009: dt: 0.2500, sse=685997.4, rms=1.864 (13.935%)
- 010: dt: 0.2500, sse=679482.4, rms=1.794 (3.788%)
- rms = 1.76, time step reduction 2 of 3 to 0.125...
- 011: dt: 0.2500, sse=675635.5, rms=1.755 (2.143%)
- rms = 1.71, time step reduction 3 of 3 to 0.062...
- 012: dt: 0.1250, sse=671438.6, rms=1.708 (2.701%)
- positioning took 1.4 minutes
- inhibiting deformation at non-cortical midline structures...
- mean border=80.5, 116 (34) missing vertices, mean dist -0.2 [0.5 (%68.0)->0.3 (%32.0))]
- %60 local maxima, %35 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 +- 0.26 (0.08-->8.21) (max @ vno 72451 --> 146753)
- face area 0.35 +- 0.17 (0.00-->4.97)
- mean absolute distance = 0.33 +- 0.49
- 4582 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1308464.2, rms=4.481
- 013: dt: 0.5000, sse=990543.6, rms=2.964 (33.856%)
- rms = 2.96, time step reduction 1 of 3 to 0.250...
- 014: dt: 0.2500, sse=899453.4, rms=2.358 (20.453%)
- 015: dt: 0.2500, sse=841479.5, rms=1.868 (20.762%)
- 016: dt: 0.2500, sse=828080.0, rms=1.651 (11.620%)
- 017: dt: 0.2500, sse=815103.6, rms=1.568 (5.054%)
- 018: dt: 0.2500, sse=808513.6, rms=1.517 (3.208%)
- rms = 1.49, time step reduction 2 of 3 to 0.125...
- 019: dt: 0.2500, sse=807461.8, rms=1.491 (1.712%)
- rms = 1.45, time step reduction 3 of 3 to 0.062...
- 020: dt: 0.1250, sse=805071.7, rms=1.449 (2.827%)
- positioning took 1.0 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- mean border=82.9, 124 (30) missing vertices, mean dist -0.2 [0.4 (%65.9)->0.2 (%34.1))]
- %74 local maxima, %21 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.90 +- 0.26 (0.08-->8.09) (max @ vno 72451 --> 146753)
- face area 0.34 +- 0.16 (0.00-->4.86)
- mean absolute distance = 0.29 +- 0.40
- 3713 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1066625.2, rms=3.477
- 021: dt: 0.5000, sse=905441.8, rms=2.506 (27.911%)
- rms = 2.74, time step reduction 1 of 3 to 0.250...
- 022: dt: 0.2500, sse=824726.2, rms=1.805 (27.983%)
- 023: dt: 0.2500, sse=787705.4, rms=1.433 (20.609%)
- 024: dt: 0.2500, sse=782481.7, rms=1.341 (6.437%)
- rms = 1.32, time step reduction 2 of 3 to 0.125...
- 025: dt: 0.2500, sse=775190.7, rms=1.324 (1.220%)
- rms = 1.28, time step reduction 3 of 3 to 0.062...
- 026: dt: 0.1250, sse=771434.6, rms=1.281 (3.297%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- mean border=84.0, 147 (23) missing vertices, mean dist -0.1 [0.3 (%56.3)->0.2 (%43.7))]
- %80 local maxima, %14 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-6.0.0/0051324/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=816362.1, rms=1.921
- 027: dt: 0.5000, sse=803685.2, rms=1.804 (6.066%)
- rms = 2.38, time step reduction 1 of 3 to 0.250...
- 028: dt: 0.2500, sse=752765.4, rms=1.207 (33.075%)
- 029: dt: 0.2500, sse=748012.3, rms=1.079 (10.623%)
- 030: dt: 0.2500, sse=737974.7, rms=0.998 (7.502%)
- rms = 1.03, time step reduction 2 of 3 to 0.125...
- rms = 0.98, time step reduction 3 of 3 to 0.062...
- 031: dt: 0.1250, sse=736660.7, rms=0.984 (1.390%)
- positioning took 0.7 minutes
- generating cortex label...
- 10 non-cortical segments detected
- only using segment with 7989 vertices
- erasing segment 1 (vno[0] = 104455)
- erasing segment 2 (vno[0] = 110539)
- erasing segment 3 (vno[0] = 112526)
- erasing segment 4 (vno[0] = 112573)
- erasing segment 5 (vno[0] = 113611)
- erasing segment 6 (vno[0] = 115767)
- erasing segment 7 (vno[0] = 115816)
- erasing segment 8 (vno[0] = 119175)
- erasing segment 9 (vno[0] = 127103)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.area
- vertex spacing 0.89 +- 0.26 (0.01-->8.09) (max @ vno 72451 --> 146753)
- face area 0.33 +- 0.16 (0.00-->5.24)
- refinement took 5.7 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051324 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-6.0.0/0051324/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- 22813 bright wm thresholded.
- 1864 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.orig...
- computing class statistics...
- border white: 280448 voxels (1.67%)
- border gray 318193 voxels (1.90%)
- WM (95.0): 95.7 +- 8.4 [70.0 --> 110.0]
- GM (71.0) : 69.5 +- 11.0 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 56.0 (was 70)
- setting MAX_BORDER_WHITE to 107.4 (was 105)
- setting MIN_BORDER_WHITE to 67.0 (was 85)
- setting MAX_CSF to 44.9 (was 40)
- setting MAX_GRAY to 90.6 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 56.0 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 33.9 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.81 +- 0.22 (0.04-->3.54) (max @ vno 41468 --> 42633)
- face area 0.28 +- 0.13 (0.00-->2.85)
- mean absolute distance = 0.80 +- 0.95
- 3893 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=99+-6.1, GM=67+-8.7
- mean inside = 91.4, mean outside = 74.0
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- mean border=78.3, 76 (76) missing vertices, mean dist 0.3 [0.7 (%33.5)->0.8 (%66.5))]
- %51 local maxima, %44 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 0.92 +- 0.26 (0.07-->3.74) (max @ vno 41468 --> 42633)
- face area 0.28 +- 0.13 (0.00-->2.58)
- mean absolute distance = 0.43 +- 0.71
- 4558 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=3582054.2, rms=10.258
- 001: dt: 0.5000, sse=2057120.4, rms=7.268 (29.151%)
- 002: dt: 0.5000, sse=1373987.5, rms=5.353 (26.352%)
- 003: dt: 0.5000, sse=1065612.1, rms=4.210 (21.349%)
- 004: dt: 0.5000, sse=926173.8, rms=3.574 (15.105%)
- 005: dt: 0.5000, sse=873151.0, rms=3.287 (8.042%)
- 006: dt: 0.5000, sse=847574.4, rms=3.147 (4.251%)
- rms = 3.10, time step reduction 1 of 3 to 0.250...
- 007: dt: 0.5000, sse=843471.2, rms=3.099 (1.528%)
- 008: dt: 0.2500, sse=699420.8, rms=2.028 (34.566%)
- 009: dt: 0.2500, sse=671933.8, rms=1.761 (13.163%)
- 010: dt: 0.2500, sse=667386.4, rms=1.698 (3.538%)
- rms = 1.67, time step reduction 2 of 3 to 0.125...
- 011: dt: 0.2500, sse=664361.2, rms=1.666 (1.938%)
- rms = 1.62, time step reduction 3 of 3 to 0.062...
- 012: dt: 0.1250, sse=660105.1, rms=1.624 (2.517%)
- positioning took 1.4 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=81.3, 62 (15) missing vertices, mean dist -0.3 [0.5 (%68.0)->0.3 (%32.0))]
- %63 local maxima, %32 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 (0.05-->3.68) (max @ vno 41468 --> 42633)
- face area 0.35 +- 0.16 (0.00-->3.43)
- mean absolute distance = 0.34 +- 0.49
- 4501 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1338250.9, rms=4.606
- 013: dt: 0.5000, sse=1001027.6, rms=3.015 (34.539%)
- 014: dt: 0.5000, sse=963120.9, rms=2.840 (5.807%)
- rms = 2.80, time step reduction 1 of 3 to 0.250...
- 015: dt: 0.5000, sse=952867.4, rms=2.799 (1.439%)
- 016: dt: 0.2500, sse=826343.8, rms=1.755 (37.287%)
- 017: dt: 0.2500, sse=803032.3, rms=1.487 (15.312%)
- rms = 1.44, time step reduction 2 of 3 to 0.125...
- 018: dt: 0.2500, sse=799172.8, rms=1.438 (3.247%)
- 019: dt: 0.1250, sse=795757.6, rms=1.374 (4.488%)
- rms = 1.37, time step reduction 3 of 3 to 0.062...
- 020: dt: 0.1250, sse=793486.0, rms=1.369 (0.366%)
- positioning took 0.9 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=83.9, 68 (14) missing vertices, mean dist -0.2 [0.4 (%67.4)->0.2 (%32.6))]
- %76 local maxima, %19 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 (0.05-->3.61) (max @ vno 41468 --> 42633)
- face area 0.34 +- 0.16 (0.00-->3.43)
- mean absolute distance = 0.29 +- 0.39
- 3686 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1079040.6, rms=3.583
- 021: dt: 0.5000, sse=887797.9, rms=2.389 (33.326%)
- rms = 2.55, time step reduction 1 of 3 to 0.250...
- 022: dt: 0.2500, sse=807775.8, rms=1.738 (27.246%)
- 023: dt: 0.2500, sse=776065.2, rms=1.365 (21.460%)
- 024: dt: 0.2500, sse=770686.1, rms=1.273 (6.730%)
- rms = 1.26, time step reduction 2 of 3 to 0.125...
- 025: dt: 0.2500, sse=770128.3, rms=1.261 (0.947%)
- rms = 1.22, time step reduction 3 of 3 to 0.062...
- 026: dt: 0.1250, sse=763109.2, rms=1.225 (2.878%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=85.0, 72 (12) missing vertices, mean dist -0.1 [0.3 (%57.1)->0.2 (%42.9))]
- %83 local maxima, %12 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-6.0.0/0051324/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=811371.1, rms=1.914
- 027: dt: 0.5000, sse=790542.3, rms=1.655 (13.490%)
- rms = 2.22, time step reduction 1 of 3 to 0.250...
- 028: dt: 0.2500, sse=743547.6, rms=1.130 (31.713%)
- 029: dt: 0.2500, sse=739053.9, rms=1.019 (9.819%)
- 030: dt: 0.2500, sse=732321.3, rms=0.955 (6.343%)
- rms = 0.98, time step reduction 2 of 3 to 0.125...
- rms = 0.95, time step reduction 3 of 3 to 0.062...
- 031: dt: 0.1250, sse=731008.6, rms=0.946 (0.916%)
- positioning took 0.7 minutes
- generating cortex label...
- 10 non-cortical segments detected
- only using segment with 8011 vertices
- erasing segment 0 (vno[0] = 46249)
- erasing segment 2 (vno[0] = 107978)
- erasing segment 3 (vno[0] = 110104)
- erasing segment 4 (vno[0] = 112222)
- erasing segment 5 (vno[0] = 112231)
- erasing segment 6 (vno[0] = 112364)
- erasing segment 7 (vno[0] = 115245)
- erasing segment 8 (vno[0] = 115282)
- erasing segment 9 (vno[0] = 116306)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.area
- vertex spacing 0.89 +- 0.25 (0.04-->3.93) (max @ vno 100441 --> 100456)
- face area 0.34 +- 0.16 (0.00-->3.37)
- refinement took 5.7 minutes
- PIDs (14460 14463) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Sat Oct 7 21:50:22 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Sat Oct 7 21:50:22 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 14738 of (14738 14741) to complete...
- Waiting for PID 14741 of (14738 14741) 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 (14738 14741) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Sat Oct 7 21:50:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Sat Oct 7 21:50:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 14787 of (14787 14790) to complete...
- Waiting for PID 14790 of (14787 14790) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 48.8 mm, total surface area = 88471 mm^2
- writing inflated surface to ../surf/lh.inflated
- writing sulcal depths to ../surf/lh.sulc
-
step 000: RMS=0.181 (target=0.015)
step 005: RMS=0.127 (target=0.015)
step 010: RMS=0.096 (target=0.015)
step 015: RMS=0.078 (target=0.015)
step 020: RMS=0.064 (target=0.015)
step 025: RMS=0.053 (target=0.015)
step 030: RMS=0.045 (target=0.015)
step 035: RMS=0.038 (target=0.015)
step 040: RMS=0.033 (target=0.015)
step 045: RMS=0.029 (target=0.015)
step 050: RMS=0.028 (target=0.015)
step 055: RMS=0.026 (target=0.015)
step 060: RMS=0.025 (target=0.015)
- inflation complete.
- inflation took 1.0 minutes
- mris_inflate utimesec 60.485804
- mris_inflate stimesec 0.160975
- mris_inflate ru_maxrss 216368
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 31161
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 11560
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2226
- mris_inflate ru_nivcsw 4431
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 47.7 mm, total surface area = 88330 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.181 (target=0.015)
step 005: RMS=0.126 (target=0.015)
step 010: RMS=0.094 (target=0.015)
step 015: RMS=0.078 (target=0.015)
step 020: RMS=0.064 (target=0.015)
step 025: RMS=0.053 (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=0.030 (target=0.015)
step 050: RMS=0.028 (target=0.015)
step 055: RMS=0.026 (target=0.015)
step 060: RMS=0.025 (target=0.015)
- inflation complete.
- inflation took 1.0 minutes
- mris_inflate utimesec 59.552946
- mris_inflate stimesec 0.148977
- mris_inflate ru_maxrss 215172
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 31372
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 11512
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 1997
- mris_inflate ru_nivcsw 4398
- PIDs (14787 14790) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Sat Oct 7 21:51:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 Sat Oct 7 21:51:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 14891 of (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) to complete...
- Waiting for PID 14894 of (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) to complete...
- Waiting for PID 14897 of (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) to complete...
- Waiting for PID 14900 of (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) to complete...
- Waiting for PID 14903 of (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) to complete...
- Waiting for PID 14906 of (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) to complete...
- Waiting for PID 14909 of (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) to complete...
- Waiting for PID 14912 of (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) to complete...
- Waiting for PID 14915 of (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) to complete...
- Waiting for PID 14918 of (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) to complete...
- Waiting for PID 14921 of (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) to complete...
- Waiting for PID 14924 of (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = 3.695*4pi (46.434) --> -3 handles
- ICI = 229.9, FI = 1890.0, variation=31634.216
- 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
- 176 vertices thresholded to be in k1 ~ [-0.29 0.34], k2 ~ [-0.10 0.07]
- total integrated curvature = 0.407*4pi (5.112) --> 1 handles
- ICI = 1.5, FI = 9.6, variation=165.060
- 141 vertices thresholded to be in [-0.02 0.01]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 140 vertices thresholded to be in [-0.13 0.17]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.016, std = 0.021
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = 10.810*4pi (135.845) --> -10 handles
- ICI = 229.3, FI = 1864.4, variation=31133.241
- 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
- 196 vertices thresholded to be in k1 ~ [-0.73 0.47], k2 ~ [-0.36 0.08]
- total integrated curvature = 0.463*4pi (5.821) --> 1 handles
- ICI = 1.5, FI = 9.7, variation=166.611
- 173 vertices thresholded to be in [-0.05 0.01]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.002
- 114 vertices thresholded to be in [-0.27 0.13]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.016, std = 0.023
- done.
- PIDs (14891 14894 14897 14900 14903 14906 14909 14912 14915 14918 14921 14924) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Sat Oct 7 21:53:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0051324 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 [ 0051324/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 [ 311 ]
- Gb_filter = 0
- WARN: S lookup min: -0.978619
- WARN: S explicit min: 0.000000 vertex = 792
- #-----------------------------------------
- #@# Curvature Stats rh Sat Oct 7 21:53:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0051324 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 [ 0051324/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 [ 283 ]
- Gb_filter = 0
- WARN: S lookup min: -0.102663
- WARN: S explicit min: 0.000000 vertex = 26
- #--------------------------------------------
- #@# Sphere lh Sat Oct 7 21:53:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Sat Oct 7 21:53:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 15077 of (15077 15080) to complete...
- Waiting for PID 15080 of (15077 15080) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0.296...
- MRISunfold() max_passes = 1 -------
- tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
- using quadratic fit line minimization
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 1.000000
- desired_rms_height -1.000000
- momentum 0.900000
- nbhd_size 7
- max_nbrs 8
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 1234
- --------------------
- mrisRemoveNegativeArea()
- pass 1: epoch 1 of 3 starting distance error %20.14
- pass 1: epoch 2 of 3 starting distance error %20.12
- unfolding complete - removing small folds...
- starting distance error %20.04
- removing remaining folds...
- final distance error %20.06
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 192 negative triangles
- 191: dt=0.9900, 192 negative triangles
- 192: dt=0.9900, 90 negative triangles
- 193: dt=0.9900, 73 negative triangles
- 194: dt=0.9900, 61 negative triangles
- 195: dt=0.9900, 54 negative triangles
- 196: dt=0.9900, 49 negative triangles
- 197: dt=0.9900, 41 negative triangles
- 198: dt=0.9900, 43 negative triangles
- 199: dt=0.9900, 33 negative triangles
- 200: dt=0.9900, 37 negative triangles
- 201: dt=0.9900, 29 negative triangles
- 202: dt=0.9900, 30 negative triangles
- 203: dt=0.9900, 23 negative triangles
- 204: dt=0.9900, 21 negative triangles
- 205: dt=0.9900, 22 negative triangles
- 206: dt=0.9900, 16 negative triangles
- 207: dt=0.9900, 18 negative triangles
- 208: dt=0.9900, 13 negative triangles
- 209: dt=0.9900, 16 negative triangles
- 210: dt=0.9900, 20 negative triangles
- 211: dt=0.9900, 11 negative triangles
- 212: dt=0.9900, 11 negative triangles
- 213: dt=0.9900, 10 negative triangles
- 214: dt=0.9900, 6 negative triangles
- 215: dt=0.9900, 2 negative triangles
- 216: dt=0.9900, 6 negative triangles
- 217: dt=0.9900, 3 negative triangles
- 218: dt=0.9900, 1 negative triangles
- 219: dt=0.9900, 3 negative triangles
- 220: dt=0.9900, 2 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 1.15 hours
- mris_sphere utimesec 4153.816523
- mris_sphere stimesec 2.461625
- mris_sphere ru_maxrss 303812
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 53174
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10432
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 148383
- mris_sphere ru_nivcsw 336352
- FSRUNTIME@ mris_sphere 1.1540 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0.300...
- 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 %19.84
- pass 1: epoch 2 of 3 starting distance error %19.80
- unfolding complete - removing small folds...
- starting distance error %19.72
- removing remaining folds...
- final distance error %19.74
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 149 negative triangles
- 213: dt=0.9900, 149 negative triangles
- 214: dt=0.9900, 64 negative triangles
- 215: dt=0.9900, 47 negative triangles
- 216: dt=0.9900, 42 negative triangles
- 217: dt=0.9900, 27 negative triangles
- 218: dt=0.9900, 31 negative triangles
- 219: dt=0.9900, 29 negative triangles
- 220: dt=0.9900, 26 negative triangles
- 221: dt=0.9900, 24 negative triangles
- 222: dt=0.9900, 29 negative triangles
- 223: dt=0.9900, 31 negative triangles
- 224: dt=0.9900, 26 negative triangles
- 225: dt=0.9900, 30 negative triangles
- 226: dt=0.9900, 29 negative triangles
- 227: dt=0.9900, 27 negative triangles
- 228: dt=0.9900, 31 negative triangles
- 229: dt=0.9900, 25 negative triangles
- 230: dt=0.9900, 26 negative triangles
- 231: dt=0.9405, 26 negative triangles
- 232: dt=0.9405, 23 negative triangles
- 233: dt=0.9405, 23 negative triangles
- 234: dt=0.9405, 25 negative triangles
- 235: dt=0.9405, 24 negative triangles
- 236: dt=0.9405, 23 negative triangles
- 237: dt=0.9405, 22 negative triangles
- 238: dt=0.9405, 22 negative triangles
- 239: dt=0.9405, 19 negative triangles
- 240: dt=0.9405, 24 negative triangles
- 241: dt=0.9405, 17 negative triangles
- 242: dt=0.9405, 16 negative triangles
- 243: dt=0.9405, 18 negative triangles
- 244: dt=0.9405, 18 negative triangles
- 245: dt=0.9405, 15 negative triangles
- 246: dt=0.9405, 15 negative triangles
- 247: dt=0.9405, 16 negative triangles
- 248: dt=0.9405, 15 negative triangles
- 249: dt=0.9405, 14 negative triangles
- 250: dt=0.9405, 13 negative triangles
- 251: dt=0.9405, 12 negative triangles
- 252: dt=0.9405, 11 negative triangles
- 253: dt=0.9405, 11 negative triangles
- 254: dt=0.9405, 14 negative triangles
- 255: dt=0.9405, 13 negative triangles
- 256: dt=0.9405, 14 negative triangles
- 257: dt=0.9405, 14 negative triangles
- 258: dt=0.9405, 13 negative triangles
- 259: dt=0.9405, 15 negative triangles
- 260: dt=0.9405, 17 negative triangles
- 261: dt=0.9405, 10 negative triangles
- 262: dt=0.9405, 11 negative triangles
- 263: dt=0.9405, 11 negative triangles
- 264: dt=0.9405, 7 negative triangles
- 265: dt=0.9405, 11 negative triangles
- 266: dt=0.9405, 8 negative triangles
- 267: dt=0.9405, 10 negative triangles
- 268: dt=0.9405, 6 negative triangles
- 269: dt=0.9405, 8 negative triangles
- 270: dt=0.9405, 8 negative triangles
- 271: dt=0.9405, 9 negative triangles
- 272: dt=0.9405, 5 negative triangles
- 273: dt=0.9405, 6 negative triangles
- 274: dt=0.9405, 6 negative triangles
- 275: dt=0.9405, 5 negative triangles
- 276: dt=0.9405, 8 negative triangles
- 277: dt=0.9405, 3 negative triangles
- 278: dt=0.9405, 5 negative triangles
- 279: dt=0.9405, 3 negative triangles
- 280: dt=0.9405, 3 negative triangles
- 281: dt=0.9405, 4 negative triangles
- 282: dt=0.9405, 4 negative triangles
- 283: dt=0.9405, 4 negative triangles
- 284: dt=0.9405, 3 negative triangles
- 285: dt=0.9405, 1 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 1.26 hours
- mris_sphere utimesec 4842.580815
- mris_sphere stimesec 2.401634
- mris_sphere ru_maxrss 302256
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 53271
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10400
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 150589
- mris_sphere ru_nivcsw 340356
- FSRUNTIME@ mris_sphere 1.2602 hours 1 threads
- PIDs (15077 15080) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Sat Oct 7 23:08:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 Sat Oct 7 23:08:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 18909 of (18909 18912) to complete...
- Waiting for PID 18912 of (18909 18912) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 = 5.509
- curvature mean = 0.043, std = 0.821
- curvature mean = 0.019, std = 0.856
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (0.00, 0.00, -16.00) sse = 354634.8, tmin=1.1725
- d=32.00 min @ (0.00, -8.00, 8.00) sse = 256545.1, tmin=2.3463
- d=16.00 min @ (4.00, 4.00, -4.00) sse = 205444.7, tmin=3.5396
- d=8.00 min @ (0.00, 0.00, 2.00) sse = 201204.4, tmin=4.7716
- d=4.00 min @ (0.00, 0.00, -1.00) sse = 199611.5, tmin=6.0150
- d=2.00 min @ (0.00, 0.00, 0.50) sse = 199462.1, tmin=7.2680
- d=1.00 min @ (0.25, 0.25, -0.25) sse = 199282.3, tmin=8.5053
- d=0.50 min @ (-0.12, -0.12, 0.00) sse = 199233.7, tmin=9.7397
- 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 9.74 min
- curvature mean = 0.007, std = 0.832
- curvature mean = 0.007, std = 0.945
- curvature mean = 0.002, std = 0.842
- curvature mean = 0.003, std = 0.978
- curvature mean = -0.002, std = 0.842
- curvature mean = 0.001, std = 0.991
- 2 Reading smoothwm
- curvature mean = -0.029, std = 0.315
- curvature mean = 0.040, std = 0.248
- curvature mean = 0.058, std = 0.316
- curvature mean = 0.034, std = 0.306
- curvature mean = 0.035, std = 0.488
- curvature mean = 0.033, std = 0.331
- curvature mean = 0.021, std = 0.623
- curvature mean = 0.033, std = 0.342
- curvature mean = 0.007, std = 0.737
- MRISregister() return, current seed 0
- -01: dt=0.0000, 57 negative triangles
- 118: dt=0.9900, 57 negative triangles
- expanding nbhd size to 1
- 119: dt=0.9900, 94 negative triangles
- 120: dt=0.9405, 59 negative triangles
- 121: dt=0.9405, 61 negative triangles
- 122: dt=0.9405, 56 negative triangles
- 123: dt=0.9405, 57 negative triangles
- 124: dt=0.9405, 54 negative triangles
- 125: dt=0.9405, 47 negative triangles
- 126: dt=0.9405, 41 negative triangles
- 127: dt=0.9405, 38 negative triangles
- 128: dt=0.9405, 28 negative triangles
- 129: dt=0.9405, 31 negative triangles
- 130: dt=0.9405, 25 negative triangles
- 131: dt=0.9405, 20 negative triangles
- 132: dt=0.9405, 20 negative triangles
- 133: dt=0.9405, 13 negative triangles
- 134: dt=0.9405, 13 negative triangles
- 135: dt=0.9405, 15 negative triangles
- 136: dt=0.9405, 11 negative triangles
- 137: dt=0.9405, 8 negative triangles
- 138: dt=0.9405, 9 negative triangles
- 139: dt=0.9405, 9 negative triangles
- 140: dt=0.9405, 8 negative triangles
- 141: dt=0.9405, 7 negative triangles
- 142: dt=0.9405, 7 negative triangles
- 143: dt=0.9405, 4 negative triangles
- 144: dt=0.9405, 3 negative triangles
- 145: dt=0.9405, 3 negative triangles
- 146: dt=0.9405, 2 negative triangles
- 147: dt=0.9405, 3 negative triangles
- 148: dt=0.9405, 3 negative triangles
- 149: dt=0.9405, 4 negative triangles
- 150: dt=0.9405, 2 negative triangles
- 151: dt=0.9405, 3 negative triangles
- 152: dt=0.9405, 1 negative triangles
- 153: dt=0.9405, 2 negative triangles
- 154: dt=0.9405, 2 negative triangles
- 155: dt=0.9405, 5 negative triangles
- 156: dt=0.9405, 1 negative triangles
- 157: dt=0.9405, 1 negative triangles
- 158: dt=0.9405, 2 negative triangles
- 159: dt=0.9405, 2 negative triangles
- 160: dt=0.9405, 2 negative triangles
- 161: dt=0.9405, 1 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 1.30 hours
- mris_register utimesec 4687.306421
- mris_register stimesec 4.057383
- mris_register ru_maxrss 271664
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 38741
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 0
- mris_register ru_oublock 10488
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 296978
- mris_register ru_nivcsw 215040
- FSRUNTIME@ mris_register 1.3030 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 = 5.544
- curvature mean = 0.019, std = 0.818
- curvature mean = 0.021, std = 0.857
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (16.00, 0.00, 0.00) sse = 380038.0, tmin=1.1468
- d=32.00 min @ (-8.00, -8.00, -8.00) sse = 218746.2, tmin=2.2943
- d=16.00 min @ (0.00, 4.00, 0.00) sse = 209322.5, tmin=3.4650
- d=8.00 min @ (0.00, -2.00, 2.00) sse = 186174.4, tmin=4.6466
- d=1.00 min @ (-0.25, -0.25, 0.00) sse = 185935.2, tmin=8.2161
- d=0.50 min @ (0.00, 0.12, -0.12) sse = 185857.5, tmin=9.4144
- 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 9.41 min
- curvature mean = 0.002, std = 0.830
- curvature mean = 0.007, std = 0.947
- curvature mean = -0.000, std = 0.840
- curvature mean = 0.002, std = 0.979
- curvature mean = -0.002, std = 0.841
- curvature mean = 0.000, std = 0.992
- 2 Reading smoothwm
- curvature mean = -0.028, std = 0.295
- curvature mean = 0.036, std = 0.243
- curvature mean = 0.064, std = 0.337
- curvature mean = 0.033, std = 0.300
- curvature mean = 0.037, std = 0.523
- curvature mean = 0.033, std = 0.327
- curvature mean = 0.021, std = 0.666
- curvature mean = 0.033, std = 0.339
- curvature mean = 0.007, std = 0.779
- MRISregister() return, current seed 0
- -01: dt=0.0000, 55 negative triangles
- 115: dt=0.9900, 55 negative triangles
- expanding nbhd size to 1
- 116: dt=0.9900, 63 negative triangles
- 117: dt=0.9900, 42 negative triangles
- 118: dt=0.9900, 38 negative triangles
- 119: dt=0.9900, 39 negative triangles
- 120: dt=0.9900, 34 negative triangles
- 121: dt=0.9900, 38 negative triangles
- 122: dt=0.9900, 38 negative triangles
- 123: dt=0.9900, 41 negative triangles
- 124: dt=0.9900, 33 negative triangles
- 125: dt=0.9900, 32 negative triangles
- 126: dt=0.9900, 27 negative triangles
- 127: dt=0.9900, 27 negative triangles
- 128: dt=0.9900, 27 negative triangles
- 129: dt=0.9900, 25 negative triangles
- 130: dt=0.9900, 21 negative triangles
- 131: dt=0.9900, 22 negative triangles
- 132: dt=0.9900, 18 negative triangles
- 133: dt=0.9900, 17 negative triangles
- 134: dt=0.9900, 17 negative triangles
- 135: dt=0.9900, 20 negative triangles
- 136: dt=0.9900, 15 negative triangles
- 137: dt=0.9900, 16 negative triangles
- 138: dt=0.9900, 14 negative triangles
- 139: dt=0.9900, 18 negative triangles
- 140: dt=0.9900, 17 negative triangles
- 141: dt=0.9900, 15 negative triangles
- 142: dt=0.9900, 15 negative triangles
- 143: dt=0.9900, 14 negative triangles
- 144: dt=0.9900, 11 negative triangles
- 145: dt=0.9900, 11 negative triangles
- 146: dt=0.9900, 10 negative triangles
- 147: dt=0.9900, 11 negative triangles
- 148: dt=0.9900, 14 negative triangles
- 149: dt=0.9900, 10 negative triangles
- 150: dt=0.9900, 11 negative triangles
- 151: dt=0.9900, 10 negative triangles
- 152: dt=0.9900, 9 negative triangles
- 153: dt=0.9900, 10 negative triangles
- 154: dt=0.9900, 9 negative triangles
- 155: dt=0.9900, 9 negative triangles
- 156: dt=0.9900, 9 negative triangles
- 157: dt=0.9900, 9 negative triangles
- 158: dt=0.9900, 12 negative triangles
- 159: dt=0.9900, 10 negative triangles
- 160: dt=0.9900, 8 negative triangles
- 161: dt=0.9900, 8 negative triangles
- 162: dt=0.9900, 8 negative triangles
- 163: dt=0.9900, 8 negative triangles
- 164: dt=0.9900, 8 negative triangles
- 165: dt=0.9900, 9 negative triangles
- 166: dt=0.9900, 6 negative triangles
- 167: dt=0.9900, 5 negative triangles
- 168: dt=0.9900, 4 negative triangles
- 169: dt=0.9900, 4 negative triangles
- 170: dt=0.9900, 5 negative triangles
- 171: dt=0.9900, 4 negative triangles
- 172: dt=0.9900, 4 negative triangles
- 173: dt=0.9900, 2 negative triangles
- 174: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- registration took 1.35 hours
- mris_register utimesec 4967.927760
- mris_register stimesec 4.651292
- mris_register ru_maxrss 270260
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 37935
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 0
- mris_register ru_oublock 10432
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 317144
- mris_register ru_nivcsw 210605
- FSRUNTIME@ mris_register 1.3501 hours 1 threads
- PIDs (18909 18912) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Sun Oct 8 00:29:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Sun Oct 8 00:29:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 21872 of (21872 21875) to complete...
- Waiting for PID 21875 of (21872 21875) 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 (21872 21875) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Sun Oct 8 00:29:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 00:29:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 21922 of (21922 21925) to complete...
- Waiting for PID 21925 of (21922 21925) 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 (21922 21925) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Sun Oct 8 00:29:56 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051324 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 00:29:56 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051324 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 21991 of (21991 21994) to complete...
- Waiting for PID 21994 of (21991 21994) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051324 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...
- 1053 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3226 changed, 147611 examined...
- 001: 689 changed, 13476 examined...
- 002: 163 changed, 3928 examined...
- 003: 57 changed, 1006 examined...
- 004: 25 changed, 360 examined...
- 005: 11 changed, 139 examined...
- 006: 5 changed, 69 examined...
- 007: 1 changed, 36 examined...
- 008: 1 changed, 8 examined...
- 009: 1 changed, 6 examined...
- 010: 0 changed, 7 examined...
- 225 labels changed using aseg
- 000: 115 total segments, 69 labels (265 vertices) changed
- 001: 47 total segments, 3 labels (5 vertices) changed
- 002: 44 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 4 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 2200 vertices marked for relabeling...
- 2200 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 16 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051324 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...
- 1235 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2896 changed, 147034 examined...
- 001: 656 changed, 12564 examined...
- 002: 157 changed, 3678 examined...
- 003: 53 changed, 936 examined...
- 004: 18 changed, 298 examined...
- 005: 3 changed, 118 examined...
- 006: 0 changed, 25 examined...
- 184 labels changed using aseg
- 000: 100 total segments, 60 labels (254 vertices) changed
- 001: 43 total segments, 3 labels (4 vertices) changed
- 002: 40 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 8 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 2183 vertices marked for relabeling...
- 2183 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 16 seconds.
- PIDs (21991 21994) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Sun Oct 8 00:30:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051324 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Sun Oct 8 00:30:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051324 rh
- Waiting for PID 22056 of (22056 22059) to complete...
- Waiting for PID 22059 of (22056 22059) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051324 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-6.0.0/0051324/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- 22813 bright wm thresholded.
- 1864 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.orig...
- computing class statistics...
- border white: 280448 voxels (1.67%)
- border gray 318193 voxels (1.90%)
- WM (95.0): 95.7 +- 8.4 [70.0 --> 110.0]
- GM (71.0) : 69.5 +- 11.0 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 55.0 (was 70)
- setting MAX_BORDER_WHITE to 107.4 (was 105)
- setting MIN_BORDER_WHITE to 66.0 (was 85)
- setting MAX_CSF to 43.9 (was 40)
- setting MAX_GRAY to 90.6 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 55.0 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 32.9 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=99+-7.0, GM=66+-8.7
- mean inside = 91.1, mean outside = 72.9
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.89 +- 0.26 (0.01-->8.09) (max @ vno 72451 --> 146753)
- face area 0.33 +- 0.16 (0.00-->5.20)
- mean absolute distance = 0.68 +- 0.91
- 3003 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 5 points - only 0.00% unknown
- deleting segment 1 with 36 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 2 with 2 points - only 0.00% unknown
- deleting segment 3 with 6 points - only 0.00% unknown
- deleting segment 4 with 47 points - only 0.00% unknown
- deleting segment 6 with 247 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 27 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 9 with 3 points - only 0.00% unknown
- deleting segment 10 with 7 points - only 0.00% unknown
- deleting segment 11 with 22 points - only 0.00% unknown
- deleting segment 12 with 62 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 13 with 2 points - only 0.00% unknown
- mean border=77.6, 160 (160) missing vertices, mean dist 0.4 [1.1 (%14.6)->0.6 (%85.4))]
- %48 local maxima, %48 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 +- 0.27 (0.11-->7.99) (max @ vno 72451 --> 146753)
- face area 0.33 +- 0.17 (0.00-->4.84)
- mean absolute distance = 0.40 +- 0.71
- 4849 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2552500.2, rms=8.097
- 001: dt: 0.5000, sse=1423126.1, rms=5.043 (37.713%)
- 002: dt: 0.5000, sse=1087751.4, rms=3.714 (26.368%)
- 003: dt: 0.5000, sse=1023763.6, rms=3.405 (8.316%)
- 004: dt: 0.5000, sse=974888.5, rms=3.156 (7.293%)
- rms = 3.25, time step reduction 1 of 3 to 0.250...
- 005: dt: 0.2500, sse=857680.6, rms=2.338 (25.938%)
- 006: dt: 0.2500, sse=812157.9, rms=1.929 (17.493%)
- 007: dt: 0.2500, sse=801479.1, rms=1.804 (6.462%)
- rms = 1.76, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=797401.5, rms=1.763 (2.295%)
- 009: dt: 0.1250, sse=791864.5, rms=1.709 (3.023%)
- rms = 1.70, time step reduction 3 of 3 to 0.062...
- 010: dt: 0.1250, sse=791293.1, rms=1.700 (0.558%)
- positioning took 1.2 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- deleting segment 0 with 3 points - only 0.00% unknown
- deleting segment 1 with 42 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 2 with 2 points - only 0.00% unknown
- deleting segment 3 with 7 points - only 0.00% unknown
- deleting segment 4 with 33 points - only 0.00% unknown
- deleting segment 5 with 27 points - only 0.00% unknown
- deleting segment 6 with 97 points - only 0.00% unknown
- deleting segment 8 with 6 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 9 with 1 points - only 0.00% unknown
- mean border=80.4, 143 (50) missing vertices, mean dist -0.2 [0.5 (%66.5)->0.2 (%33.5))]
- %60 local maxima, %35 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 +- 0.26 (0.10-->7.89) (max @ vno 72451 --> 146753)
- face area 0.35 +- 0.17 (0.00-->5.25)
- mean absolute distance = 0.33 +- 0.49
- 4621 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1272019.4, rms=4.293
- 011: dt: 0.5000, sse=980139.1, rms=2.845 (33.721%)
- rms = 2.83, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.5000, sse=971614.9, rms=2.829 (0.567%)
- 013: dt: 0.2500, sse=839207.6, rms=1.747 (38.260%)
- 014: dt: 0.2500, sse=818239.8, rms=1.505 (13.853%)
- 015: dt: 0.2500, sse=815696.4, rms=1.452 (3.508%)
- rms = 1.42, time step reduction 2 of 3 to 0.125...
- 016: dt: 0.2500, sse=817551.4, rms=1.416 (2.503%)
- rms = 1.38, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=806322.4, rms=1.376 (2.775%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 5 points - only 0.00% unknown
- deleting segment 1 with 53 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 7 points - only 0.00% unknown
- deleting segment 4 with 36 points - only 0.00% unknown
- deleting segment 5 with 33 points - only 0.00% unknown
- deleting segment 6 with 20 points - only 0.00% unknown
- deleting segment 7 with 114 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 8 with 2 points - only 0.00% unknown
- deleting segment 9 with 7 points - only 0.00% unknown
- deleting segment 10 with 10 points - only 0.00% unknown
- deleting segment 11 with 23 points - only 0.00% unknown
- mean border=82.9, 140 (42) missing vertices, mean dist -0.2 [0.4 (%66.0)->0.2 (%34.0))]
- %74 local maxima, %21 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.90 +- 0.26 (0.06-->7.83) (max @ vno 72451 --> 146753)
- face area 0.34 +- 0.17 (0.00-->5.10)
- mean absolute distance = 0.29 +- 0.40
- 3821 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1067216.1, rms=3.455
- 018: dt: 0.5000, sse=910681.0, rms=2.485 (28.071%)
- rms = 2.72, time step reduction 1 of 3 to 0.250...
- 019: dt: 0.2500, sse=824519.2, rms=1.783 (28.252%)
- 020: dt: 0.2500, sse=790962.4, rms=1.411 (20.854%)
- 021: dt: 0.2500, sse=782633.4, rms=1.319 (6.549%)
- rms = 1.30, time step reduction 2 of 3 to 0.125...
- 022: dt: 0.2500, sse=782944.1, rms=1.305 (1.070%)
- rms = 1.26, time step reduction 3 of 3 to 0.062...
- 023: dt: 0.1250, sse=777586.1, rms=1.263 (3.204%)
- positioning took 0.7 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 5 points - only 0.00% unknown
- deleting segment 1 with 53 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 7 points - only 0.00% unknown
- deleting segment 4 with 36 points - only 0.00% unknown
- deleting segment 5 with 247 points - only 0.00% unknown
- deleting segment 6 with 21 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 8 with 1 points - only 0.00% unknown
- deleting segment 9 with 37 points - only 0.00% unknown
- mean border=83.9, 161 (39) missing vertices, mean dist -0.1 [0.3 (%56.3)->0.2 (%43.7))]
- %81 local maxima, %14 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-6.0.0/0051324/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=822385.5, rms=1.907
- 024: dt: 0.5000, sse=812750.1, rms=1.796 (5.818%)
- rms = 2.37, time step reduction 1 of 3 to 0.250...
- 025: dt: 0.2500, sse=759953.7, rms=1.198 (33.272%)
- 026: dt: 0.2500, sse=754470.7, rms=1.065 (11.147%)
- 027: dt: 0.2500, sse=744140.0, rms=0.985 (7.495%)
- rms = 1.02, time step reduction 2 of 3 to 0.125...
- rms = 0.97, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=742925.0, rms=0.971 (1.457%)
- positioning took 0.7 minutes
- generating cortex label...
- 11 non-cortical segments detected
- only using segment with 8059 vertices
- erasing segment 1 (vno[0] = 97116)
- erasing segment 2 (vno[0] = 104465)
- erasing segment 3 (vno[0] = 112488)
- erasing segment 4 (vno[0] = 112539)
- erasing segment 5 (vno[0] = 112573)
- erasing segment 6 (vno[0] = 113611)
- erasing segment 7 (vno[0] = 115767)
- erasing segment 8 (vno[0] = 115816)
- erasing segment 9 (vno[0] = 119175)
- erasing segment 10 (vno[0] = 127103)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.area
- vertex spacing 0.89 +- 0.27 (0.01-->7.79) (max @ vno 72451 --> 146753)
- face area 0.34 +- 0.17 (0.00-->5.49)
- 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...
- removing 3 vertex label from ripped group
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=52.9, 156 (156) missing vertices, mean dist 1.9 [0.0 (%0.0)->2.5 (%100.0))]
- %18 local maxima, %54 large gradients and %23 min vals, 270 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=28948726.0, rms=31.688
- 001: dt: 0.0500, sse=25803634.0, rms=29.872 (5.733%)
- 002: dt: 0.0500, sse=23534700.0, rms=28.489 (4.628%)
- 003: dt: 0.0500, sse=21785114.0, rms=27.375 (3.910%)
- 004: dt: 0.0500, sse=20359220.0, rms=26.433 (3.443%)
- 005: dt: 0.0500, sse=19151116.0, rms=25.607 (3.124%)
- 006: dt: 0.0500, sse=18096332.0, rms=24.863 (2.904%)
- 007: dt: 0.0500, sse=17155832.0, rms=24.181 (2.744%)
- 008: dt: 0.0500, sse=16304355.0, rms=23.546 (2.625%)
- 009: dt: 0.0500, sse=15525029.0, rms=22.950 (2.533%)
- 010: dt: 0.0500, sse=14805379.0, rms=22.385 (2.462%)
- positioning took 1.0 minutes
- mean border=52.7, 86 (58) missing vertices, mean dist 1.5 [0.1 (%0.0)->1.9 (%100.0))]
- %18 local maxima, %54 large gradients and %23 min vals, 249 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=15537543.0, rms=22.958
- 011: dt: 0.0500, sse=14864653.0, rms=22.431 (2.297%)
- 012: dt: 0.0500, sse=14237045.0, rms=21.928 (2.244%)
- 013: dt: 0.0500, sse=13648955.0, rms=21.445 (2.200%)
- 014: dt: 0.0500, sse=13096643.0, rms=20.982 (2.160%)
- 015: dt: 0.0500, sse=12577644.0, rms=20.537 (2.120%)
- 016: dt: 0.0500, sse=12089305.0, rms=20.110 (2.082%)
- 017: dt: 0.0500, sse=11629650.0, rms=19.698 (2.044%)
- 018: dt: 0.0500, sse=11197194.0, rms=19.304 (2.004%)
- 019: dt: 0.0500, sse=10789915.0, rms=18.924 (1.966%)
- 020: dt: 0.0500, sse=10406299.0, rms=18.560 (1.927%)
- positioning took 1.0 minutes
- mean border=52.5, 107 (42) missing vertices, mean dist 1.2 [0.1 (%1.0)->1.6 (%99.0))]
- %19 local maxima, %55 large gradients and %22 min vals, 227 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=10522233.0, rms=18.677
- 021: dt: 0.0500, sse=10147766.0, rms=18.316 (1.931%)
- 022: dt: 0.0500, sse=9794916.0, rms=17.969 (1.892%)
- 023: dt: 0.0500, sse=9459357.0, rms=17.634 (1.869%)
- 024: dt: 0.0500, sse=9144617.0, rms=17.312 (1.821%)
- 025: dt: 0.0500, sse=8849081.0, rms=17.005 (1.774%)
- 026: dt: 0.0500, sse=8571029.0, rms=16.711 (1.730%)
- 027: dt: 0.0500, sse=8306758.0, rms=16.427 (1.703%)
- 028: dt: 0.0500, sse=8052266.5, rms=16.148 (1.697%)
- 029: dt: 0.0500, sse=7807326.0, rms=15.875 (1.691%)
- 030: dt: 0.0500, sse=7572114.5, rms=15.608 (1.680%)
- positioning took 1.0 minutes
- mean border=52.4, 151 (37) missing vertices, mean dist 1.0 [0.1 (%11.8)->1.4 (%88.2))]
- %19 local maxima, %55 large gradients and %22 min vals, 216 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=7677891.0, rms=15.728
- 031: dt: 0.5000, sse=6001290.5, rms=13.697 (12.910%)
- 032: dt: 0.5000, sse=4813593.5, rms=12.045 (12.060%)
- 033: dt: 0.5000, sse=3868977.0, rms=10.555 (12.376%)
- 034: dt: 0.5000, sse=3163265.5, rms=9.274 (12.128%)
- 035: dt: 0.5000, sse=2633503.2, rms=8.190 (11.696%)
- 036: dt: 0.5000, sse=2266980.8, rms=7.336 (10.419%)
- 037: dt: 0.5000, sse=2008502.5, rms=6.677 (8.985%)
- 038: dt: 0.5000, sse=1857223.1, rms=6.249 (6.406%)
- 039: dt: 0.5000, sse=1746651.1, rms=5.927 (5.153%)
- 040: dt: 0.5000, sse=1687294.0, rms=5.737 (3.219%)
- 041: dt: 0.5000, sse=1633990.9, rms=5.572 (2.872%)
- 042: dt: 0.5000, sse=1604564.8, rms=5.470 (1.826%)
- 043: dt: 0.5000, sse=1571491.5, rms=5.365 (1.923%)
- 044: dt: 0.5000, sse=1556904.5, rms=5.309 (1.040%)
- 045: dt: 0.5000, sse=1537218.6, rms=5.247 (1.174%)
- rms = 5.22, time step reduction 1 of 3 to 0.250...
- 046: dt: 0.5000, sse=1532350.6, rms=5.223 (0.447%)
- 047: dt: 0.2500, sse=1365600.2, rms=4.564 (12.620%)
- 048: dt: 0.2500, sse=1324187.5, rms=4.395 (3.695%)
- rms = 4.38, time step reduction 2 of 3 to 0.125...
- 049: dt: 0.2500, sse=1320846.4, rms=4.378 (0.396%)
- 050: dt: 0.1250, sse=1297668.9, rms=4.276 (2.331%)
- rms = 4.26, time step reduction 3 of 3 to 0.062...
- 051: dt: 0.1250, sse=1294771.2, rms=4.264 (0.289%)
- positioning took 2.7 minutes
- mean border=50.6, 1537 (9) missing vertices, mean dist 0.2 [0.2 (%43.5)->0.5 (%56.5))]
- %35 local maxima, %41 large gradients and %19 min vals, 117 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=1681085.1, rms=5.061
- 052: dt: 0.5000, sse=1534764.2, rms=4.518 (10.729%)
- rms = 4.53, time step reduction 1 of 3 to 0.250...
- 053: dt: 0.2500, sse=1386426.2, rms=3.861 (14.546%)
- 054: dt: 0.2500, sse=1330695.4, rms=3.590 (7.029%)
- 055: dt: 0.2500, sse=1309729.2, rms=3.483 (2.976%)
- rms = 3.44, time step reduction 2 of 3 to 0.125...
- 056: dt: 0.2500, sse=1300265.2, rms=3.436 (1.331%)
- 057: dt: 0.1250, sse=1275124.8, rms=3.294 (4.131%)
- rms = 3.26, time step reduction 3 of 3 to 0.062...
- 058: dt: 0.1250, sse=1268914.6, rms=3.262 (0.995%)
- positioning took 1.1 minutes
- mean border=49.4, 1691 (4) missing vertices, mean dist 0.1 [0.1 (%45.5)->0.4 (%54.5))]
- %48 local maxima, %29 large gradients and %18 min vals, 162 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=1387228.4, rms=3.831
- rms = 4.14, time step reduction 1 of 3 to 0.250...
- 059: dt: 0.2500, sse=1315394.5, rms=3.473 (9.349%)
- 060: dt: 0.2500, sse=1286286.0, rms=3.319 (4.425%)
- rms = 3.30, time step reduction 2 of 3 to 0.125...
- 061: dt: 0.2500, sse=1280037.1, rms=3.295 (0.717%)
- 062: dt: 0.1250, sse=1262348.2, rms=3.192 (3.134%)
- rms = 3.17, time step reduction 3 of 3 to 0.062...
- 063: dt: 0.1250, sse=1258357.0, rms=3.173 (0.611%)
- positioning took 0.8 minutes
- mean border=48.5, 3357 (3) missing vertices, mean dist 0.1 [0.2 (%46.7)->0.3 (%53.3))]
- %53 local maxima, %23 large gradients and %17 min vals, 161 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-6.0.0/0051324/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1302442.2, rms=3.393
- rms = 3.78, time step reduction 1 of 3 to 0.250...
- 064: dt: 0.2500, sse=1267690.0, rms=3.197 (5.757%)
- 065: dt: 0.2500, sse=1248403.5, rms=3.097 (3.134%)
- rms = 3.06, time step reduction 2 of 3 to 0.125...
- 066: dt: 0.2500, sse=1240297.6, rms=3.059 (1.228%)
- 067: dt: 0.1250, sse=1221515.8, rms=2.944 (3.765%)
- rms = 2.91, time step reduction 3 of 3 to 0.062...
- 068: dt: 0.1250, sse=1215080.4, rms=2.909 (1.196%)
- positioning took 0.8 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.area.pial
- vertex spacing 1.00 +- 0.44 (0.07-->8.27) (max @ vno 72451 --> 146753)
- face area 0.40 +- 0.32 (0.00-->6.82)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 147611 vertices processed
- 25000 of 147611 vertices processed
- 50000 of 147611 vertices processed
- 75000 of 147611 vertices processed
- 100000 of 147611 vertices processed
- 125000 of 147611 vertices processed
- 0 of 147611 vertices processed
- 25000 of 147611 vertices processed
- 50000 of 147611 vertices processed
- 75000 of 147611 vertices processed
- 100000 of 147611 vertices processed
- 125000 of 147611 vertices processed
- thickness calculation complete, 140:809 truncations.
- 38506 vertices at 0 distance
- 110457 vertices at 1 distance
- 85616 vertices at 2 distance
- 32480 vertices at 3 distance
- 9761 vertices at 4 distance
- 2964 vertices at 5 distance
- 997 vertices at 6 distance
- 395 vertices at 7 distance
- 159 vertices at 8 distance
- 60 vertices at 9 distance
- 41 vertices at 10 distance
- 30 vertices at 11 distance
- 15 vertices at 12 distance
- 13 vertices at 13 distance
- 6 vertices at 14 distance
- 8 vertices at 15 distance
- 11 vertices at 16 distance
- 7 vertices at 17 distance
- 8 vertices at 18 distance
- 3 vertices at 19 distance
- 11 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.thickness
- positioning took 16.1 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051324 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-6.0.0/0051324/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- 22813 bright wm thresholded.
- 1864 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.orig...
- computing class statistics...
- border white: 280448 voxels (1.67%)
- border gray 318193 voxels (1.90%)
- WM (95.0): 95.7 +- 8.4 [70.0 --> 110.0]
- GM (71.0) : 69.5 +- 11.0 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 56.0 (was 70)
- setting MAX_BORDER_WHITE to 107.4 (was 105)
- setting MIN_BORDER_WHITE to 67.0 (was 85)
- setting MAX_CSF to 44.9 (was 40)
- setting MAX_GRAY to 90.6 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 56.0 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 33.9 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=99+-6.1, GM=67+-8.7
- mean inside = 91.4, mean outside = 74.0
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.89 +- 0.25 (0.04-->3.93) (max @ vno 100441 --> 100456)
- face area 0.33 +- 0.16 (0.00-->3.35)
- mean absolute distance = 0.72 +- 0.93
- 3005 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- deleting segment 0 with 1 points - only 0.00% unknown
- deleting segment 1 with 27 points - only 0.00% unknown
- deleting segment 3 with 5 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 5 with 272 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
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- deleting segment 10 with 2 points - only 0.00% unknown
- deleting segment 11 with 7 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 12 with 3 points - only 0.00% unknown
- deleting segment 13 with 32 points - only 0.00% unknown
- mean border=78.4, 121 (121) missing vertices, mean dist 0.4 [1.1 (%14.2)->0.7 (%85.8))]
- %50 local maxima, %45 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 0.92 +- 0.26 (0.09-->4.03) (max @ vno 101557 --> 101558)
- face area 0.33 +- 0.16 (0.00-->3.00)
- mean absolute distance = 0.42 +- 0.71
- 4398 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2638416.8, rms=8.308
- 001: dt: 0.5000, sse=1461468.9, rms=5.210 (37.294%)
- 002: dt: 0.5000, sse=1080683.8, rms=3.706 (28.852%)
- 003: dt: 0.5000, sse=986256.4, rms=3.238 (12.649%)
- 004: dt: 0.5000, sse=938791.4, rms=2.976 (8.068%)
- rms = 3.02, time step reduction 1 of 3 to 0.250...
- 005: dt: 0.2500, sse=837385.9, rms=2.221 (25.373%)
- 006: dt: 0.2500, sse=796289.1, rms=1.824 (17.870%)
- 007: dt: 0.2500, sse=787887.4, rms=1.704 (6.593%)
- rms = 1.66, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=781623.0, rms=1.661 (2.498%)
- rms = 1.62, time step reduction 3 of 3 to 0.062...
- 009: dt: 0.1250, sse=777799.2, rms=1.615 (2.768%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 21 points - only 0.00% unknown
- deleting segment 1 with 92 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 2 with 4 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 3 with 1 points - only 0.00% unknown
- deleting segment 4 with 22 points - only 0.00% unknown
- deleting segment 5 with 30 points - only 0.00% unknown
- mean border=81.3, 69 (21) missing vertices, mean dist -0.3 [0.5 (%66.7)->0.2 (%33.3))]
- %63 local maxima, %33 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 +- 0.26 (0.05-->4.68) (max @ vno 101557 --> 101558)
- face area 0.35 +- 0.17 (0.00-->3.49)
- mean absolute distance = 0.35 +- 0.49
- 4654 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1284216.4, rms=4.364
- 010: dt: 0.5000, sse=977510.6, rms=2.859 (34.482%)
- 011: dt: 0.5000, sse=944815.9, rms=2.692 (5.842%)
- rms = 2.72, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.2500, sse=856821.4, rms=1.984 (26.299%)
- 013: dt: 0.2500, sse=814293.6, rms=1.531 (22.835%)
- 014: dt: 0.2500, sse=805588.7, rms=1.413 (7.727%)
- rms = 1.37, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=801468.5, rms=1.367 (3.246%)
- rms = 1.32, time step reduction 3 of 3 to 0.062...
- 016: dt: 0.1250, sse=798612.2, rms=1.323 (3.178%)
- positioning took 0.9 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- deleting segment 0 with 1 points - only 0.00% unknown
- deleting segment 1 with 27 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 2 with 3 points - only 0.00% unknown
- deleting segment 3 with 208 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 4 with 4 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 5 with 2 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 6 with 3 points - only 0.00% unknown
- deleting segment 7 with 32 points - only 0.00% unknown
- mean border=83.8, 66 (16) missing vertices, mean dist -0.2 [0.4 (%67.4)->0.2 (%32.6))]
- %76 local maxima, %19 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 +- 0.26 (0.07-->4.71) (max @ vno 101557 --> 101558)
- face area 0.34 +- 0.17 (0.00-->3.70)
- mean absolute distance = 0.29 +- 0.39
- 3826 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1086471.0, rms=3.587
- 017: dt: 0.5000, sse=889880.8, rms=2.381 (33.619%)
- rms = 2.53, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=812892.0, rms=1.733 (27.197%)
- 019: dt: 0.2500, sse=780425.0, rms=1.356 (21.775%)
- 020: dt: 0.2500, sse=778685.9, rms=1.261 (6.995%)
- rms = 1.25, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=772219.4, rms=1.247 (1.074%)
- rms = 1.21, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=768464.9, rms=1.209 (3.063%)
- positioning took 0.7 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- deleting segment 0 with 1 points - only 0.00% unknown
- deleting segment 1 with 24 points - only 0.00% unknown
- deleting segment 2 with 7 points - only 0.00% unknown
- deleting segment 3 with 238 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 4 with 4 points - only 0.00% unknown
- deleting segment 5 with 5 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 6 with 4 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 7 with 4 points - only 0.00% unknown
- deleting segment 8 with 32 points - only 0.00% unknown
- mean border=84.9, 77 (11) missing vertices, mean dist -0.1 [0.3 (%57.3)->0.2 (%42.7))]
- %83 local maxima, %12 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-6.0.0/0051324/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=816337.9, rms=1.901
- 023: dt: 0.5000, sse=796910.4, rms=1.643 (13.592%)
- rms = 2.20, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=750738.9, rms=1.116 (32.094%)
- 025: dt: 0.2500, sse=743540.4, rms=1.005 (9.921%)
- 026: dt: 0.2500, sse=738475.2, rms=0.938 (6.636%)
- rms = 0.97, time step reduction 2 of 3 to 0.125...
- rms = 0.93, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=737076.1, rms=0.929 (0.934%)
- positioning took 0.7 minutes
- generating cortex label...
- 11 non-cortical segments detected
- only using segment with 7992 vertices
- erasing segment 0 (vno[0] = 46249)
- erasing segment 2 (vno[0] = 107978)
- erasing segment 3 (vno[0] = 108068)
- erasing segment 4 (vno[0] = 110104)
- erasing segment 5 (vno[0] = 112222)
- erasing segment 6 (vno[0] = 112231)
- erasing segment 7 (vno[0] = 112364)
- erasing segment 8 (vno[0] = 115245)
- erasing segment 9 (vno[0] = 115282)
- erasing segment 10 (vno[0] = 116306)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.area
- vertex spacing 0.89 +- 0.26 (0.04-->4.73) (max @ vno 101557 --> 101558)
- face area 0.34 +- 0.17 (0.00-->3.83)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 100 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 1 with 1 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 2 with 3 points - only 0.00% unknown
- deleting segment 3 with 9 points - only 0.00% unknown
- deleting segment 6 with 17 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=53.9, 147 (147) missing vertices, mean dist 1.9 [1.9 (%0.0)->2.6 (%100.0))]
- %18 local maxima, %52 large gradients and %25 min vals, 207 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=28637940.0, rms=31.593
- 001: dt: 0.0500, sse=25650282.0, rms=29.856 (5.498%)
- 002: dt: 0.0500, sse=23497976.0, rms=28.539 (4.411%)
- 003: dt: 0.0500, sse=21837056.0, rms=27.479 (3.713%)
- 004: dt: 0.0500, sse=20483896.0, rms=26.585 (3.255%)
- 005: dt: 0.0500, sse=19336370.0, rms=25.802 (2.945%)
- 006: dt: 0.0500, sse=18334426.0, rms=25.098 (2.727%)
- 007: dt: 0.0500, sse=17439728.0, rms=24.453 (2.572%)
- 008: dt: 0.0500, sse=16628032.0, rms=23.852 (2.457%)
- 009: dt: 0.0500, sse=15883978.0, rms=23.287 (2.366%)
- 010: dt: 0.0500, sse=15194701.0, rms=22.752 (2.299%)
- positioning took 1.0 minutes
- mean border=53.8, 91 (73) missing vertices, mean dist 1.5 [0.1 (%0.0)->2.1 (%100.0))]
- %19 local maxima, %52 large gradients and %24 min vals, 167 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=15974967.0, rms=23.358
- 011: dt: 0.0500, sse=15329518.0, rms=22.859 (2.137%)
- 012: dt: 0.0500, sse=14724765.0, rms=22.381 (2.091%)
- 013: dt: 0.0500, sse=14156735.0, rms=21.922 (2.048%)
- 014: dt: 0.0500, sse=13621805.0, rms=21.482 (2.010%)
- 015: dt: 0.0500, sse=13117411.0, rms=21.057 (1.974%)
- 016: dt: 0.0500, sse=12640947.0, rms=20.649 (1.941%)
- 017: dt: 0.0500, sse=12190649.0, rms=20.255 (1.907%)
- 018: dt: 0.0500, sse=11764831.0, rms=19.875 (1.875%)
- 019: dt: 0.0500, sse=11362423.0, rms=19.510 (1.840%)
- 020: dt: 0.0500, sse=10981515.0, rms=19.157 (1.808%)
- positioning took 1.0 minutes
- mean border=53.6, 87 (48) missing vertices, mean dist 1.3 [0.1 (%0.7)->1.7 (%99.3))]
- %19 local maxima, %52 large gradients and %24 min vals, 169 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=11088671.0, rms=19.262
- 021: dt: 0.0500, sse=10717077.0, rms=18.914 (1.809%)
- 022: dt: 0.0500, sse=10365581.0, rms=18.578 (1.775%)
- 023: dt: 0.0500, sse=10030284.0, rms=18.252 (1.755%)
- 024: dt: 0.0500, sse=9713869.0, rms=17.939 (1.716%)
- 025: dt: 0.0500, sse=9414959.0, rms=17.638 (1.678%)
- 026: dt: 0.0500, sse=9132225.0, rms=17.348 (1.642%)
- 027: dt: 0.0500, sse=8862265.0, rms=17.067 (1.621%)
- 028: dt: 0.0500, sse=8601715.0, rms=16.791 (1.617%)
- 029: dt: 0.0500, sse=8350480.0, rms=16.521 (1.611%)
- 030: dt: 0.0500, sse=8107653.5, rms=16.255 (1.609%)
- positioning took 1.0 minutes
- mean border=53.5, 116 (39) missing vertices, mean dist 1.0 [0.1 (%10.0)->1.5 (%90.0))]
- %19 local maxima, %53 large gradients and %23 min vals, 157 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=8223200.0, rms=16.382
- 031: dt: 0.5000, sse=6485563.0, rms=14.357 (12.360%)
- 032: dt: 0.5000, sse=5213587.5, rms=12.664 (11.793%)
- 033: dt: 0.5000, sse=4199066.5, rms=11.136 (12.068%)
- 034: dt: 0.5000, sse=3422180.0, rms=9.796 (12.032%)
- 035: dt: 0.5000, sse=2831317.0, rms=8.644 (11.761%)
- 036: dt: 0.5000, sse=2412470.5, rms=7.715 (10.746%)
- 037: dt: 0.5000, sse=2111428.5, rms=6.978 (9.555%)
- 038: dt: 0.5000, sse=1916874.6, rms=6.449 (7.583%)
- 039: dt: 0.5000, sse=1781308.4, rms=6.060 (6.023%)
- 040: dt: 0.5000, sse=1692581.0, rms=5.784 (4.562%)
- 041: dt: 0.5000, sse=1621655.4, rms=5.561 (3.852%)
- 042: dt: 0.5000, sse=1574315.5, rms=5.399 (2.909%)
- 043: dt: 0.5000, sse=1536143.6, rms=5.273 (2.344%)
- 044: dt: 0.5000, sse=1512039.1, rms=5.184 (1.679%)
- 045: dt: 0.5000, sse=1490343.4, rms=5.113 (1.379%)
- rms = 5.07, time step reduction 1 of 3 to 0.250...
- 046: dt: 0.5000, sse=1479116.1, rms=5.067 (0.896%)
- 047: dt: 0.2500, sse=1315965.2, rms=4.395 (13.256%)
- 048: dt: 0.2500, sse=1272331.8, rms=4.209 (4.227%)
- rms = 4.19, time step reduction 2 of 3 to 0.125...
- 049: dt: 0.2500, sse=1268414.5, rms=4.188 (0.505%)
- 050: dt: 0.1250, sse=1248211.2, rms=4.094 (2.237%)
- rms = 4.08, time step reduction 3 of 3 to 0.062...
- 051: dt: 0.1250, sse=1244590.6, rms=4.078 (0.400%)
- positioning took 2.7 minutes
- mean border=51.7, 1390 (20) missing vertices, mean dist 0.2 [0.2 (%42.5)->0.5 (%57.5))]
- %36 local maxima, %39 large gradients and %20 min vals, 125 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=1645797.6, rms=4.965
- 052: dt: 0.5000, sse=1487138.4, rms=4.356 (12.261%)
- rms = 4.39, time step reduction 1 of 3 to 0.250...
- 053: dt: 0.2500, sse=1348174.4, rms=3.711 (14.817%)
- 054: dt: 0.2500, sse=1290657.1, rms=3.414 (7.997%)
- 055: dt: 0.2500, sse=1270905.4, rms=3.306 (3.163%)
- rms = 3.26, time step reduction 2 of 3 to 0.125...
- 056: dt: 0.2500, sse=1262752.6, rms=3.264 (1.276%)
- 057: dt: 0.1250, sse=1243549.6, rms=3.147 (3.577%)
- rms = 3.13, time step reduction 3 of 3 to 0.062...
- 058: dt: 0.1250, sse=1239945.9, rms=3.128 (0.614%)
- positioning took 1.1 minutes
- mean border=50.5, 1543 (15) missing vertices, mean dist 0.1 [0.1 (%45.1)->0.4 (%54.9))]
- %48 local maxima, %27 large gradients and %19 min vals, 113 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=1340613.6, rms=3.655
- rms = 3.97, time step reduction 1 of 3 to 0.250...
- 059: dt: 0.2500, sse=1274872.1, rms=3.309 (9.475%)
- 060: dt: 0.2500, sse=1250284.4, rms=3.172 (4.151%)
- rms = 3.15, time step reduction 2 of 3 to 0.125...
- 061: dt: 0.2500, sse=1245320.0, rms=3.153 (0.577%)
- 062: dt: 0.1250, sse=1230488.9, rms=3.062 (2.895%)
- rms = 3.04, time step reduction 3 of 3 to 0.062...
- 063: dt: 0.1250, sse=1226835.4, rms=3.043 (0.628%)
- positioning took 0.9 minutes
- mean border=49.8, 3065 (15) missing vertices, mean dist 0.1 [0.2 (%47.3)->0.3 (%52.7))]
- %52 local maxima, %22 large gradients and %19 min vals, 132 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-6.0.0/0051324/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1257854.5, rms=3.209
- rms = 3.57, time step reduction 1 of 3 to 0.250...
- 064: dt: 0.2500, sse=1228517.6, rms=3.036 (5.403%)
- 065: dt: 0.2500, sse=1212560.9, rms=2.950 (2.808%)
- rms = 2.92, time step reduction 2 of 3 to 0.125...
- 066: dt: 0.2500, sse=1205760.8, rms=2.919 (1.069%)
- 067: dt: 0.1250, sse=1189340.5, rms=2.813 (3.640%)
- rms = 2.78, time step reduction 3 of 3 to 0.062...
- 068: dt: 0.1250, sse=1183697.2, rms=2.781 (1.126%)
- positioning took 0.9 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.area.pial
- vertex spacing 1.00 +- 0.44 (0.09-->8.56) (max @ vno 101636 --> 101610)
- face area 0.40 +- 0.31 (0.00-->6.93)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 147034 vertices processed
- 25000 of 147034 vertices processed
- 50000 of 147034 vertices processed
- 75000 of 147034 vertices processed
- 100000 of 147034 vertices processed
- 125000 of 147034 vertices processed
- 0 of 147034 vertices processed
- 25000 of 147034 vertices processed
- 50000 of 147034 vertices processed
- 75000 of 147034 vertices processed
- 100000 of 147034 vertices processed
- 125000 of 147034 vertices processed
- thickness calculation complete, 350:1109 truncations.
- 35800 vertices at 0 distance
- 107979 vertices at 1 distance
- 85908 vertices at 2 distance
- 34427 vertices at 3 distance
- 10805 vertices at 4 distance
- 3331 vertices at 5 distance
- 1120 vertices at 6 distance
- 413 vertices at 7 distance
- 182 vertices at 8 distance
- 71 vertices at 9 distance
- 63 vertices at 10 distance
- 31 vertices at 11 distance
- 29 vertices at 12 distance
- 7 vertices at 13 distance
- 5 vertices at 14 distance
- 3 vertices at 15 distance
- 1 vertices at 16 distance
- 4 vertices at 17 distance
- 7 vertices at 18 distance
- 2 vertices at 19 distance
- 2 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.thickness
- positioning took 16.1 minutes
- PIDs (22056 22059) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Sun Oct 8 00:46:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0051324 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/label/lh.cortex.label
- Total face volume 248467
- Total vertex volume 245112 (mask=0)
- #@# 0051324 lh 245112
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Sun Oct 8 00:46:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0051324 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/label/rh.cortex.label
- Total face volume 254085
- Total vertex volume 250426 (mask=0)
- #@# 0051324 rh 250426
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Sun Oct 8 00:46:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0051324
- 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 = 212
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/ribbon.mgz
- mris_volmask took 14.52 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Sun Oct 8 01:00:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0051324 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 0051324 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Sun Oct 8 01:00:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0051324 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 0051324 rh pial
- Waiting for PID 23589 of (23589 23592 23595 23598) to complete...
- Waiting for PID 23592 of (23589 23592 23595 23598) to complete...
- Waiting for PID 23595 of (23589 23592 23595 23598) to complete...
- Waiting for PID 23598 of (23589 23592 23595 23598) 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 0051324 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 248467
- Total vertex volume 245112 (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) = 1425500 mm^3 (det: 1.366612 )
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 1519 1041 2175 2.354 0.464 0.099 0.019 7 1.4 bankssts
- 853 587 1475 2.579 0.578 0.129 0.019 12 0.7 caudalanteriorcingulate
- 3199 2074 5034 2.363 0.512 0.118 0.033 30 4.3 caudalmiddlefrontal
- 2955 1833 3697 1.850 0.458 0.149 0.042 45 5.2 cuneus
- 572 425 1984 3.282 0.847 0.131 0.035 5 0.7 entorhinal
- 4430 3081 10315 2.640 0.651 0.150 0.047 73 9.5 fusiform
- 6711 4595 11716 2.262 0.515 0.130 0.033 85 8.9 inferiorparietal
- 4866 3467 11032 2.603 0.705 0.155 0.045 82 9.7 inferiortemporal
- 1901 1223 3084 2.231 0.875 0.140 0.042 36 2.8 isthmuscingulate
- 8264 5540 12100 2.004 0.554 0.138 0.036 114 12.0 lateraloccipital
- 4025 2704 7423 2.511 0.666 0.140 0.045 64 7.4 lateralorbitofrontal
- 4883 3169 7026 2.030 0.577 0.141 0.047 71 8.9 lingual
- 3211 2097 5428 2.359 0.684 0.124 0.041 46 5.7 medialorbitofrontal
- 4401 3115 10711 2.690 0.710 0.136 0.040 66 7.1 middletemporal
- 854 587 1860 2.597 0.783 0.119 0.032 8 1.0 parahippocampal
- 2560 1661 4087 2.332 0.582 0.124 0.045 25 4.8 paracentral
- 2641 1750 4995 2.578 0.537 0.124 0.035 27 3.7 parsopercularis
- 839 584 1858 2.422 0.515 0.153 0.046 13 1.6 parsorbitalis
- 2082 1433 3659 2.195 0.537 0.133 0.034 23 3.0 parstriangularis
- 2404 1666 2445 1.622 0.392 0.134 0.036 27 3.4 pericalcarine
- 7136 4491 9892 2.023 0.618 0.123 0.038 78 10.6 postcentral
- 2029 1352 3868 2.718 0.630 0.145 0.040 34 3.0 posteriorcingulate
- 8563 5398 13001 2.299 0.604 0.127 0.042 96 15.3 precentral
- 6567 4409 11309 2.357 0.613 0.129 0.035 72 8.9 precuneus
- 1327 887 2485 2.584 0.840 0.132 0.038 19 2.1 rostralanteriorcingulate
- 9792 6667 16308 2.199 0.523 0.145 0.041 139 16.6 rostralmiddlefrontal
- 11785 8097 24921 2.644 0.609 0.135 0.038 137 18.0 superiorfrontal
- 10176 6701 16227 2.165 0.486 0.125 0.029 118 11.5 superiorparietal
- 5929 3892 10967 2.461 0.635 0.108 0.029 56 7.1 superiortemporal
- 6898 4649 11919 2.329 0.555 0.135 0.036 88 10.3 supramarginal
- 316 232 857 2.414 0.543 0.177 0.076 7 1.1 frontalpole
- 713 553 2545 3.320 0.940 0.164 0.074 14 2.0 temporalpole
- 813 412 1169 2.481 0.482 0.100 0.036 8 1.1 transversetemporal
- 3968 2715 7515 2.760 0.826 0.131 0.049 51 7.4 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 0051324 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 248467
- Total vertex volume 245112 (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) = 1425500 mm^3 (det: 1.366612 )
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 1519 842 2175 2.354 0.464 0.092 0.025 16 1.6 bankssts
- 853 659 1475 2.579 0.578 0.131 0.027 12 0.9 caudalanteriorcingulate
- 3199 2211 5034 2.363 0.512 0.117 0.029 34 3.8 caudalmiddlefrontal
- 2955 2204 3697 1.850 0.458 0.141 0.038 37 4.9 cuneus
- 572 782 1984 3.282 0.847 0.198 0.050 9 1.2 entorhinal
- 4430 4490 10315 2.640 0.651 0.182 0.047 73 9.8 fusiform
- 6711 5579 11716 2.262 0.515 0.144 0.029 75 8.4 inferiorparietal
- 4866 4646 11032 2.603 0.705 0.178 0.049 82 10.4 inferiortemporal
- 1901 1498 3084 2.231 0.875 0.152 0.041 33 3.2 isthmuscingulate
- 8264 6543 12100 2.004 0.554 0.140 0.030 101 10.9 lateraloccipital
- 4025 3119 7423 2.511 0.666 0.155 0.041 74 7.4 lateralorbitofrontal
- 4883 3861 7026 2.030 0.577 0.147 0.038 70 8.4 lingual
- 3211 2488 5428 2.359 0.684 0.144 0.035 50 5.2 medialorbitofrontal
- 4401 4529 10711 2.690 0.710 0.164 0.037 48 6.9 middletemporal
- 854 821 1860 2.597 0.783 0.170 0.040 11 1.6 parahippocampal
- 2560 1869 4087 2.332 0.582 0.125 0.036 30 3.8 paracentral
- 2641 2068 4995 2.578 0.537 0.131 0.027 26 3.1 parsopercularis
- 839 891 1858 2.422 0.515 0.187 0.046 12 1.7 parsorbitalis
- 2082 1796 3659 2.195 0.537 0.158 0.033 26 3.0 parstriangularis
- 2404 1454 2445 1.622 0.392 0.122 0.030 31 3.2 pericalcarine
- 7136 5311 9892 2.023 0.618 0.121 0.026 59 8.2 postcentral
- 2029 1517 3868 2.718 0.630 0.149 0.053 69 3.2 posteriorcingulate
- 8563 5933 13001 2.299 0.604 0.118 0.039 171 16.6 precentral
- 6567 4973 11309 2.357 0.613 0.137 0.034 90 10.0 precuneus
- 1327 1119 2485 2.584 0.840 0.146 0.035 19 2.2 rostralanteriorcingulate
- 9792 8054 16308 2.199 0.523 0.157 0.038 130 17.5 rostralmiddlefrontal
- 11785 10293 24921 2.644 0.609 0.152 0.038 151 19.7 superiorfrontal
- 10176 7986 16227 2.165 0.486 0.133 0.027 117 11.4 superiorparietal
- 5929 4622 10967 2.461 0.635 0.120 0.025 56 6.4 superiortemporal
- 6898 5463 11919 2.329 0.555 0.138 0.033 81 9.9 supramarginal
- 316 478 857 2.414 0.543 0.263 0.056 4 0.9 frontalpole
- 713 998 2545 3.320 0.940 0.229 0.048 12 1.7 temporalpole
- 813 556 1169 2.481 0.482 0.093 0.018 4 0.6 transversetemporal
- 3968 2624 7515 2.760 0.826 0.124 0.034 55 5.6 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 0051324 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 254085
- Total vertex volume 250426 (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) = 1425500 mm^3 (det: 1.366612 )
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 1411 1010 2292 2.396 0.505 0.102 0.020 8 1.2 bankssts
- 1301 894 2436 2.303 0.809 0.152 0.035 27 1.9 caudalanteriorcingulate
- 3265 2162 5357 2.337 0.487 0.124 0.034 31 4.2 caudalmiddlefrontal
- 2803 1770 3670 1.849 0.490 0.131 0.034 37 3.9 cuneus
- 736 527 2889 3.981 0.629 0.134 0.042 8 1.3 entorhinal
- 3923 2718 9139 2.804 0.713 0.139 0.041 53 6.2 fusiform
- 7323 5101 13051 2.371 0.524 0.127 0.030 78 9.1 inferiorparietal
- 4647 3286 11062 2.753 0.702 0.147 0.044 73 8.7 inferiortemporal
- 1548 1004 2765 2.343 0.851 0.145 0.044 27 2.7 isthmuscingulate
- 7426 4841 11802 2.200 0.554 0.145 0.044 103 12.9 lateraloccipital
- 3759 2557 6914 2.454 0.634 0.152 0.055 74 9.1 lateralorbitofrontal
- 5253 3495 7728 2.051 0.582 0.149 0.048 79 10.7 lingual
- 2961 2008 5534 2.349 0.644 0.129 0.038 45 4.5 medialorbitofrontal
- 5165 3618 12210 2.799 0.645 0.135 0.036 70 8.0 middletemporal
- 872 592 2133 2.912 0.922 0.112 0.025 7 0.7 parahippocampal
- 3004 1945 4301 2.198 0.609 0.139 0.045 37 5.5 paracentral
- 2198 1466 3749 2.376 0.422 0.117 0.034 23 2.8 parsopercularis
- 1241 829 2794 2.607 0.671 0.165 0.050 27 2.6 parsorbitalis
- 2195 1539 3630 2.177 0.552 0.134 0.040 26 3.6 parstriangularis
- 2922 1884 3144 1.732 0.444 0.134 0.040 34 5.1 pericalcarine
- 7524 4709 10852 2.111 0.634 0.119 0.032 74 9.7 postcentral
- 2259 1495 4063 2.330 0.747 0.148 0.039 38 3.5 posteriorcingulate
- 8560 5400 13053 2.289 0.589 0.124 0.039 83 14.4 precentral
- 7024 4785 12439 2.470 0.623 0.133 0.035 83 9.6 precuneus
- 949 661 2090 2.811 0.602 0.153 0.045 22 1.9 rostralanteriorcingulate
- 8735 6087 16251 2.265 0.584 0.149 0.046 143 17.4 rostralmiddlefrontal
- 11347 7735 23754 2.638 0.618 0.137 0.040 134 18.6 superiorfrontal
- 9152 5931 14380 2.207 0.505 0.119 0.029 93 10.5 superiorparietal
- 6109 4077 12877 2.783 0.609 0.120 0.031 66 7.7 superiortemporal
- 6546 4295 11602 2.482 0.543 0.122 0.031 75 8.0 supramarginal
- 439 293 1084 2.675 0.593 0.178 0.056 11 1.0 frontalpole
- 560 426 1942 3.255 0.875 0.173 0.079 12 2.1 temporalpole
- 693 360 922 2.281 0.480 0.119 0.041 9 1.3 transversetemporal
- 4828 3202 8514 2.566 0.901 0.126 0.043 61 8.1 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 0051324 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 254085
- Total vertex volume 250426 (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) = 1425500 mm^3 (det: 1.366612 )
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 1411 858 2292 2.396 0.505 0.103 0.025 13 1.4 bankssts
- 1301 1151 2436 2.303 0.809 0.160 0.038 24 2.1 caudalanteriorcingulate
- 3265 2408 5357 2.337 0.487 0.127 0.030 42 4.3 caudalmiddlefrontal
- 2803 2234 3670 1.849 0.490 0.134 0.028 27 3.3 cuneus
- 736 865 2889 3.981 0.629 0.180 0.040 13 1.3 entorhinal
- 3923 3590 9139 2.804 0.713 0.154 0.040 50 7.0 fusiform
- 7323 5747 13051 2.371 0.524 0.131 0.026 75 8.5 inferiorparietal
- 4647 4436 11062 2.753 0.702 0.164 0.039 68 8.7 inferiortemporal
- 1548 1218 2765 2.343 0.851 0.153 0.039 30 2.7 isthmuscingulate
- 7426 5758 11802 2.200 0.554 0.141 0.036 113 11.4 lateraloccipital
- 3759 3045 6914 2.454 0.634 0.174 0.052 86 9.1 lateralorbitofrontal
- 5253 4025 7728 2.051 0.582 0.141 0.038 92 8.6 lingual
- 2961 2588 5534 2.349 0.644 0.156 0.037 47 5.0 medialorbitofrontal
- 5165 4923 12210 2.799 0.645 0.159 0.035 65 8.4 middletemporal
- 872 775 2133 2.912 0.922 0.152 0.041 16 1.4 parahippocampal
- 3004 1989 4301 2.198 0.609 0.122 0.041 53 6.3 paracentral
- 2198 1691 3749 2.376 0.422 0.131 0.034 28 3.6 parsopercularis
- 1241 1242 2794 2.607 0.671 0.174 0.038 15 2.0 parsorbitalis
- 2195 1759 3630 2.177 0.552 0.142 0.037 29 4.3 parstriangularis
- 2922 1820 3144 1.732 0.444 0.123 0.027 37 3.5 pericalcarine
- 7524 5604 10852 2.111 0.634 0.119 0.024 67 7.9 postcentral
- 2259 1796 4063 2.330 0.747 0.153 0.044 66 4.2 posteriorcingulate
- 8560 5950 13053 2.289 0.589 0.115 0.027 104 10.3 precentral
- 7024 5168 12439 2.470 0.623 0.133 0.032 92 9.8 precuneus
- 949 882 2090 2.811 0.602 0.163 0.037 15 1.5 rostralanteriorcingulate
- 8735 8014 16251 2.265 0.584 0.175 0.042 130 17.5 rostralmiddlefrontal
- 11347 9844 23754 2.638 0.618 0.158 0.041 192 20.4 superiorfrontal
- 9152 6920 14380 2.207 0.505 0.123 0.026 91 9.6 superiorparietal
- 6109 5025 12877 2.783 0.609 0.128 0.026 63 6.9 superiortemporal
- 6546 4860 11602 2.482 0.543 0.119 0.024 60 6.8 supramarginal
- 439 518 1084 2.675 0.593 0.219 0.047 6 1.0 frontalpole
- 560 740 1942 3.255 0.875 0.220 0.050 9 1.4 temporalpole
- 693 423 922 2.281 0.480 0.093 0.019 4 0.5 transversetemporal
- 4828 3024 8514 2.566 0.901 0.129 0.036 77 7.4 insula
- PIDs (23589 23592 23595 23598) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Sun Oct 8 01:02:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051324 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 01:02:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051324 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 23695 of (23695 23698) to complete...
- Waiting for PID 23698 of (23695 23698) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051324 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...
- 89 labels changed using aseg
- relabeling using gibbs priors...
- 000: 9522 changed, 147611 examined...
- 001: 2243 changed, 37104 examined...
- 002: 633 changed, 11802 examined...
- 003: 266 changed, 3565 examined...
- 004: 134 changed, 1541 examined...
- 005: 95 changed, 772 examined...
- 006: 31 changed, 503 examined...
- 007: 18 changed, 184 examined...
- 008: 8 changed, 103 examined...
- 009: 3 changed, 45 examined...
- 010: 0 changed, 19 examined...
- 48 labels changed using aseg
- 000: 256 total segments, 176 labels (2509 vertices) changed
- 001: 91 total segments, 11 labels (45 vertices) changed
- 002: 80 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 35 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1275 vertices marked for relabeling...
- 1275 labels changed in reclassification.
- writing output to ../label/lh.aparc.a2009s.annot...
- classification took 0 minutes and 20 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051324 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: 9142 changed, 147034 examined...
- 001: 2050 changed, 36312 examined...
- 002: 575 changed, 10924 examined...
- 003: 239 changed, 3310 examined...
- 004: 112 changed, 1344 examined...
- 005: 70 changed, 621 examined...
- 006: 31 changed, 357 examined...
- 007: 20 changed, 173 examined...
- 008: 6 changed, 106 examined...
- 009: 2 changed, 29 examined...
- 010: 2 changed, 15 examined...
- 011: 1 changed, 12 examined...
- 012: 0 changed, 7 examined...
- 1 labels changed using aseg
- 000: 254 total segments, 168 labels (1656 vertices) changed
- 001: 92 total segments, 6 labels (28 vertices) changed
- 002: 86 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 28 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1574 vertices marked for relabeling...
- 1574 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 20 seconds.
- PIDs (23695 23698) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Sun Oct 8 01:02:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0051324 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Sun Oct 8 01:02:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0051324 rh white
- Waiting for PID 23745 of (23745 23748) to complete...
- Waiting for PID 23748 of (23745 23748) 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 0051324 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 248467
- Total vertex volume 245112 (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) = 1425500 mm^3 (det: 1.366612 )
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 1284 875 2245 2.236 0.506 0.168 0.053 24 2.9 G&S_frontomargin
- 1745 1163 2985 2.317 0.663 0.149 0.042 25 2.9 G&S_occipital_inf
- 1933 1222 3129 2.161 0.633 0.136 0.050 23 3.9 G&S_paracentral
- 1784 1081 3152 2.493 0.509 0.124 0.045 22 2.8 G&S_subcentral
- 785 574 1629 2.119 0.557 0.183 0.070 19 2.4 G&S_transv_frontopol
- 2329 1606 4147 2.484 0.613 0.126 0.029 25 2.9 G&S_cingul-Ant
- 1180 858 2048 2.437 0.394 0.113 0.021 9 1.0 G&S_cingul-Mid-Ant
- 1492 1032 2858 2.728 0.489 0.121 0.034 16 1.9 G&S_cingul-Mid-Post
- 898 564 1936 2.722 0.687 0.162 0.053 19 1.6 G_cingul-Post-dorsal
- 383 250 987 2.696 0.900 0.152 0.070 10 0.9 G_cingul-Post-ventral
- 2692 1672 3415 1.780 0.476 0.152 0.046 47 4.9 G_cuneus
- 1608 1013 3388 2.686 0.575 0.130 0.043 21 2.6 G_front_inf-Opercular
- 602 380 1457 2.694 0.440 0.145 0.047 9 1.3 G_front_inf-Orbital
- 1219 848 2682 2.405 0.506 0.151 0.041 18 2.0 G_front_inf-Triangul
- 5549 3580 10500 2.350 0.545 0.144 0.044 89 10.1 G_front_middle
- 8612 5812 20152 2.758 0.626 0.146 0.046 122 15.8 G_front_sup
- 718 481 1491 2.731 0.690 0.162 0.069 17 2.0 G_Ins_lg&S_cent_ins
- 977 625 2735 3.375 0.837 0.139 0.066 16 2.2 G_insular_short
- 2265 1491 4606 2.274 0.576 0.153 0.044 45 4.0 G_occipital_middle
- 1761 1098 2725 2.063 0.484 0.137 0.041 24 2.9 G_occipital_sup
- 1950 1276 4824 2.838 0.594 0.155 0.054 36 4.3 G_oc-temp_lat-fusifor
- 3572 2276 5481 2.041 0.607 0.152 0.055 64 7.3 G_oc-temp_med-Lingual
- 1105 780 3325 3.057 0.812 0.123 0.032 10 1.3 G_oc-temp_med-Parahip
- 2107 1448 4727 2.397 0.683 0.152 0.059 48 4.9 G_orbital
- 2794 1902 6237 2.478 0.475 0.147 0.041 51 4.6 G_pariet_inf-Angular
- 3719 2518 7453 2.393 0.580 0.146 0.044 64 6.6 G_pariet_inf-Supramar
- 4059 2707 7336 2.250 0.497 0.133 0.030 58 4.7 G_parietal_sup
- 2651 1551 3975 2.089 0.591 0.125 0.039 33 4.3 G_postcentral
- 3522 2002 5764 2.340 0.623 0.133 0.054 53 8.2 G_precentral
- 3254 2181 7229 2.559 0.648 0.152 0.045 53 5.5 G_precuneus
- 1165 757 2501 2.457 0.736 0.158 0.060 26 3.4 G_rectus
- 789 459 1223 2.370 0.948 0.109 0.052 12 1.3 G_subcallosal
- 654 325 951 2.336 0.469 0.095 0.028 6 0.7 G_temp_sup-G_T_transv
- 1983 1248 5020 2.767 0.711 0.141 0.045 32 3.6 G_temp_sup-Lateral
- 965 679 2569 3.231 0.846 0.086 0.022 4 0.7 G_temp_sup-Plan_polar
- 883 605 1571 2.328 0.451 0.083 0.016 4 0.6 G_temp_sup-Plan_tempo
- 2605 1894 7183 2.706 0.740 0.172 0.056 59 6.7 G_temporal_inf
- 2356 1646 6678 2.863 0.621 0.146 0.046 45 4.4 G_temporal_middle
- 354 245 385 1.789 0.395 0.099 0.021 2 0.3 Lat_Fis-ant-Horizont
- 340 220 573 2.566 0.560 0.121 0.030 3 0.5 Lat_Fis-ant-Vertical
- 1354 885 1721 2.284 0.596 0.106 0.028 8 1.7 Lat_Fis-post
- 2111 1447 2896 1.806 0.457 0.143 0.034 35 3.1 Pole_occipital
- 1676 1325 5698 2.866 0.820 0.194 0.073 42 5.6 Pole_temporal
- 3122 2144 3434 1.797 0.540 0.130 0.033 30 4.4 S_calcarine
- 3439 2395 3672 1.814 0.577 0.124 0.032 27 4.9 S_central
- 1270 861 1865 2.428 0.580 0.116 0.025 9 1.3 S_cingul-Marginalis
- 437 308 800 2.659 0.693 0.102 0.023 2 0.4 S_circular_insula_ant
- 1415 945 1990 2.526 0.617 0.092 0.023 7 1.4 S_circular_insula_inf
- 1973 1369 2698 2.365 0.501 0.112 0.026 12 2.2 S_circular_insula_sup
- 907 636 1805 2.394 0.659 0.122 0.032 11 1.4 S_collat_transv_ant
- 676 458 669 1.811 0.462 0.150 0.045 8 1.2 S_collat_transv_post
- 3152 2148 4429 2.123 0.490 0.125 0.031 28 4.0 S_front_inf
- 1335 934 1853 2.057 0.494 0.126 0.025 13 1.4 S_front_middle
- 2605 1821 3921 2.373 0.440 0.105 0.023 14 2.6 S_front_sup
- 462 304 556 2.160 0.510 0.118 0.023 3 0.5 S_interm_prim-Jensen
- 3268 2231 4154 2.044 0.348 0.114 0.023 25 3.1 S_intrapariet&P_trans
- 1253 852 1383 1.844 0.334 0.104 0.022 6 1.2 S_oc_middle&Lunatus
- 1531 1019 1858 1.920 0.458 0.109 0.020 11 1.3 S_oc_sup&transversal
- 920 667 1429 2.272 0.534 0.129 0.027 10 1.1 S_occipital_ant
- 949 665 1852 2.624 0.553 0.117 0.027 7 1.0 S_oc-temp_lat
- 1671 1177 2371 2.246 0.486 0.113 0.024 10 1.8 S_oc-temp_med&Lingual
- 282 208 433 2.066 0.482 0.148 0.037 3 0.4 S_orbital_lateral
- 903 617 1076 2.137 0.516 0.109 0.017 7 0.7 S_orbital_med-olfact
- 1335 891 2324 2.685 0.691 0.139 0.038 15 2.1 S_orbital-H_Shaped
- 2387 1563 3023 2.084 0.512 0.109 0.027 17 2.6 S_parieto_occipital
- 1430 871 1261 2.017 0.876 0.139 0.030 29 1.6 S_pericallosal
- 3707 2445 4590 2.037 0.424 0.124 0.030 34 4.6 S_postcentral
- 1456 1020 2081 2.309 0.481 0.106 0.023 8 1.4 S_precentral-inf-part
- 1437 1012 1947 2.261 0.460 0.126 0.033 11 2.0 S_precentral-sup-part
- 745 508 1070 2.456 0.558 0.105 0.021 4 0.5 S_suborbital
- 1324 931 1912 2.330 0.495 0.124 0.030 11 1.6 S_subparietal
- 1584 1109 2380 2.415 0.622 0.121 0.028 11 1.9 S_temporal_inf
- 5834 3970 8211 2.242 0.538 0.109 0.027 43 6.4 S_temporal_sup
- 444 287 481 2.141 0.438 0.111 0.025 3 0.5 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 0051324 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 254085
- Total vertex volume 250426 (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) = 1425500 mm^3 (det: 1.366612 )
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 902 626 1715 2.378 0.666 0.160 0.053 16 2.1 G&S_frontomargin
- 1149 797 2135 2.462 0.545 0.159 0.051 18 2.2 G&S_occipital_inf
- 2007 1235 2973 2.123 0.612 0.145 0.047 28 3.8 G&S_paracentral
- 1883 1205 3398 2.497 0.510 0.131 0.033 22 2.6 G&S_subcentral
- 1321 940 2808 2.316 0.546 0.170 0.057 30 3.5 G&S_transv_frontopol
- 2805 1970 5432 2.474 0.618 0.135 0.039 40 4.7 G&S_cingul-Ant
- 1496 1037 2931 2.605 0.608 0.144 0.037 24 2.3 G&S_cingul-Mid-Ant
- 1706 1186 3211 2.557 0.575 0.136 0.038 20 2.7 G&S_cingul-Mid-Post
- 638 414 1614 2.794 0.611 0.158 0.043 12 1.1 G_cingul-Post-dorsal
- 375 235 1003 2.839 0.736 0.149 0.066 8 0.8 G_cingul-Post-ventral
- 2594 1623 3308 1.771 0.477 0.134 0.036 36 3.8 G_cuneus
- 1414 924 2841 2.441 0.428 0.125 0.041 20 2.2 G_front_inf-Opercular
- 390 256 915 2.650 0.473 0.149 0.050 6 0.7 G_front_inf-Orbital
- 1117 765 2158 2.275 0.567 0.153 0.047 19 2.2 G_front_inf-Triangul
- 4398 2937 9934 2.483 0.559 0.161 0.059 91 10.6 G_front_middle
- 7597 5031 18225 2.770 0.667 0.149 0.049 115 15.3 G_front_sup
- 693 491 1573 2.883 0.746 0.148 0.048 11 1.3 G_Ins_lg&S_cent_ins
- 874 568 2272 2.993 0.868 0.151 0.063 18 2.2 G_insular_short
- 2107 1362 4594 2.584 0.522 0.144 0.038 33 3.0 G_occipital_middle
- 1948 1176 2829 2.101 0.452 0.127 0.036 24 2.7 G_occipital_sup
- 1694 1116 4256 2.857 0.627 0.155 0.057 31 3.6 G_oc-temp_lat-fusifor
- 3388 2177 5359 2.078 0.624 0.159 0.055 59 8.1 G_oc-temp_med-Lingual
- 1629 1114 5093 3.509 0.946 0.138 0.044 24 2.8 G_oc-temp_med-Parahip
- 2773 1875 6702 2.646 0.653 0.169 0.064 73 7.7 G_orbital
- 3105 2088 6811 2.543 0.510 0.144 0.039 52 4.7 G_pariet_inf-Angular
- 3147 2053 6311 2.616 0.536 0.131 0.036 41 4.2 G_pariet_inf-Supramar
- 2691 1765 5597 2.405 0.501 0.139 0.040 40 4.1 G_parietal_sup
- 2755 1554 4149 2.155 0.579 0.117 0.038 31 4.0 G_postcentral
- 3262 1856 5843 2.439 0.644 0.128 0.050 41 7.0 G_precentral
- 3354 2217 7098 2.565 0.640 0.147 0.043 56 5.3 G_precuneus
- 949 611 2040 2.308 0.562 0.142 0.049 20 1.7 G_rectus
- 866 492 1279 2.079 1.422 0.105 0.046 14 1.3 G_subcallosal
- 493 245 771 2.280 0.584 0.108 0.045 7 1.0 G_temp_sup-G_T_transv
- 1990 1321 5466 3.038 0.621 0.137 0.037 29 3.0 G_temp_sup-Lateral
- 959 647 2256 2.876 0.843 0.128 0.056 14 2.3 G_temp_sup-Plan_polar
- 1011 673 1920 2.632 0.658 0.124 0.034 15 1.3 G_temp_sup-Plan_tempo
- 2530 1778 7034 2.848 0.746 0.160 0.052 49 5.5 G_temporal_inf
- 2765 1909 7997 3.008 0.591 0.143 0.043 51 4.8 G_temporal_middle
- 350 254 422 1.876 0.307 0.101 0.017 2 0.2 Lat_Fis-ant-Horizont
- 192 145 288 2.458 0.585 0.137 0.043 2 0.2 Lat_Fis-ant-Vertical
- 1564 1025 1892 2.204 0.431 0.113 0.028 13 1.9 Lat_Fis-post
- 3938 2492 5674 2.014 0.544 0.154 0.054 62 8.3 Pole_occipital
- 1798 1302 6154 3.174 0.786 0.158 0.058 34 4.7 Pole_temporal
- 2861 1970 3374 1.902 0.591 0.136 0.035 30 4.3 S_calcarine
- 3270 2267 3472 1.769 0.540 0.122 0.031 24 4.3 S_central
- 1530 1048 2226 2.322 0.531 0.108 0.025 10 1.5 S_cingul-Marginalis
- 618 416 875 2.411 0.509 0.113 0.040 4 1.0 S_circular_insula_ant
- 1247 853 1762 2.533 0.493 0.093 0.019 5 1.1 S_circular_insula_inf
- 1617 1114 2275 2.476 0.500 0.108 0.026 8 1.8 S_circular_insula_sup
- 1001 736 1649 2.386 0.428 0.092 0.013 4 0.6 S_collat_transv_ant
- 342 236 413 2.180 0.479 0.127 0.032 2 0.5 S_collat_transv_post
- 2395 1668 3691 2.187 0.504 0.125 0.027 23 2.5 S_front_inf
- 2190 1542 2993 2.058 0.446 0.117 0.024 16 2.4 S_front_middle
- 2670 1881 3928 2.275 0.421 0.118 0.027 19 2.7 S_front_sup
- 329 233 501 2.543 0.618 0.135 0.028 3 0.4 S_interm_prim-Jensen
- 3890 2627 4874 2.035 0.461 0.106 0.021 26 3.5 S_intrapariet&P_trans
- 912 639 1007 1.921 0.386 0.116 0.024 6 0.9 S_oc_middle&Lunatus
- 1474 1008 1929 2.142 0.448 0.111 0.022 9 1.4 S_oc_sup&transversal
- 577 389 857 2.210 0.459 0.122 0.028 6 0.7 S_occipital_ant
- 953 682 1826 2.799 0.520 0.149 0.036 12 1.5 S_oc-temp_lat
- 1834 1317 2644 2.335 0.569 0.115 0.028 13 2.1 S_oc-temp_med&Lingual
- 474 333 511 1.765 0.394 0.124 0.023 4 0.5 S_orbital_lateral
- 870 611 1127 2.311 0.646 0.100 0.017 5 0.6 S_orbital_med-olfact
- 1220 835 2019 2.455 0.586 0.150 0.046 18 2.4 S_orbital-H_Shaped
- 2808 1880 3834 2.258 0.606 0.117 0.027 22 3.1 S_parieto_occipital
- 1834 1142 1465 1.734 0.665 0.143 0.032 33 2.2 S_pericallosal
- 3580 2366 5118 2.265 0.485 0.112 0.026 26 3.6 S_postcentral
- 2071 1414 2661 2.155 0.497 0.107 0.024 12 2.0 S_precentral-inf-part
- 1454 1004 1836 2.182 0.472 0.124 0.030 10 2.0 S_precentral-sup-part
- 398 292 542 2.204 0.560 0.132 0.024 4 0.4 S_suborbital
- 1251 886 1934 2.441 0.497 0.111 0.028 7 1.3 S_subparietal
- 1470 1032 2176 2.549 0.539 0.142 0.032 14 2.4 S_temporal_inf
- 6518 4514 10057 2.423 0.508 0.107 0.023 40 6.5 S_temporal_sup
- 403 275 568 2.492 0.386 0.122 0.020 3 0.4 S_temporal_transverse
- PIDs (23745 23748) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Sun Oct 8 01:03:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051324 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 01:03:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051324 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 23815 of (23815 23818) to complete...
- Waiting for PID 23818 of (23815 23818) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051324 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...
- 1228 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2146 changed, 147611 examined...
- 001: 503 changed, 9705 examined...
- 002: 123 changed, 2827 examined...
- 003: 63 changed, 739 examined...
- 004: 24 changed, 354 examined...
- 005: 16 changed, 126 examined...
- 006: 16 changed, 92 examined...
- 007: 9 changed, 71 examined...
- 008: 6 changed, 58 examined...
- 009: 4 changed, 37 examined...
- 010: 4 changed, 24 examined...
- 011: 3 changed, 16 examined...
- 012: 4 changed, 16 examined...
- 013: 2 changed, 23 examined...
- 014: 0 changed, 10 examined...
- 229 labels changed using aseg
- 000: 57 total segments, 24 labels (453 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 1 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 794 vertices marked for relabeling...
- 794 labels changed in reclassification.
- writing output to ../label/lh.aparc.DKTatlas.annot...
- classification took 0 minutes and 16 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051324 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...
- 1172 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2189 changed, 147034 examined...
- 001: 486 changed, 10062 examined...
- 002: 126 changed, 2726 examined...
- 003: 52 changed, 710 examined...
- 004: 26 changed, 288 examined...
- 005: 12 changed, 132 examined...
- 006: 6 changed, 69 examined...
- 007: 1 changed, 38 examined...
- 008: 1 changed, 7 examined...
- 009: 1 changed, 7 examined...
- 010: 0 changed, 7 examined...
- 191 labels changed using aseg
- 000: 55 total segments, 22 labels (256 vertices) changed
- 001: 34 total segments, 1 labels (1 vertices) changed
- 002: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 7 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1300 vertices marked for relabeling...
- 1300 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 16 seconds.
- PIDs (23815 23818) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Sun Oct 8 01:03:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0051324 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Sun Oct 8 01:03:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0051324 rh white
- Waiting for PID 23865 of (23865 23868) to complete...
- Waiting for PID 23868 of (23865 23868) 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 0051324 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 248467
- Total vertex volume 245112 (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) = 1425500 mm^3 (det: 1.366612 )
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 1872 1290 3320 2.535 0.527 0.121 0.021 22 1.6 caudalanteriorcingulate
- 3397 2204 5328 2.363 0.510 0.118 0.033 32 4.5 caudalmiddlefrontal
- 3803 2397 4977 1.901 0.482 0.145 0.041 55 6.4 cuneus
- 593 435 1977 3.286 0.871 0.133 0.037 5 0.8 entorhinal
- 4061 2780 8718 2.596 0.639 0.142 0.042 58 7.3 fusiform
- 6860 4707 12010 2.250 0.509 0.129 0.032 86 9.1 inferiorparietal
- 4864 3490 11571 2.601 0.721 0.158 0.048 87 11.1 inferiortemporal
- 1876 1210 3057 2.242 0.877 0.140 0.041 34 2.9 isthmuscingulate
- 8222 5489 12207 2.021 0.563 0.137 0.035 113 11.4 lateraloccipital
- 4260 2891 8090 2.503 0.682 0.146 0.048 74 8.2 lateralorbitofrontal
- 5064 3281 7209 2.020 0.574 0.142 0.048 75 9.5 lingual
- 2786 1799 4906 2.354 0.710 0.124 0.044 42 5.3 medialorbitofrontal
- 5903 4161 13474 2.657 0.683 0.135 0.038 83 9.1 middletemporal
- 886 614 1962 2.605 0.782 0.117 0.031 8 1.0 parahippocampal
- 2974 1947 5090 2.424 0.607 0.123 0.042 28 5.2 paracentral
- 2417 1592 4572 2.600 0.530 0.126 0.036 27 3.4 parsopercularis
- 1014 686 2133 2.499 0.536 0.124 0.034 9 1.5 parsorbitalis
- 2738 1875 4646 2.180 0.538 0.135 0.036 31 4.0 parstriangularis
- 2410 1674 2467 1.629 0.400 0.133 0.036 27 3.4 pericalcarine
- 8118 5184 11349 2.038 0.613 0.126 0.037 89 12.2 postcentral
- 2186 1459 4031 2.683 0.634 0.144 0.040 36 3.2 posteriorcingulate
- 8558 5388 12997 2.300 0.602 0.126 0.043 96 15.3 precentral
- 6466 4330 11386 2.368 0.617 0.131 0.036 76 9.1 precuneus
- 2013 1342 3721 2.583 0.726 0.131 0.031 26 2.6 rostralanteriorcingulate
- 7199 4858 11948 2.206 0.505 0.143 0.040 99 11.9 rostralmiddlefrontal
- 12146 8382 25238 2.564 0.637 0.141 0.042 159 21.1 superiorfrontal
- 8424 5544 13340 2.172 0.465 0.123 0.027 94 9.1 superiorparietal
- 7649 5166 14983 2.528 0.707 0.114 0.033 78 10.2 superiortemporal
- 6273 4226 10832 2.330 0.560 0.137 0.037 84 9.5 supramarginal
- 815 410 1164 2.480 0.480 0.099 0.036 8 1.1 transversetemporal
- 3190 2156 6409 2.811 0.828 0.124 0.046 38 5.6 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 0051324 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 254085
- Total vertex volume 250426 (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) = 1425500 mm^3 (det: 1.366612 )
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 1417 971 2605 2.287 0.811 0.151 0.034 29 2.1 caudalanteriorcingulate
- 3473 2294 5576 2.325 0.494 0.125 0.035 33 4.6 caudalmiddlefrontal
- 3417 2201 4416 1.843 0.473 0.132 0.034 43 4.7 cuneus
- 622 444 2274 3.933 0.631 0.124 0.034 5 0.8 entorhinal
- 3544 2465 8003 2.778 0.686 0.140 0.042 48 5.8 fusiform
- 7292 5056 13004 2.381 0.528 0.126 0.029 78 8.7 inferiorparietal
- 4979 3521 11994 2.766 0.733 0.146 0.044 77 9.1 inferiortemporal
- 1532 1000 2728 2.344 0.840 0.145 0.044 26 2.6 isthmuscingulate
- 7455 4852 11773 2.194 0.551 0.145 0.044 104 12.6 lateraloccipital
- 4527 3069 8810 2.537 0.663 0.160 0.060 96 12.0 lateralorbitofrontal
- 5161 3451 7617 2.053 0.586 0.148 0.046 73 9.7 lingual
- 2549 1630 4429 2.160 0.922 0.123 0.039 42 3.6 medialorbitofrontal
- 6225 4371 14265 2.756 0.644 0.132 0.034 80 9.2 middletemporal
- 981 662 2349 2.881 0.972 0.122 0.040 13 1.8 parahippocampal
- 3144 2037 4581 2.227 0.625 0.139 0.046 38 5.8 paracentral
- 2456 1643 4254 2.373 0.437 0.121 0.034 28 3.1 parsopercularis
- 990 660 2033 2.474 0.601 0.155 0.057 20 2.5 parsorbitalis
- 2221 1558 3792 2.190 0.562 0.136 0.038 27 3.3 parstriangularis
- 2829 1816 3023 1.739 0.449 0.134 0.040 33 4.9 pericalcarine
- 8370 5279 12327 2.138 0.639 0.118 0.031 80 10.5 postcentral
- 2260 1494 4048 2.344 0.738 0.146 0.039 36 3.5 posteriorcingulate
- 8180 5185 12659 2.291 0.586 0.123 0.039 80 13.6 precentral
- 7268 4869 12863 2.458 0.621 0.132 0.036 88 10.1 precuneus
- 1240 863 2568 2.732 0.660 0.143 0.044 26 2.3 rostralanteriorcingulate
- 6141 4282 11041 2.219 0.589 0.145 0.043 94 11.6 rostralmiddlefrontal
- 14525 9926 29798 2.571 0.620 0.140 0.042 187 25.1 superiorfrontal
- 7630 4967 12073 2.212 0.491 0.119 0.029 78 8.9 superiorparietal
- 7756 5266 16753 2.779 0.661 0.123 0.035 89 11.3 superiortemporal
- 6103 3999 10875 2.497 0.544 0.124 0.032 71 7.8 supramarginal
- 677 350 907 2.246 0.484 0.115 0.041 9 1.3 transversetemporal
- 3714 2520 6987 2.699 0.686 0.126 0.039 41 5.7 insula
- PIDs (23865 23868) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Sun Oct 8 01:04:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- pctsurfcon --s 0051324 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Sun Oct 8 01:04:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts
- pctsurfcon --s 0051324 --rh-only
- Waiting for PID 23933 of (23933 23943) to complete...
- Waiting for PID 23943 of (23933 23943) to complete...
- pctsurfcon --s 0051324 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts/pctsurfcon.log
- Sun Oct 8 01:04:24 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-6.0.0/0051324/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-900 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-6.0.0/0051324/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/tmp.pctsurfcon.23933/lh.wm.mgh --regheader 0051324 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 -0.00001;
- 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-6.0.0/0051324/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 = 79944
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/tmp.pctsurfcon.23933/lh.wm.mgh
- Dim: 147611 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/tmp.pctsurfcon.23933/lh.gm.mgh --projfrac 0.3 --regheader 0051324 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 -0.00001;
- 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-6.0.0/0051324/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 = 95750
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/tmp.pctsurfcon.23933/lh.gm.mgh
- Dim: 147611 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/tmp.pctsurfcon.23933/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/tmp.pctsurfcon.23933/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.w-g.pct.mgh --annot 0051324 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/surf/lh.w-g.pct.mgh --annot 0051324 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-900
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/surf/lh.w-g.pct.mgh
- Vertex Area is 0.667612 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 0051324 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/scripts/pctsurfcon.log
- Sun Oct 8 01:04:24 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-6.0.0/0051324/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-900 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-6.0.0/0051324/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/tmp.pctsurfcon.23943/rh.wm.mgh --regheader 0051324 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 -0.00001;
- 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-6.0.0/0051324/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 = 79606
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/tmp.pctsurfcon.23943/rh.wm.mgh
- Dim: 147034 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/tmp.pctsurfcon.23943/rh.gm.mgh --projfrac 0.3 --regheader 0051324 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 -0.00001;
- 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-6.0.0/0051324/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 = 95550
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/tmp.pctsurfcon.23943/rh.gm.mgh
- Dim: 147034 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/tmp.pctsurfcon.23943/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/tmp.pctsurfcon.23943/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.w-g.pct.mgh --annot 0051324 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/surf/rh.w-g.pct.mgh --annot 0051324 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-900
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/surf/rh.w-g.pct.mgh
- Vertex Area is 0.667861 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 (23933 23943) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Sun Oct 8 01:04:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 3016 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 3600 voxels changed to hypointensity...
- 6630 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Sun Oct 8 01:04:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324
- mri_aparc2aseg --s 0051324 --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 01:04:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324
- mri_aparc2aseg --s 0051324 --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 01:04:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324
- mri_aparc2aseg --s 0051324 --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 24109 of (24109 24112 24115) to complete...
- Waiting for PID 24112 of (24109 24112 24115) to complete...
- Waiting for PID 24115 of (24109 24112 24115) to complete...
- mri_aparc2aseg --s 0051324 --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 0051324
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/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-6.0.0/0051324/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 6.97
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 109
- rescaling Left_Cerebral_Cortex from 61 --> 60
- rescaling Left_Lateral_Ventricle from 13 --> 14
- rescaling Left_Inf_Lat_Vent from 34 --> 30
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 58
- rescaling Left_Thalamus from 94 --> 106
- rescaling Left_Thalamus_Proper from 84 --> 93
- rescaling Left_Caudate from 75 --> 71
- rescaling Left_Putamen from 80 --> 78
- rescaling Left_Pallidum from 98 --> 102
- rescaling Third_Ventricle from 25 --> 19
- rescaling Fourth_Ventricle from 22 --> 15
- rescaling Brain_Stem from 81 --> 86
- rescaling Left_Hippocampus from 57 --> 64
- rescaling Left_Amygdala from 56 --> 67
- rescaling CSF from 32 --> 32
- rescaling Left_Accumbens_area from 62 --> 64
- rescaling Left_VentralDC from 87 --> 95
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- rescaling Right_Cerebral_Cortex from 58 --> 68
- rescaling Right_Lateral_Ventricle from 13 --> 13
- rescaling Right_Inf_Lat_Vent from 25 --> 26
- rescaling Right_Cerebellum_White_Matter from 87 --> 86
- rescaling Right_Cerebellum_Cortex from 59 --> 61
- rescaling Right_Thalamus_Proper from 85 --> 86
- rescaling Right_Caudate from 62 --> 74
- rescaling Right_Putamen from 80 --> 80
- rescaling Right_Pallidum from 97 --> 100
- rescaling Right_Hippocampus from 53 --> 63
- rescaling Right_Amygdala from 55 --> 66
- rescaling Right_Accumbens_area from 65 --> 72
- rescaling Right_VentralDC from 86 --> 100
- rescaling Fifth_Ventricle from 40 --> 29
- rescaling WM_hypointensities from 78 --> 79
- rescaling non_WM_hypointensities from 40 --> 45
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 492112
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 135 changed.
- pass 2: 9 changed.
- pass 3: 2 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0051324 --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 0051324
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/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-6.0.0/0051324/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 6.97
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 109
- rescaling Left_Cerebral_Cortex from 61 --> 60
- rescaling Left_Lateral_Ventricle from 13 --> 14
- rescaling Left_Inf_Lat_Vent from 34 --> 30
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 58
- rescaling Left_Thalamus from 94 --> 106
- rescaling Left_Thalamus_Proper from 84 --> 93
- rescaling Left_Caudate from 75 --> 71
- rescaling Left_Putamen from 80 --> 78
- rescaling Left_Pallidum from 98 --> 102
- rescaling Third_Ventricle from 25 --> 19
- rescaling Fourth_Ventricle from 22 --> 15
- rescaling Brain_Stem from 81 --> 86
- rescaling Left_Hippocampus from 57 --> 64
- rescaling Left_Amygdala from 56 --> 67
- rescaling CSF from 32 --> 32
- rescaling Left_Accumbens_area from 62 --> 64
- rescaling Left_VentralDC from 87 --> 95
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- rescaling Right_Cerebral_Cortex from 58 --> 68
- rescaling Right_Lateral_Ventricle from 13 --> 13
- rescaling Right_Inf_Lat_Vent from 25 --> 26
- rescaling Right_Cerebellum_White_Matter from 87 --> 86
- rescaling Right_Cerebellum_Cortex from 59 --> 61
- rescaling Right_Thalamus_Proper from 85 --> 86
- rescaling Right_Caudate from 62 --> 74
- rescaling Right_Putamen from 80 --> 80
- rescaling Right_Pallidum from 97 --> 100
- rescaling Right_Hippocampus from 53 --> 63
- rescaling Right_Amygdala from 55 --> 66
- rescaling Right_Accumbens_area from 65 --> 72
- rescaling Right_VentralDC from 86 --> 100
- rescaling Fifth_Ventricle from 40 --> 29
- rescaling WM_hypointensities from 78 --> 79
- rescaling non_WM_hypointensities from 40 --> 45
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 491899
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 135 changed.
- pass 2: 9 changed.
- pass 3: 2 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0051324 --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 0051324
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/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-6.0.0/0051324/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 6.97
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 109
- rescaling Left_Cerebral_Cortex from 61 --> 60
- rescaling Left_Lateral_Ventricle from 13 --> 14
- rescaling Left_Inf_Lat_Vent from 34 --> 30
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 58
- rescaling Left_Thalamus from 94 --> 106
- rescaling Left_Thalamus_Proper from 84 --> 93
- rescaling Left_Caudate from 75 --> 71
- rescaling Left_Putamen from 80 --> 78
- rescaling Left_Pallidum from 98 --> 102
- rescaling Third_Ventricle from 25 --> 19
- rescaling Fourth_Ventricle from 22 --> 15
- rescaling Brain_Stem from 81 --> 86
- rescaling Left_Hippocampus from 57 --> 64
- rescaling Left_Amygdala from 56 --> 67
- rescaling CSF from 32 --> 32
- rescaling Left_Accumbens_area from 62 --> 64
- rescaling Left_VentralDC from 87 --> 95
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- rescaling Right_Cerebral_Cortex from 58 --> 68
- rescaling Right_Lateral_Ventricle from 13 --> 13
- rescaling Right_Inf_Lat_Vent from 25 --> 26
- rescaling Right_Cerebellum_White_Matter from 87 --> 86
- rescaling Right_Cerebellum_Cortex from 59 --> 61
- rescaling Right_Thalamus_Proper from 85 --> 86
- rescaling Right_Caudate from 62 --> 74
- rescaling Right_Putamen from 80 --> 80
- rescaling Right_Pallidum from 97 --> 100
- rescaling Right_Hippocampus from 53 --> 63
- rescaling Right_Amygdala from 55 --> 66
- rescaling Right_Accumbens_area from 65 --> 72
- rescaling Right_VentralDC from 86 --> 100
- rescaling Fifth_Ventricle from 40 --> 29
- rescaling WM_hypointensities from 78 --> 79
- rescaling non_WM_hypointensities from 40 --> 45
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 491899
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 135 changed.
- pass 2: 9 changed.
- pass 3: 2 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (24109 24112 24115) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Sun Oct 8 01:12:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Sun Oct 8 01:12:10 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-6.0.0/0051324/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-900 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-6.0.0/0051324/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-900
- 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 01:12:10 CEST 2017
- Ended at Sun Oct 8 01:12:17 CEST 2017
- Apas2aseg-Run-Time-Sec 7
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Sun Oct 8 01:12:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324
- 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 0051324
- $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 0051324
- sysname Linux
- hostname tars-900
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1425500 mm^3 (det: 1.366612 )
- Computing euler number
- orig.nofix lheno = -144, rheno = -100
- orig.nofix lhholes = 73, rhholes = 51
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 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 01:14:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324
- mri_aparc2aseg --s 0051324 --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 0051324
- 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-6.0.0/0051324/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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-6.0.0/0051324/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 8429 vertices from left hemi
- Ripped 8356 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-6.0.0/0051324/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 = 961590
- Used brute-force search on 164 voxels
- Fixing Parahip LH WM
- Found 5 clusters
- 0 k 1.000000
- 1 k 1.000000
- 2 k 10.000000
- 3 k 5.000000
- 4 k 1316.000000
- Fixing Parahip RH WM
- Found 2 clusters
- 0 k 1362.000000
- 1 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 0051324 --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 0051324 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-900
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1425500 mm^3 (det: 1.366612 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 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-6.0.0/0051324/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Sun Oct 8 01:23:29 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 0051324 --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 0051324 --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 0051324 --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 0051324 --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 0051324 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 25392 of (25392 25398 25404 25409 25416) to complete...
- Waiting for PID 25398 of (25392 25398 25404 25409 25416) to complete...
- Waiting for PID 25404 of (25392 25398 25404 25409 25416) to complete...
- Waiting for PID 25409 of (25392 25398 25404 25409 25416) to complete...
- Waiting for PID 25416 of (25392 25398 25404 25409 25416) 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 507
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 4636
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 1030
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 8939
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 216
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4293
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 447
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 6430
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 1100
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 6884
- mri_label2label: Done
- PIDs (25392 25398 25404 25409 25416) 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 0051324 --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 0051324 --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 0051324 --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 0051324 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 25528 of (25528 25534 25540 25545) to complete...
- Waiting for PID 25534 of (25528 25534 25540 25545) to complete...
- Waiting for PID 25540 of (25528 25534 25540 25545) to complete...
- Waiting for PID 25545 of (25528 25534 25540 25545) 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 572
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4642
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 1967
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 15556
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 430
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 4611
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 976
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 4398
- mri_label2label: Done
- PIDs (25528 25534 25540 25545) 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 0051324 --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 0051324 --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 0051324 --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 0051324 --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 0051324 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 25588 of (25588 25594 25600 25605 25611) to complete...
- Waiting for PID 25594 of (25588 25594 25600 25605 25611) to complete...
- Waiting for PID 25600 of (25588 25594 25600 25605 25611) to complete...
- Waiting for PID 25605 of (25588 25594 25600 25605 25611) to complete...
- Waiting for PID 25611 of (25588 25594 25600 25605 25611) 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 1993
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 6634
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 3787
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 11901
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 430
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 2448
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 62
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1352
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 76
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1275
- mri_label2label: Done
- PIDs (25588 25594 25600 25605 25611) 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 0051324 --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 0051324 --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 0051324 --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 0051324 --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 0051324 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 25660 of (25660 25666 25672 25677 25684) to complete...
- Waiting for PID 25666 of (25660 25666 25672 25677 25684) to complete...
- Waiting for PID 25672 of (25660 25666 25672 25677 25684) to complete...
- Waiting for PID 25677 of (25660 25666 25672 25677 25684) to complete...
- Waiting for PID 25684 of (25660 25666 25672 25677 25684) 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 125
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.thresh.label 1139
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 372
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 2464
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 60
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1564
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 141
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2137
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 478
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 2797
- mri_label2label: Done
- PIDs (25660 25666 25672 25677 25684) 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 0051324 --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 0051324 --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 0051324 --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 0051324 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 25749 of (25749 25755 25761 25765) to complete...
- Waiting for PID 25755 of (25749 25755 25761 25765) to complete...
- Waiting for PID 25761 of (25749 25755 25761 25765) to complete...
- Waiting for PID 25765 of (25749 25755 25761 25765) 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 162
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1711
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 1030
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 8065
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 167
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 2079
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 403
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1554
- mri_label2label: Done
- PIDs (25749 25755 25761 25765) 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 0051324 --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 0051324 --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 0051324 --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 0051324 --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 0051324 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 25859 of (25859 25865 25871 25877 25883) to complete...
- Waiting for PID 25865 of (25859 25865 25871 25877 25883) to complete...
- Waiting for PID 25871 of (25859 25865 25871 25877 25883) to complete...
- Waiting for PID 25877 of (25859 25865 25871 25877 25883) to complete...
- Waiting for PID 25883 of (25859 25865 25871 25877 25883) 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 1461
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 4866
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 1743
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 5077
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 138
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 651
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 25
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 495
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147611
- Number of reverse mapping hits = 22
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 472
- mri_label2label: Done
- PIDs (25859 25865 25871 25877 25883) completed and logs appended.
- mris_label2annot --s 0051324 --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-6.0.0/0051324/label
- cmdline mris_label2annot --s 0051324 --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-900
- machine x86_64
- user ntraut
- subject 0051324
- 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-6.0.0/0051324/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 101131 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/label/lh.BA_exvivo.annot
- mris_label2annot --s 0051324 --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-6.0.0/0051324/label
- cmdline mris_label2annot --s 0051324 --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-900
- machine x86_64
- user ntraut
- subject 0051324
- 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-6.0.0/0051324/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 119472 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0051324 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 248467
- Total vertex volume 245112 (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) = 1425500 mm^3 (det: 1.366612 )
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 1206 698 1994 2.237 0.551 0.146 0.049 20 2.6 BA1_exvivo
- 4924 3118 7038 2.134 0.502 0.121 0.030 49 6.0 BA2_exvivo
- 1144 800 1089 1.706 0.404 0.149 0.041 13 1.9 BA3a_exvivo
- 2511 1661 3258 1.753 0.564 0.121 0.032 24 3.3 BA3b_exvivo
- 2235 1343 3487 2.328 0.641 0.135 0.054 27 5.3 BA4a_exvivo
- 1553 1055 1944 2.062 0.660 0.127 0.042 15 3.1 BA4p_exvivo
- 10382 6797 20664 2.579 0.615 0.133 0.042 125 17.5 BA6_exvivo
- 2295 1489 4183 2.516 0.540 0.122 0.036 24 3.2 BA44_exvivo
- 3418 2353 6199 2.296 0.567 0.141 0.038 44 5.2 BA45_exvivo
- 4222 2874 5052 1.702 0.472 0.136 0.040 54 6.7 V1_exvivo
- 9413 6054 12639 1.927 0.514 0.144 0.042 139 15.7 V2_exvivo
- 2019 1397 3863 2.402 0.581 0.143 0.036 29 2.9 MT_exvivo
- 530 369 1848 3.349 0.754 0.121 0.030 5 0.7 perirhinal_exvivo
- 628 460 1603 2.764 0.780 0.154 0.053 11 1.5 entorhinal_exvivo
- mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 0051324 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 248467
- Total vertex volume 245112 (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) = 1425500 mm^3 (det: 1.366612 )
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 811 434 1194 2.124 0.552 0.151 0.050 15 1.9 BA1_exvivo
- 1991 1238 2631 2.069 0.520 0.115 0.030 18 2.4 BA2_exvivo
- 933 654 849 1.674 0.402 0.156 0.044 12 1.7 BA3a_exvivo
- 1477 1030 1497 1.442 0.274 0.113 0.027 11 1.7 BA3b_exvivo
- 2175 1320 3248 2.295 0.654 0.130 0.051 25 4.8 BA4a_exvivo
- 1218 857 1515 2.018 0.666 0.130 0.039 11 2.1 BA4p_exvivo
- 6151 3940 12483 2.620 0.635 0.136 0.046 78 11.9 BA6_exvivo
- 1448 938 2744 2.508 0.534 0.133 0.042 19 2.4 BA44_exvivo
- 1426 976 2895 2.426 0.531 0.145 0.039 19 2.1 BA45_exvivo
- 4504 3037 5525 1.718 0.480 0.141 0.042 63 7.6 V1_exvivo
- 4822 3100 5992 1.827 0.488 0.146 0.041 71 8.0 V2_exvivo
- 570 393 999 2.296 0.529 0.138 0.033 7 0.8 MT_exvivo
- 281 192 1079 3.547 0.714 0.109 0.024 2 0.3 perirhinal_exvivo
- 332 239 617 2.591 0.649 0.113 0.031 2 0.4 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Sun Oct 8 01:26:50 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 0051324 --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 0051324 --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 0051324 --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 0051324 --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 0051324 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 26084 of (26084 26090 26096 26101 26108) to complete...
- Waiting for PID 26090 of (26084 26090 26096 26101 26108) to complete...
- Waiting for PID 26096 of (26084 26090 26096 26101 26108) to complete...
- Waiting for PID 26101 of (26084 26090 26096 26101 26108) to complete...
- Waiting for PID 26108 of (26084 26090 26096 26101 26108) 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 545
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 4507
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 866
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 7553
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 228
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4208
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 425
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 4947
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 890
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 6637
- mri_label2label: Done
- PIDs (26084 26090 26096 26101 26108) 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 0051324 --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 0051324 --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 0051324 --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 0051324 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 26214 of (26214 26220 26226 26232) to complete...
- Waiting for PID 26220 of (26214 26220 26226 26232) to complete...
- Waiting for PID 26226 of (26214 26220 26226 26232) to complete...
- Waiting for PID 26232 of (26214 26220 26226 26232) 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 357
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 4830
- mri_label2label: Done
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA6_exvivo.label --trgsubject 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 1772
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 14028
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 1144
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 8056
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 983
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 6338
- mri_label2label: Done
- PIDs (26214 26220 26226 26232) 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 0051324 --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 0051324 --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 0051324 --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 0051324 --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 0051324 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 26276 of (26276 26282 26288 26294 26299) to complete...
- Waiting for PID 26282 of (26276 26282 26288 26294 26299) to complete...
- Waiting for PID 26288 of (26276 26282 26288 26294 26299) to complete...
- Waiting for PID 26294 of (26276 26282 26288 26294 26299) to complete...
- Waiting for PID 26299 of (26276 26282 26288 26294 26299) 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 2363
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 7090
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 3520
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 11536
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 302
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.label 2234
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 194
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1232
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 162
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 914
- mri_label2label: Done
- PIDs (26276 26282 26288 26294 26299) 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 0051324 --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 0051324 --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 0051324 --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 0051324 --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 0051324 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 26508 of (26508 26514 26520 26526 26531) to complete...
- Waiting for PID 26514 of (26508 26514 26520 26526 26531) to complete...
- Waiting for PID 26520 of (26508 26514 26520 26526 26531) to complete...
- Waiting for PID 26526 of (26508 26514 26520 26526 26531) to complete...
- Waiting for PID 26531 of (26508 26514 26520 26526 26531) 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 162
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 1038
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 321
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 3009
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 57
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1755
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 212
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2395
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 316
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1704
- mri_label2label: Done
- PIDs (26508 26514 26520 26526 26531) 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 0051324 --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 0051324 --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 0051324 --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 0051324 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 26642 of (26642 26648 26654 26659) to complete...
- Waiting for PID 26648 of (26642 26648 26654 26659) to complete...
- Waiting for PID 26654 of (26642 26648 26654 26659) to complete...
- Waiting for PID 26659 of (26642 26648 26654 26659) 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 96
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1585
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 883
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 7842
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 190
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1202
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 166
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1344
- mri_label2label: Done
- PIDs (26642 26648 26654 26659) 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 0051324 --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 0051324 --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 0051324 --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 0051324 --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 0051324 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 26715 of (26715 26721 26727 26733 26738) to complete...
- Waiting for PID 26721 of (26715 26721 26727 26733 26738) to complete...
- Waiting for PID 26727 of (26715 26721 26727 26733 26738) to complete...
- Waiting for PID 26733 of (26715 26721 26727 26733 26738) to complete...
- Waiting for PID 26738 of (26715 26721 26727 26733 26738) 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 1641
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 4873
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 1719
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 5156
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 29
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 297
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 118
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.thresh.label 812
- 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 0051324 --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 = 0051324
- 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-6.0.0/0051324/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 147034
- Number of reverse mapping hits = 55
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 346
- mri_label2label: Done
- PIDs (26715 26721 26727 26733 26738) completed and logs appended.
- mris_label2annot --s 0051324 --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-6.0.0/0051324/label
- cmdline mris_label2annot --s 0051324 --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-900
- machine x86_64
- user ntraut
- subject 0051324
- 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-6.0.0/0051324/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 100347 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/label/rh.BA_exvivo.annot
- mris_label2annot --s 0051324 --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-6.0.0/0051324/label
- cmdline mris_label2annot --s 0051324 --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-900
- machine x86_64
- user ntraut
- subject 0051324
- 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-6.0.0/0051324/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 120392 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/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 0051324 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 254085
- Total vertex volume 250426 (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) = 1425500 mm^3 (det: 1.366612 )
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 1107 623 1844 2.275 0.556 0.128 0.042 14 1.8 BA1_exvivo
- 4308 2700 6475 2.303 0.490 0.110 0.028 34 4.6 BA2_exvivo
- 1195 834 1095 1.708 0.378 0.146 0.038 13 1.8 BA3a_exvivo
- 2299 1518 2710 1.641 0.532 0.125 0.032 24 3.2 BA3b_exvivo
- 1971 1250 2797 2.114 0.595 0.144 0.048 24 4.2 BA4a_exvivo
- 1323 902 1793 2.159 0.545 0.126 0.039 10 2.3 BA4p_exvivo
- 9239 5890 18116 2.588 0.663 0.134 0.045 106 16.9 BA6_exvivo
- 4186 2780 7137 2.366 0.474 0.115 0.030 40 4.9 BA44_exvivo
- 4227 2945 7607 2.229 0.566 0.143 0.042 64 7.1 BA45_exvivo
- 4761 3084 5947 1.821 0.502 0.140 0.043 63 8.6 V1_exvivo
- 9070 5868 12725 2.013 0.534 0.147 0.045 126 16.2 V2_exvivo
- 1851 1237 2946 2.290 0.552 0.126 0.030 18 2.2 MT_exvivo
- 686 484 2677 3.932 0.667 0.127 0.038 7 1.0 perirhinal_exvivo
- 464 306 1841 3.995 0.559 0.149 0.047 7 1.0 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 0051324 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051324/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 254085
- Total vertex volume 250426 (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) = 1425500 mm^3 (det: 1.366612 )
- lhCtxGM: 242802.422 242303.000 diff= 499.4 pctdiff= 0.206
- rhCtxGM: 248736.437 248315.000 diff= 421.4 pctdiff= 0.169
- lhCtxWM: 234785.593 234919.000 diff= -133.4 pctdiff=-0.057
- rhCtxWM: 235609.475 236727.000 diff=-1117.5 pctdiff=-0.474
- SubCortGMVol 57917.000
- SupraTentVol 1056377.927 (1052299.000) diff=4078.927 pctdiff=0.386
- SupraTentVolNotVent 1024382.927 (1020304.000) diff=4078.927 pctdiff=0.398
- BrainSegVol 1121716.000 (1119271.000) diff=2445.000 pctdiff=0.218
- BrainSegVolNotVent 1085717.000 (1085178.927) diff=538.073 pctdiff=0.050
- BrainSegVolNotVent 1085717.000
- CerebellumVol 65205.000
- VentChorVol 31995.000
- 3rd4th5thCSF 4004.000
- CSFVol 1559.000, OptChiasmVol 208.000
- MaskVol 1577046.000
- 829 408 1136 2.136 0.559 0.118 0.040 11 1.3 BA1_exvivo
- 2360 1424 3658 2.345 0.515 0.104 0.027 17 2.4 BA2_exvivo
- 1018 723 890 1.691 0.345 0.151 0.041 10 1.6 BA3a_exvivo
- 1773 1208 1828 1.461 0.332 0.118 0.029 16 2.2 BA3b_exvivo
- 1335 829 1670 1.957 0.589 0.154 0.052 20 3.1 BA4a_exvivo
- 1045 732 1447 2.195 0.569 0.123 0.038 7 1.8 BA4p_exvivo
- 5791 3604 11063 2.597 0.637 0.132 0.046 66 10.9 BA6_exvivo
- 1006 677 1739 2.338 0.403 0.118 0.033 11 1.3 BA44_exvivo
- 1024 718 1927 2.205 0.546 0.155 0.047 18 2.0 BA45_exvivo
- 4623 2971 5520 1.804 0.491 0.140 0.043 61 8.5 V1_exvivo
- 4904 3183 7120 1.984 0.558 0.153 0.048 73 9.5 V2_exvivo
- 227 144 519 2.669 0.548 0.115 0.030 2 0.2 MT_exvivo
- 397 281 1432 3.870 0.662 0.116 0.034 3 0.5 perirhinal_exvivo
- 310 225 1054 4.030 0.535 0.132 0.031 3 0.4 entorhinal_exvivo
- Started at Sat Oct 7 16:58:33 CEST 2017
- Ended at Sun Oct 8 01:30:12 CEST 2017
- #@#%# recon-all-run-time-hours 8.528
- recon-all -s 0051324 finished without error at Sun Oct 8 01:30:12 CEST 2017
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