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|
- Sat Oct 7 16:18:50 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0051473 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/Caltech/0051473/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0051473
- 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-910 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: 66074808 57486472 8588336 1768676 0 54645144
- -/+ buffers/cache: 2841328 63233480
- 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:50-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-910 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: 2017/10/07-14:18:51-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-910 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: 2017/10/07-14:18:51-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-910 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: 2017/10/07-14:18:51-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-910 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: 2017/10/07-14:18:51-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-910 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: 2017/10/07-14:18:51-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-910 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: 2017/10/07-14:18:51-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-910 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: 2017/10/07-14:18:51-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-910 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: 2017/10/07-14:18:51-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-910 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: 2017/10/07-14:18:51-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-910 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-6.0.0/0051473
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/Caltech/0051473/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/Caltech/0051473/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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/Caltech/0051473/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-6.0.0/0051473/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Sat Oct 7 16:18:54 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/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-6.0.0/0051473/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Sat Oct 7 16:19:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/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-910 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 16:19:04 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.15079
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.15079/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.15079/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.15079/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:19:07 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.15079/nu0.mnc ./tmp.mri_nu_correct.mni.15079/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.15079/0/ -iterations 1000 -distance 50
- [ntraut@tars-910:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/] [2017-10-07 16:19:07] 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.15079/0/ ./tmp.mri_nu_correct.mni.15079/nu0.mnc ./tmp.mri_nu_correct.mni.15079/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- 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: 45
- CV of field change: 0.000947983
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.15079/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.15079/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.15079/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 16:20:18 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 16:20:18 CEST 2017
- Ended at Sat Oct 7 16:20:56 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Sat Oct 7 16:20:58 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.7499, pval=0.6675 >= 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-6.0.0/0051473/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/transforms/talairach_avi.log
- TalAviQA: 0.96780
- z-score: -2
- #--------------------------------------------
- #@# Nu Intensity Correction Sat Oct 7 16:20:58 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-6.0.0/0051473/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-910 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 16:20:58 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.15934
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.15934/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.15934/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.15934/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:21:00 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.15934/nu0.mnc ./tmp.mri_nu_correct.mni.15934/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.15934/0/
- [ntraut@tars-910:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/] [2017-10-07 16:21:01] 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.15934/0/ ./tmp.mri_nu_correct.mni.15934/nu0.mnc ./tmp.mri_nu_correct.mni.15934/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
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- Processing:.................................................................Done
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- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 42
- CV of field change: 0.000926351
-
-
- --------------------------------------------------------
- Iteration 2 Sat Oct 7 16:21:51 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.15934/nu1.mnc ./tmp.mri_nu_correct.mni.15934/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.15934/1/
- [ntraut@tars-910:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/] [2017-10-07 16:21:51] running:
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 50 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.15934/1/ ./tmp.mri_nu_correct.mni.15934/nu1.mnc ./tmp.mri_nu_correct.mni.15934/nu2.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 10
- CV of field change: 0.00096067
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.15934/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.15934/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-6.0.0/0051473/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.15934/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.15934/ones.mgz
- sysname Linux
- hostname tars-910
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.15934/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.15934/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.15934/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.15934/sum.junk --avgwf ./tmp.mri_nu_correct.mni.15934/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.15934/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.15934/sum.junk --avgwf ./tmp.mri_nu_correct.mni.15934/input.mean.dat
- sysname Linux
- hostname tars-910
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.15934/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.15934/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.15934/ones.mgz --i ./tmp.mri_nu_correct.mni.15934/nu2.mnc --sum ./tmp.mri_nu_correct.mni.15934/sum.junk --avgwf ./tmp.mri_nu_correct.mni.15934/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.15934/ones.mgz --i ./tmp.mri_nu_correct.mni.15934/nu2.mnc --sum ./tmp.mri_nu_correct.mni.15934/sum.junk --avgwf ./tmp.mri_nu_correct.mni.15934/output.mean.dat
- sysname Linux
- hostname tars-910
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.15934/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.15934/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.15934/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.15934/nu2.mnc ./tmp.mri_nu_correct.mni.15934/nu2.mnc mul .97740334290055715009
- Saving result to './tmp.mri_nu_correct.mni.15934/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.15934/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.15934/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.15934/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 (13, 173) to ( 3, 110)
-
-
- Sat Oct 7 16:23:00 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Sat Oct 7 16:23:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri
- mri_normalize -g 1 -mprage nu.mgz T1.mgz
- using max gradient = 1.000
- assuming input volume is MGH (Van der Kouwe) MP-RAGE
- reading from nu.mgz...
- normalizing image...
- talairach transform
- 0.97464 -0.03839 -0.01206 0.95030;
- 0.01509 0.98863 0.13952 -67.89799;
- 0.01303 -0.17552 1.16118 -13.26570;
- 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 = 13
- Starting OpenSpline(): npoints = 13
- 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 87 (87), valley at 59 (59)
- csf peak at 46, setting threshold to 73
- 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 88 (88), valley at 25 (25)
- csf peak at 45, setting threshold to 73
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to T1.mgz
- 3D bias adjustment took 2 minutes and 14 seconds.
- #--------------------------------------------
- #@# Skull Stripping Sat Oct 7 16:25:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/touch/rusage.mri_em_register.skull.dat -skull nu.mgz /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta
- aligning to atlas containing skull, setting unknown_nbr_spacing = 5
- == Number of threads available to mri_em_register for OpenMP = 2 ==
- reading 1 input volumes...
- logging results to talairach_with_skull.log
- reading '/pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca'...
- average std = 22.9 using min determinant for regularization = 52.6
- 0 singular and 9002 ill-conditioned covariance matrices regularized
- reading 'nu.mgz'...
- freeing gibbs priors...done.
- accounting for voxel sizes in initial transform
- bounding unknown intensity as < 8.7 or > 569.1
- total sample mean = 77.6 (1399 zeros)
- ************************************************
- spacing=8, using 3243 sample points, tol=1.00e-05...
- ************************************************
- register_mri: find_optimal_transform
- find_optimal_transform: nsamples 3243, passno 0, spacing 8
- resetting wm mean[0]: 100 --> 108
- resetting gm mean[0]: 61 --> 61
- input volume #1 is the most T1-like
- using real data threshold=9.0
- skull bounding box = (45, 14, 0) --> (212, 167, 218)
- using (101, 65, 109) as brain centroid...
- mean wm in atlas = 108, using box (80,46,82) --> (121, 83,135) to find MRI wm
- before smoothing, mri peak at 106
- robust fit to distribution - 106 +- 5.3
- after smoothing, mri peak at 106, scaling input intensities by 1.019
- scaling channel 0 by 1.01887
- initial log_p = -4.760
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.488598 @ (-9.091, 27.273, -9.091)
- max log p = -4.412022 @ (4.545, -4.545, 13.636)
- max log p = -4.362729 @ (2.273, -2.273, -2.273)
- max log p = -4.322444 @ (-1.136, -1.136, 1.136)
- max log p = -4.322444 @ (0.000, 0.000, 0.000)
- max log p = -4.322444 @ (0.000, 0.000, 0.000)
- Found translation: (-3.4, 19.3, 3.4): log p = -4.322
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-4.262, old_max_log_p =-4.322 (thresh=-4.3)
- 1.00000 0.00000 0.00000 -3.40909;
- 0.00000 1.05465 0.12074 5.87956;
- 0.00000 -0.15011 0.99144 20.81231;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-4.262, old_max_log_p =-4.262 (thresh=-4.3)
- 1.00000 0.00000 0.00000 -3.40909;
- 0.00000 1.05465 0.12074 5.87956;
- 0.00000 -0.15011 0.99144 20.81231;
- 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=-4.222, old_max_log_p =-4.262 (thresh=-4.3)
- 0.94344 0.02906 0.03682 -3.66124;
- -0.03207 1.10826 0.16189 -0.60836;
- -0.03208 -0.18659 1.00516 23.88383;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-4.218, old_max_log_p =-4.222 (thresh=-4.2)
- 0.96224 -0.00115 -0.00142 1.72789;
- -0.00114 1.08803 0.15890 -1.88927;
- -0.00117 -0.18206 0.98697 23.30981;
- 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=-4.200, old_max_log_p =-4.218 (thresh=-4.2)
- 0.96194 0.01367 0.01733 -2.02959;
- -0.01692 1.09050 0.15901 -0.16472;
- -0.01696 -0.18244 0.98917 25.13584;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-4.200, old_max_log_p =-4.200 (thresh=-4.2)
- 0.96194 0.01367 0.01733 -2.02959;
- -0.01692 1.09050 0.15901 -0.16472;
- -0.01696 -0.18244 0.98917 25.13584;
- 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
- 0.96194 0.01367 0.01733 -2.02959;
- -0.01692 1.09050 0.15901 -0.16472;
- -0.01696 -0.18244 0.98917 25.13584;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 0.96194 0.01367 0.01733 -2.02959;
- -0.01692 1.09050 0.15901 -0.16472;
- -0.01696 -0.18244 0.98917 25.13584;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 008: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 0.96194 0.01367 0.01733 -2.02959;
- -0.01692 1.09050 0.15901 -0.16472;
- -0.01696 -0.18244 0.98917 25.13584;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -4.200 (old=-4.760)
- transform before final EM align:
- 0.96194 0.01367 0.01733 -2.02959;
- -0.01692 1.09050 0.15901 -0.16472;
- -0.01696 -0.18244 0.98917 25.13584;
- 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
- 0.96194 0.01367 0.01733 -2.02959;
- -0.01692 1.09050 0.15901 -0.16472;
- -0.01696 -0.18244 0.98917 25.13584;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 0.96194 0.01367 0.01733 -2.02959;
- -0.01692 1.09050 0.15901 -0.16472;
- -0.01696 -0.18244 0.98917 25.13584;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = 4.5 tol 0.000000
- final transform:
- 0.96194 0.01367 0.01733 -2.02959;
- -0.01692 1.09050 0.15901 -0.16472;
- -0.01696 -0.18244 0.98917 25.13584;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 1117.878056
- mri_em_register stimesec 1.481774
- 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 157101
- 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 431
- mri_em_register ru_nivcsw 5714
- registration took 9 minutes and 47 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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=127 y=92 z=106 r=71
- first estimation of the main basin volume: 1536095 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 18 found in the rest of the brain
- global maximum in x=106, y=77, z=73, Imax=255
- CSF=13, 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=9688268518 voxels, voxel volume =1.000
- = 9688268518 mmm3 = 9688268.800 cm3
- done.
- PostAnalyze...Basin Prior
- 225 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=96, z=105, r=10460 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=1, CSF_intensity=2, CSF_MAX=14 , nb = 43983
- RIGHT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=5 , nb = -1037326116
- LEFT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=5 , nb = 1111079689
- RIGHT_BRAIN CSF_MIN=0, CSF_intensity=3, CSF_MAX=15 , nb = 1066828728
- LEFT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=15 , nb = 1079354924
- OTHER CSF_MIN=1, CSF_intensity=2, CSF_MAX=5 , nb = 1069837924
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 14, 35, 67, 85
- after analyzing : 14, 56, 67, 63
- RIGHT_CER
- before analyzing : 5, 11, 64, 88
- after analyzing : 5, 46, 64, 56
- LEFT_CER
- before analyzing : 5, 11, 64, 90
- after analyzing : 5, 46, 64, 57
- RIGHT_BRAIN
- before analyzing : 15, 35, 66, 84
- after analyzing : 15, 55, 66, 62
- LEFT_BRAIN
- before analyzing : 15, 36, 67, 86
- after analyzing : 15, 56, 67, 63
- OTHER
- before analyzing : 5, 5, 19, 83
- after analyzing : 5, 18, 25, 34
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...69 iterations
- *********************VALIDATION*********************
- curvature mean = -0.013, std = 0.010
- curvature mean = 72.578, std = 7.870
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 2.41, sigma = 4.12
- after rotation: sse = 2.41, sigma = 4.12
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 2.48, its var is 3.58
- before Erosion-Dilatation 0.41% of inacurate vertices
- after Erosion-Dilatation 0.00% of inacurate vertices
- Validation of the shape of the surface done.
- Scaling of atlas fields onto current surface fields
- ********FINAL ITERATIVE TEMPLATE DEFORMATION********
- Compute Local values csf/gray
- Fine Segmentation...44 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1846137 voxels, voxel volume = 1.000 mm3
- = 1846137 mmm3 = 1846.137 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 25.805077
- mri_watershed stimesec 0.429934
- mri_watershed ru_maxrss 824004
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 213333
- mri_watershed ru_majflt 0
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 7552
- mri_watershed ru_oublock 2888
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 1977
- mri_watershed ru_nivcsw 253
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Sat Oct 7 16:35:28 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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=17.0
- skull bounding box = (56, 33, 21) --> (199, 163, 203)
- using (104, 76, 112) as brain centroid...
- mean wm in atlas = 107, using box (86,60,90) --> (121, 91,134) to find MRI wm
- before smoothing, mri peak at 106
- robust fit to distribution - 106 +- 4.8
- after smoothing, mri peak at 106, scaling input intensities by 1.009
- scaling channel 0 by 1.00943
- initial log_p = -4.592
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.020411 @ (-9.091, 27.273, 9.091)
- max log p = -3.941437 @ (4.545, -4.545, -13.636)
- max log p = -3.810513 @ (2.273, 2.273, 2.273)
- max log p = -3.777778 @ (-1.136, -1.136, 1.136)
- max log p = -3.777778 @ (0.000, 0.000, 0.000)
- max log p = -3.777778 @ (0.000, 0.000, 0.000)
- Found translation: (-3.4, 23.9, -1.1): log p = -3.778
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.760, old_max_log_p =-3.778 (thresh=-3.8)
- 1.00000 0.00000 0.00000 -3.40909;
- 0.00000 0.99144 0.13053 10.76844;
- 0.00000 -0.12074 0.91709 26.72208;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.760, old_max_log_p =-3.760 (thresh=-3.8)
- 1.00000 0.00000 0.00000 -3.40909;
- 0.00000 0.99144 0.13053 10.76844;
- 0.00000 -0.12074 0.91709 26.72208;
- 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=-3.649, old_max_log_p =-3.760 (thresh=-3.8)
- 0.98058 -0.00714 0.02466 -0.36964;
- -0.00696 1.02405 0.16399 3.25047;
- -0.03421 -0.15665 0.94629 28.13854;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.644, old_max_log_p =-3.649 (thresh=-3.6)
- 0.97893 -0.01116 0.05577 -2.95383;
- -0.00594 1.04792 0.13543 3.71484;
- -0.06649 -0.12276 0.94983 26.71044;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 4 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.644, old_max_log_p =-3.644 (thresh=-3.6)
- 0.97893 -0.01116 0.05577 -2.95383;
- -0.00594 1.04792 0.13543 3.71484;
- -0.06649 -0.12276 0.94983 26.71044;
- 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=-3.613, old_max_log_p =-3.644 (thresh=-3.6)
- 0.97819 -0.00137 0.04930 -4.08450;
- -0.01621 1.04708 0.16649 2.79487;
- -0.05849 -0.15748 0.94867 29.65870;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.610, old_max_log_p =-3.613 (thresh=-3.6)
- 0.97819 -0.00137 0.04930 -4.08450;
- -0.01623 1.04830 0.16669 2.65836;
- -0.05856 -0.15767 0.94978 29.56989;
- 0.00000 0.00000 0.00000 1.00000;
- min search scale 0.025000 reached
- ***********************************************
- Computing MAP estimate using 2830 samples...
- ***********************************************
- dt = 5.00e-06, momentum=0.80, tol=1.00e-05
- l_intensity = 1.0000
- Aligning input volume to GCA...
- Transform matrix
- 0.97819 -0.00137 0.04930 -4.08450;
- -0.01623 1.04830 0.16669 2.65836;
- -0.05856 -0.15767 0.94978 29.56989;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 0.97819 -0.00137 0.04930 -4.08450;
- -0.01623 1.04830 0.16669 2.65836;
- -0.05856 -0.15767 0.94978 29.56989;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 009: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 0.97819 -0.00137 0.04930 -4.08450;
- -0.01623 1.04830 0.16669 2.65836;
- -0.05856 -0.15767 0.94978 29.56989;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.610 (old=-4.592)
- transform before final EM align:
- 0.97819 -0.00137 0.04930 -4.08450;
- -0.01623 1.04830 0.16669 2.65836;
- -0.05856 -0.15767 0.94978 29.56989;
- 0.00000 0.00000 0.00000 1.00000;
- **************************************************
- EM alignment process ...
- Computing final MAP estimate using 315557 samples.
- **************************************************
- dt = 5.00e-06, momentum=0.80, tol=1.00e-07
- l_intensity = 1.0000
- Aligning input volume to GCA...
- Transform matrix
- 0.97819 -0.00137 0.04930 -4.08450;
- -0.01623 1.04830 0.16669 2.65836;
- -0.05856 -0.15767 0.94978 29.56989;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 0.97819 -0.00137 0.04930 -4.08450;
- -0.01623 1.04830 0.16669 2.65836;
- -0.05856 -0.15767 0.94978 29.56989;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 011: -log(p) = 4.1 tol 0.000000
- final transform:
- 0.97819 -0.00137 0.04930 -4.08450;
- -0.01623 1.04830 0.16669 2.65836;
- -0.05856 -0.15767 0.94978 29.56989;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 1126.579733
- mri_em_register stimesec 1.599756
- 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 159483
- 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 13653
- mri_em_register ru_nivcsw 6498
- registration took 9 minutes and 56 seconds.
- #--------------------------------------
- #@# CA Normalize Sat Oct 7 16:45:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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=16.0
- skull bounding box = (56, 33, 21) --> (200, 163, 204)
- using (104, 76, 113) as brain centroid...
- mean wm in atlas = 107, using box (86,60,90) --> (121, 91,135) to find MRI wm
- before smoothing, mri peak at 106
- robust fit to distribution - 106 +- 4.8
- after smoothing, mri peak at 106, scaling input intensities by 1.009
- scaling channel 0 by 1.00943
- using 246344 sample points...
- INFO: compute sample coordinates transform
- 0.97819 -0.00137 0.04930 -4.08450;
- -0.01623 1.04830 0.16669 2.65836;
- -0.05856 -0.15767 0.94978 29.56989;
- 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 (127, 33, 24) --> (196, 143, 197)
- Left_Cerebral_White_Matter: limiting intensities to 98.0 --> 132.0
- 0 of 1893 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (62, 35, 22) --> (129, 143, 196)
- Right_Cerebral_White_Matter: limiting intensities to 98.0 --> 132.0
- 2 of 2213 (0.1%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (131, 119, 53) --> (180, 160, 109)
- Left_Cerebellum_White_Matter: limiting intensities to 95.0 --> 132.0
- 0 of 13 (0.0%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (84, 119, 48) --> (130, 158, 108)
- Right_Cerebellum_White_Matter: limiting intensities to 94.0 --> 132.0
- 1 of 14 (7.1%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (111, 107, 88) --> (146, 174, 120)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 0 of 66 (0.0%) samples deleted
- using 4199 total control points for intensity normalization...
- bias field = 0.937 +- 0.051
- 23 of 4196 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (127, 33, 24) --> (196, 143, 197)
- Left_Cerebral_White_Matter: limiting intensities to 89.0 --> 132.0
- 0 of 2705 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (62, 35, 22) --> (129, 143, 196)
- Right_Cerebral_White_Matter: limiting intensities to 89.0 --> 132.0
- 2 of 3143 (0.1%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (131, 119, 53) --> (180, 160, 109)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 30 of 53 (56.6%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (84, 119, 48) --> (130, 158, 108)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 25 of 44 (56.8%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (111, 107, 88) --> (146, 174, 120)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 44 of 102 (43.1%) samples deleted
- using 6047 total control points for intensity normalization...
- bias field = 1.043 +- 0.046
- 18 of 5883 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (127, 33, 24) --> (196, 143, 197)
- Left_Cerebral_White_Matter: limiting intensities to 89.0 --> 132.0
- 7 of 2730 (0.3%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (62, 35, 22) --> (129, 143, 196)
- Right_Cerebral_White_Matter: limiting intensities to 90.0 --> 132.0
- 23 of 3127 (0.7%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (131, 119, 53) --> (180, 160, 109)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 74 of 97 (76.3%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (84, 119, 48) --> (130, 158, 108)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 66 of 83 (79.5%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (111, 107, 88) --> (146, 174, 120)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 104 of 148 (70.3%) samples deleted
- using 6185 total control points for intensity normalization...
- bias field = 1.041 +- 0.043
- 16 of 5799 control points discarded
- writing normalized volume to norm.mgz...
- writing control points to ctrl_pts.mgz
- freeing GCA...done.
- normalization took 1 minutes and 47 seconds.
- #--------------------------------------
- #@# CA Reg Sat Oct 7 16:47:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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) = 1.00 (predicted orig area = 8.0)
- 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=0.899, neg=0, invalid=762
- 0001: dt=321.387952, rms=0.813 (9.565%), neg=0, invalid=762
- 0002: dt=208.152381, rms=0.795 (2.173%), neg=0, invalid=762
- 0003: dt=295.936000, rms=0.787 (1.045%), neg=0, invalid=762
- 0004: dt=146.716981, rms=0.782 (0.649%), neg=0, invalid=762
- 0005: dt=517.888000, rms=0.778 (0.568%), neg=0, invalid=762
- 0006: dt=129.472000, rms=0.775 (0.281%), neg=0, invalid=762
- 0007: dt=1775.616000, rms=0.769 (0.849%), neg=0, invalid=762
- 0008: dt=129.472000, rms=0.767 (0.290%), neg=0, invalid=762
- 0009: dt=443.904000, rms=0.765 (0.136%), neg=0, invalid=762
- 0010: dt=443.904000, rms=0.765 (-0.255%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.766, neg=0, invalid=762
- 0011: dt=244.269542, rms=0.759 (0.950%), neg=0, invalid=762
- 0012: dt=295.936000, rms=0.758 (0.145%), neg=0, invalid=762
- 0013: dt=295.936000, rms=0.757 (0.121%), neg=0, invalid=762
- 0014: dt=295.936000, rms=0.755 (0.232%), neg=0, invalid=762
- 0015: dt=295.936000, rms=0.753 (0.224%), neg=0, invalid=762
- 0016: dt=295.936000, rms=0.751 (0.276%), neg=0, invalid=762
- 0017: dt=295.936000, rms=0.749 (0.218%), neg=0, invalid=762
- 0018: dt=295.936000, rms=0.747 (0.329%), neg=0, invalid=762
- 0019: dt=295.936000, rms=0.746 (0.155%), neg=0, invalid=762
- 0020: dt=295.936000, rms=0.745 (0.178%), neg=0, invalid=762
- 0021: dt=295.936000, rms=0.743 (0.255%), neg=0, invalid=762
- 0022: dt=295.936000, rms=0.740 (0.292%), neg=0, invalid=762
- 0023: dt=295.936000, rms=0.739 (0.217%), neg=0, invalid=762
- 0024: dt=295.936000, rms=0.738 (0.117%), neg=0, invalid=762
- 0025: dt=295.936000, rms=0.736 (0.236%), neg=0, invalid=762
- 0026: dt=295.936000, rms=0.735 (0.197%), neg=0, invalid=762
- 0027: dt=295.936000, rms=0.734 (0.174%), neg=0, invalid=762
- 0028: dt=295.936000, rms=0.733 (0.056%), neg=0, invalid=762
- 0029: dt=295.936000, rms=0.732 (0.172%), neg=0, invalid=762
- 0030: dt=295.936000, rms=0.731 (0.147%), neg=0, invalid=762
- 0031: dt=295.936000, rms=0.730 (0.059%), neg=0, invalid=762
- 0032: dt=295.936000, rms=0.729 (0.224%), neg=0, invalid=762
- 0033: dt=295.936000, rms=0.728 (0.045%), neg=0, invalid=762
- 0034: dt=295.936000, rms=0.727 (0.161%), neg=0, invalid=762
- 0035: dt=295.936000, rms=0.726 (0.143%), neg=0, invalid=762
- 0036: dt=295.936000, rms=0.726 (0.063%), neg=0, invalid=762
- 0037: dt=295.936000, rms=0.724 (0.255%), neg=0, invalid=762
- 0038: dt=295.936000, rms=0.724 (-0.023%), neg=0, invalid=762
- 0039: dt=0.000000, rms=0.724 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 0.154
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.737, neg=0, invalid=762
- 0040: dt=18.227848, rms=0.736 (0.154%), neg=0, invalid=762
- 0041: dt=36.288000, rms=0.735 (0.140%), neg=0, invalid=762
- 0042: dt=36.288000, rms=0.733 (0.284%), neg=0, invalid=762
- 0043: dt=36.288000, rms=0.730 (0.397%), neg=0, invalid=762
- 0044: dt=36.288000, rms=0.727 (0.455%), neg=0, invalid=762
- 0045: dt=36.288000, rms=0.723 (0.548%), neg=0, invalid=762
- 0046: dt=36.288000, rms=0.718 (0.671%), neg=0, invalid=762
- 0047: dt=36.288000, rms=0.713 (0.660%), neg=0, invalid=762
- 0048: dt=36.288000, rms=0.709 (0.519%), neg=0, invalid=762
- 0049: dt=36.288000, rms=0.707 (0.356%), neg=0, invalid=762
- 0050: dt=36.288000, rms=0.704 (0.358%), neg=0, invalid=762
- 0051: dt=36.288000, rms=0.702 (0.285%), neg=0, invalid=762
- 0052: dt=36.288000, rms=0.700 (0.275%), neg=0, invalid=762
- 0053: dt=36.288000, rms=0.699 (0.178%), neg=0, invalid=762
- 0054: dt=36.288000, rms=0.698 (0.126%), neg=0, invalid=762
- 0055: dt=36.288000, rms=0.697 (0.172%), neg=0, invalid=762
- 0056: dt=36.288000, rms=0.696 (0.218%), neg=0, invalid=762
- 0057: dt=36.288000, rms=0.694 (0.206%), neg=0, invalid=762
- 0058: dt=36.288000, rms=0.693 (0.169%), neg=0, invalid=762
- 0059: dt=36.288000, rms=0.692 (0.165%), neg=0, invalid=762
- 0060: dt=36.288000, rms=0.690 (0.184%), neg=0, invalid=762
- 0061: dt=36.288000, rms=0.689 (0.192%), neg=0, invalid=762
- 0062: dt=36.288000, rms=0.688 (0.164%), neg=0, invalid=762
- 0063: dt=36.288000, rms=0.687 (0.178%), neg=0, invalid=762
- 0064: dt=36.288000, rms=0.685 (0.206%), neg=0, invalid=762
- 0065: dt=36.288000, rms=0.684 (0.203%), neg=0, invalid=762
- 0066: dt=36.288000, rms=0.683 (0.157%), neg=0, invalid=762
- 0067: dt=36.288000, rms=0.682 (0.137%), neg=0, invalid=762
- 0068: dt=36.288000, rms=0.681 (0.097%), neg=0, invalid=762
- 0069: dt=36.288000, rms=0.681 (0.106%), neg=0, invalid=762
- 0070: dt=36.288000, rms=0.680 (0.116%), neg=0, invalid=762
- 0071: dt=36.288000, rms=0.679 (0.119%), neg=0, invalid=762
- 0072: dt=36.288000, rms=0.678 (0.115%), neg=0, invalid=762
- 0073: dt=36.288000, rms=0.678 (0.007%), neg=0, invalid=762
- 0074: dt=36.288000, rms=0.678 (0.011%), neg=0, invalid=762
- 0075: dt=36.288000, rms=0.678 (0.018%), neg=0, invalid=762
- 0076: dt=36.288000, rms=0.678 (0.020%), neg=0, invalid=762
- 0077: dt=36.288000, rms=0.678 (0.017%), neg=0, invalid=762
- 0078: dt=36.288000, rms=0.678 (0.019%), neg=0, invalid=762
- 0079: dt=36.288000, rms=0.677 (0.029%), neg=0, invalid=762
- 0080: dt=36.288000, rms=0.677 (0.025%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.678, neg=0, invalid=762
- 0081: dt=69.654979, rms=0.673 (0.643%), neg=0, invalid=762
- 0082: dt=4.923077, rms=0.673 (-0.004%), neg=0, invalid=762
- 0083: dt=4.923077, rms=0.673 (0.003%), neg=0, invalid=762
- 0084: dt=4.923077, rms=0.673 (-0.008%), neg=0, invalid=762
- setting smoothness coefficient to 0.588
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.717, neg=0, invalid=762
- 0085: dt=4.800000, rms=0.716 (0.175%), neg=0, invalid=762
- 0086: dt=6.400000, rms=0.715 (0.073%), neg=0, invalid=762
- 0087: dt=6.400000, rms=0.715 (0.077%), neg=0, invalid=762
- 0088: dt=6.400000, rms=0.714 (0.041%), neg=0, invalid=762
- 0089: dt=6.400000, rms=0.714 (-0.035%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.715, neg=0, invalid=762
- 0090: dt=11.200000, rms=0.713 (0.277%), neg=0, invalid=762
- 0091: dt=11.200000, rms=0.712 (0.064%), neg=0, invalid=762
- 0092: dt=11.200000, rms=0.712 (0.048%), neg=0, invalid=762
- 0093: dt=11.200000, rms=0.712 (0.011%), neg=0, invalid=762
- 0094: dt=11.200000, rms=0.712 (-0.100%), neg=0, invalid=762
- setting smoothness coefficient to 2.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.768, neg=0, invalid=762
- 0095: dt=3.529412, rms=0.765 (0.389%), neg=0, invalid=762
- 0096: dt=6.370370, rms=0.763 (0.257%), neg=0, invalid=762
- 0097: dt=13.729730, rms=0.760 (0.434%), neg=0, invalid=762
- 0098: dt=8.372093, rms=0.759 (0.036%), neg=0, invalid=762
- 0099: dt=8.372093, rms=0.758 (0.249%), neg=0, invalid=762
- 0100: dt=8.372093, rms=0.757 (0.133%), neg=0, invalid=762
- 0101: dt=8.372093, rms=0.757 (-0.064%), neg=0, invalid=762
- 0102: dt=0.000000, rms=0.757 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.757, neg=0, invalid=762
- 0103: dt=0.000000, rms=0.757 (0.073%), neg=0, invalid=762
- 0104: dt=0.000000, rms=0.757 (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=0.796, neg=0, invalid=762
- 0105: dt=0.000000, rms=0.795 (0.066%), neg=0, invalid=762
- 0106: dt=0.000000, rms=0.795 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.796, neg=0, invalid=762
- 0107: dt=0.000000, rms=0.795 (0.066%), neg=0, invalid=762
- 0108: dt=0.000000, rms=0.795 (0.000%), neg=0, invalid=762
- resetting metric properties...
- setting smoothness coefficient to 10.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.730, neg=0, invalid=762
- 0109: dt=0.817134, rms=0.714 (2.243%), neg=0, invalid=762
- 0110: dt=0.080000, rms=0.713 (0.124%), neg=0, invalid=762
- 0111: dt=0.080000, rms=0.713 (-0.058%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.714, neg=0, invalid=762
- 0112: dt=0.028000, rms=0.713 (0.102%), neg=0, invalid=762
- 0113: dt=0.016000, rms=0.713 (0.003%), neg=0, invalid=762
- 0114: dt=0.016000, rms=0.713 (-0.003%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.15620 (29)
- Left_Lateral_Ventricle (4): linear fit = 1.62 x + 0.0 (1267 voxels, overlap=0.204)
- Left_Lateral_Ventricle (4): linear fit = 1.50 x + 0.0 (1267 voxels, peak = 32), gca=30.0
- gca peak = 0.15565 (16)
- mri peak = 0.16418 (31)
- Right_Lateral_Ventricle (43): linear fit = 1.90 x + 0.0 (1261 voxels, overlap=0.091)
- Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (1261 voxels, peak = 30), gca=24.0
- gca peak = 0.26829 (96)
- mri peak = 0.08958 (94)
- Right_Pallidum (52): linear fit = 0.98 x + 0.0 (1109 voxels, overlap=0.957)
- Right_Pallidum (52): linear fit = 0.98 x + 0.0 (1109 voxels, peak = 94), gca=93.6
- gca peak = 0.20183 (93)
- mri peak = 0.07068 (85)
- Left_Pallidum (13): linear fit = 0.90 x + 0.0 (1057 voxels, overlap=0.592)
- Left_Pallidum (13): linear fit = 0.90 x + 0.0 (1057 voxels, peak = 84), gca=84.2
- gca peak = 0.21683 (55)
- mri peak = 0.06511 (71)
- Right_Hippocampus (53): linear fit = 1.26 x + 0.0 (1311 voxels, overlap=0.019)
- Right_Hippocampus (53): linear fit = 1.26 x + 0.0 (1311 voxels, peak = 70), gca=69.6
- gca peak = 0.30730 (58)
- mri peak = 0.08153 (77)
- Left_Hippocampus (17): linear fit = 1.28 x + 0.0 (1192 voxels, overlap=0.019)
- Left_Hippocampus (17): linear fit = 1.28 x + 0.0 (1192 voxels, peak = 75), gca=74.5
- gca peak = 0.11430 (101)
- mri peak = 0.12016 (103)
- Right_Cerebral_White_Matter (41): linear fit = 1.01 x + 0.0 (88427 voxels, overlap=0.747)
- Right_Cerebral_White_Matter (41): linear fit = 1.01 x + 0.0 (88427 voxels, peak = 103), gca=102.5
- gca peak = 0.12076 (102)
- mri peak = 0.10852 (103)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (90614 voxels, overlap=0.828)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (90614 voxels, peak = 103), gca=102.5
- gca peak = 0.14995 (59)
- mri peak = 0.04690 (84)
- Left_Cerebral_Cortex (3): linear fit = 1.47 x + 0.0 (39241 voxels, overlap=0.000)
- Left_Cerebral_Cortex (3): linear fit = 1.47 x + 0.0 (39241 voxels, peak = 86), gca=86.4
- gca peak = 0.15082 (58)
- mri peak = 0.04513 (84)
- Right_Cerebral_Cortex (42): linear fit = 1.40 x + 0.0 (42105 voxels, overlap=0.000)
- Right_Cerebral_Cortex (42): linear fit = 1.40 x + 0.0 (42105 voxels, peak = 81), gca=81.5
- gca peak = 0.14161 (67)
- mri peak = 0.10908 (82)
- Right_Caudate (50): linear fit = 1.22 x + 0.0 (641 voxels, overlap=0.015)
- Right_Caudate (50): linear fit = 1.22 x + 0.0 (641 voxels, peak = 81), gca=81.4
- gca peak = 0.15243 (71)
- mri peak = 0.12008 (81)
- Left_Caudate (11): linear fit = 1.12 x + 0.0 (1377 voxels, overlap=0.254)
- Left_Caudate (11): linear fit = 1.12 x + 0.0 (1377 voxels, peak = 80), gca=79.9
- gca peak = 0.13336 (57)
- mri peak = 0.04334 (76)
- Left_Cerebellum_Cortex (8): linear fit = 1.40 x + 0.0 (19564 voxels, overlap=0.001)
- Left_Cerebellum_Cortex (8): linear fit = 1.40 x + 0.0 (19564 voxels, peak = 80), gca=80.1
- gca peak = 0.13252 (56)
- mri peak = 0.03829 (77)
- Right_Cerebellum_Cortex (47): linear fit = 1.46 x + 0.0 (24709 voxels, overlap=0.001)
- Right_Cerebellum_Cortex (47): linear fit = 1.46 x + 0.0 (24709 voxels, peak = 81), gca=81.5
- gca peak = 0.18181 (84)
- mri peak = 0.04422 (86)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (9565 voxels, overlap=0.894)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (9565 voxels, peak = 86), gca=86.1
- gca peak = 0.20573 (83)
- mri peak = 0.05084 (72)
- Right_Cerebellum_White_Matter (46): linear fit = 0.92 x + 0.0 (7396 voxels, overlap=0.677)
- Right_Cerebellum_White_Matter (46): linear fit = 0.92 x + 0.0 (7396 voxels, peak = 76), gca=75.9
- gca peak = 0.21969 (57)
- mri peak = 0.08126 (77)
- Left_Amygdala (18): linear fit = 1.33 x + 0.0 (588 voxels, overlap=0.073)
- Left_Amygdala (18): linear fit = 1.33 x + 0.0 (588 voxels, peak = 76), gca=75.5
- gca peak = 0.39313 (56)
- mri peak = 0.09068 (74)
- Right_Amygdala (54): linear fit = 1.27 x + 0.0 (679 voxels, overlap=0.021)
- Right_Amygdala (54): linear fit = 1.27 x + 0.0 (679 voxels, peak = 71), gca=71.4
- gca peak = 0.14181 (85)
- mri peak = 0.08305 (92)
- Left_Thalamus_Proper (10): linear fit = 1.07 x + 0.0 (6751 voxels, overlap=0.627)
- Left_Thalamus_Proper (10): linear fit = 1.07 x + 0.0 (6751 voxels, peak = 91), gca=90.5
- gca peak = 0.11978 (83)
- mri peak = 0.07039 (88)
- Right_Thalamus_Proper (49): linear fit = 1.08 x + 0.0 (5300 voxels, overlap=0.693)
- Right_Thalamus_Proper (49): linear fit = 1.08 x + 0.0 (5300 voxels, peak = 89), gca=89.2
- gca peak = 0.13399 (79)
- mri peak = 0.06240 (88)
- Left_Putamen (12): linear fit = 1.10 x + 0.0 (3097 voxels, overlap=0.492)
- Left_Putamen (12): linear fit = 1.10 x + 0.0 (3097 voxels, peak = 87), gca=86.5
- gca peak = 0.14159 (79)
- mri peak = 0.09828 (84)
- Right_Putamen (51): linear fit = 1.08 x + 0.0 (3268 voxels, overlap=0.660)
- Right_Putamen (51): linear fit = 1.08 x + 0.0 (3268 voxels, peak = 85), gca=84.9
- gca peak = 0.10025 (80)
- mri peak = 0.09913 (87)
- Brain_Stem (16): linear fit = 1.11 x + 0.0 (11274 voxels, overlap=0.402)
- Brain_Stem (16): linear fit = 1.11 x + 0.0 (11274 voxels, peak = 88), gca=88.4
- gca peak = 0.13281 (86)
- mri peak = 0.08840 (92)
- Right_VentralDC (60): linear fit = 1.03 x + 0.0 (1158 voxels, overlap=0.647)
- Right_VentralDC (60): linear fit = 1.03 x + 0.0 (1158 voxels, peak = 89), gca=89.0
- gca peak = 0.12801 (89)
- mri peak = 0.11937 (90)
- Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1372 voxels, overlap=0.703)
- Left_VentralDC (28): linear fit = 1.03 x + 0.0 (1372 voxels, peak = 92), gca=92.1
- gca peak = 0.20494 (23)
- mri peak = 0.04883 (34)
- Third_Ventricle (14): linear fit = 1.82 x + 0.0 (87 voxels, overlap=0.052)
- Third_Ventricle (14): linear fit = 1.82 x + 0.0 (87 voxels, peak = 42), gca=41.7
- gca peak = 0.15061 (21)
- mri peak = 0.18182 (32)
- Fourth_Ventricle (15): linear fit = 1.74 x + 0.0 (848 voxels, overlap=0.050)
- Fourth_Ventricle (15): linear fit = 1.74 x + 0.0 (848 voxels, peak = 36), gca=36.4
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.18056 (32)
- gca peak Left_Thalamus = 0.64095 (94)
- gca peak Third_Ventricle = 0.20494 (23)
- gca peak Fourth_Ventricle = 0.15061 (21)
- gca peak CSF = 0.20999 (34)
- gca peak Left_Accumbens_area = 0.39030 (62)
- gca peak Left_undetermined = 0.95280 (25)
- gca peak Left_vessel = 0.67734 (53)
- gca peak Left_choroid_plexus = 0.09433 (44)
- gca peak Right_Inf_Lat_Vent = 0.23544 (26)
- gca peak Right_Accumbens_area = 0.30312 (64)
- gca peak Right_vessel = 0.46315 (51)
- gca peak Right_choroid_plexus = 0.14086 (44)
- gca peak Fifth_Ventricle = 0.51669 (36)
- gca peak WM_hypointensities = 0.09722 (76)
- gca peak non_WM_hypointensities = 0.11899 (47)
- gca peak Optic_Chiasm = 0.39033 (72)
- label assignment complete, 0 changed (0.00%)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.34 x + 0.0
- estimating mean wm scale to be 1.01 x + 0.0
- estimating mean csf scale to be 1.50 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=0.707, neg=0, invalid=762
- 0115: dt=111.722360, rms=0.655 (7.379%), neg=0, invalid=762
- 0116: dt=295.936000, rms=0.647 (1.175%), neg=0, invalid=762
- 0117: dt=443.904000, rms=0.641 (0.910%), neg=0, invalid=762
- 0118: dt=129.472000, rms=0.638 (0.536%), neg=0, invalid=762
- 0119: dt=517.888000, rms=0.633 (0.719%), neg=0, invalid=762
- 0120: dt=221.952000, rms=0.630 (0.514%), neg=0, invalid=762
- 0121: dt=110.976000, rms=0.629 (0.179%), neg=0, invalid=762
- 0122: dt=517.888000, rms=0.627 (0.252%), neg=0, invalid=762
- 0123: dt=110.976000, rms=0.626 (0.185%), neg=0, invalid=762
- 0124: dt=443.904000, rms=0.625 (0.121%), neg=0, invalid=762
- 0125: dt=110.976000, rms=0.625 (0.121%), neg=0, invalid=762
- 0126: dt=295.936000, rms=0.624 (0.052%), neg=0, invalid=762
- 0127: dt=129.472000, rms=0.624 (0.076%), neg=0, invalid=762
- 0128: dt=295.936000, rms=0.624 (0.040%), neg=0, invalid=762
- 0129: dt=295.936000, rms=0.623 (0.063%), neg=0, invalid=762
- 0130: dt=295.936000, rms=0.623 (0.051%), neg=0, invalid=762
- 0131: dt=295.936000, rms=0.621 (0.238%), neg=0, invalid=762
- 0132: dt=295.936000, rms=0.621 (0.136%), neg=0, invalid=762
- 0133: dt=295.936000, rms=0.620 (0.059%), neg=0, invalid=762
- 0134: dt=295.936000, rms=0.619 (0.146%), neg=0, invalid=762
- 0135: dt=295.936000, rms=0.618 (0.134%), neg=0, invalid=762
- 0136: dt=295.936000, rms=0.618 (0.061%), neg=0, invalid=762
- 0137: dt=295.936000, rms=0.617 (0.110%), neg=0, invalid=762
- 0138: dt=295.936000, rms=0.617 (0.122%), neg=0, invalid=762
- 0139: dt=295.936000, rms=0.616 (0.094%), neg=0, invalid=762
- 0140: dt=295.936000, rms=0.616 (0.063%), neg=0, invalid=762
- 0141: dt=295.936000, rms=0.616 (0.027%), neg=0, invalid=762
- 0142: dt=295.936000, rms=0.615 (0.125%), neg=0, invalid=762
- 0143: dt=295.936000, rms=0.614 (0.064%), neg=0, invalid=762
- 0144: dt=295.936000, rms=0.614 (0.016%), neg=0, invalid=762
- 0145: dt=295.936000, rms=0.614 (0.072%), neg=0, invalid=762
- 0146: dt=295.936000, rms=0.613 (0.104%), neg=0, invalid=762
- 0147: dt=295.936000, rms=0.613 (0.014%), neg=0, invalid=762
- 0148: dt=295.936000, rms=0.613 (0.031%), neg=0, invalid=762
- 0149: dt=295.936000, rms=0.612 (0.133%), neg=0, invalid=762
- 0150: dt=295.936000, rms=0.612 (0.061%), neg=0, invalid=762
- 0151: dt=295.936000, rms=0.612 (0.018%), neg=0, invalid=762
- 0152: dt=295.936000, rms=0.611 (0.108%), neg=0, invalid=762
- 0153: dt=295.936000, rms=0.611 (0.059%), neg=0, invalid=762
- 0154: dt=295.936000, rms=0.610 (0.083%), neg=0, invalid=762
- 0155: dt=295.936000, rms=0.610 (0.067%), neg=0, invalid=762
- 0156: dt=295.936000, rms=0.610 (0.002%), neg=0, invalid=762
- 0157: dt=295.936000, rms=0.609 (0.117%), neg=0, invalid=762
- 0158: dt=295.936000, rms=0.608 (0.082%), neg=0, invalid=762
- 0159: dt=295.936000, rms=0.608 (0.010%), neg=0, invalid=762
- 0160: dt=295.936000, rms=0.608 (0.053%), neg=0, invalid=762
- 0161: dt=295.936000, rms=0.608 (0.077%), neg=0, invalid=762
- 0162: dt=295.936000, rms=0.608 (0.002%), neg=0, invalid=762
- 0163: dt=295.936000, rms=0.607 (0.061%), neg=0, invalid=762
- 0164: dt=295.936000, rms=0.607 (0.033%), neg=0, invalid=762
- 0165: dt=295.936000, rms=0.607 (-0.005%), neg=0, invalid=762
- 0166: dt=0.031609, rms=0.607 (0.000%), neg=0, invalid=762
- 0167: dt=0.000000, rms=0.607 (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
- 0168: dt=369.920000, rms=0.606 (0.266%), neg=0, invalid=762
- 0169: dt=129.472000, rms=0.605 (0.070%), neg=0, invalid=762
- 0170: dt=517.888000, rms=0.605 (0.086%), neg=0, invalid=762
- 0171: dt=110.976000, rms=0.604 (0.034%), neg=0, invalid=762
- 0172: dt=110.976000, rms=0.604 (0.026%), neg=0, invalid=762
- 0173: dt=110.976000, rms=0.604 (0.034%), neg=0, invalid=762
- 0174: dt=110.976000, rms=0.604 (0.036%), neg=0, invalid=762
- 0175: dt=110.976000, rms=0.604 (0.036%), neg=0, invalid=762
- 0176: dt=110.976000, rms=0.603 (0.037%), neg=0, invalid=762
- 0177: dt=110.976000, rms=0.603 (0.043%), neg=0, invalid=762
- 0178: dt=110.976000, rms=0.603 (0.046%), neg=0, invalid=762
- 0179: dt=110.976000, rms=0.603 (0.043%), neg=0, invalid=762
- 0180: dt=110.976000, rms=0.602 (0.037%), neg=0, invalid=762
- 0181: dt=110.976000, rms=0.602 (0.031%), neg=0, invalid=762
- 0182: dt=110.976000, rms=0.602 (0.031%), neg=0, invalid=762
- 0183: dt=110.976000, rms=0.602 (0.034%), neg=0, invalid=762
- 0184: dt=110.976000, rms=0.602 (0.035%), neg=0, invalid=762
- 0185: dt=110.976000, rms=0.601 (0.029%), neg=0, invalid=762
- 0186: dt=110.976000, rms=0.601 (0.023%), neg=0, invalid=762
- 0187: dt=110.976000, rms=0.601 (0.024%), neg=0, invalid=762
- 0188: dt=110.976000, rms=0.601 (0.025%), neg=0, invalid=762
- 0189: dt=110.976000, rms=0.601 (0.024%), neg=0, invalid=762
- 0190: dt=1183.744000, rms=0.601 (0.040%), neg=0, invalid=762
- 0191: dt=32.368000, rms=0.601 (0.003%), neg=0, invalid=762
- 0192: dt=32.368000, rms=0.601 (0.001%), neg=0, invalid=762
- 0193: dt=32.368000, rms=0.601 (-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=0.602, neg=0, invalid=762
- 0194: dt=31.104000, rms=0.602 (0.083%), neg=0, invalid=762
- 0195: dt=36.288000, rms=0.601 (0.054%), neg=0, invalid=762
- 0196: dt=145.152000, rms=0.600 (0.163%), neg=0, invalid=762
- 0197: dt=414.720000, rms=0.594 (1.014%), neg=0, invalid=762
- 0198: dt=36.288000, rms=0.593 (0.248%), neg=0, invalid=762
- 0199: dt=62.208000, rms=0.592 (0.078%), neg=0, invalid=762
- 0200: dt=580.608000, rms=0.587 (0.924%), neg=0, invalid=762
- 0201: dt=63.418182, rms=0.586 (0.183%), neg=0, invalid=762
- 0202: dt=331.776000, rms=0.584 (0.371%), neg=0, invalid=762
- 0203: dt=36.288000, rms=0.583 (0.097%), neg=0, invalid=762
- 0204: dt=62.208000, rms=0.583 (0.030%), neg=0, invalid=762
- 0205: dt=62.208000, rms=0.583 (0.064%), neg=0, invalid=762
- 0206: dt=62.208000, rms=0.582 (0.114%), neg=0, invalid=762
- 0207: dt=62.208000, rms=0.581 (0.143%), neg=0, invalid=762
- 0208: dt=62.208000, rms=0.580 (0.181%), neg=0, invalid=762
- 0209: dt=62.208000, rms=0.579 (0.222%), neg=0, invalid=762
- 0210: dt=62.208000, rms=0.577 (0.238%), neg=0, invalid=762
- 0211: dt=62.208000, rms=0.576 (0.243%), neg=0, invalid=762
- 0212: dt=62.208000, rms=0.575 (0.225%), neg=0, invalid=762
- 0213: dt=62.208000, rms=0.573 (0.204%), neg=0, invalid=762
- 0214: dt=62.208000, rms=0.573 (0.031%), neg=0, invalid=762
- 0215: dt=62.208000, rms=0.573 (0.062%), neg=0, invalid=762
- 0216: dt=62.208000, rms=0.573 (0.074%), neg=0, invalid=762
- 0217: dt=62.208000, rms=0.572 (0.029%), neg=0, invalid=762
- 0218: dt=62.208000, rms=0.572 (0.044%), neg=0, invalid=762
- 0219: dt=62.208000, rms=0.572 (0.021%), neg=0, invalid=762
- 0220: dt=7.776000, rms=0.572 (0.004%), neg=0, invalid=762
- 0221: dt=2.268000, rms=0.572 (0.001%), neg=0, invalid=762
- 0222: dt=2.268000, rms=0.572 (0.001%), neg=0, invalid=762
- 0223: dt=1.134000, rms=0.572 (0.000%), neg=0, invalid=762
- 0224: dt=0.141750, rms=0.572 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.572, neg=0, invalid=762
- 0225: dt=136.278607, rms=0.569 (0.635%), neg=0, invalid=762
- 0226: dt=36.288000, rms=0.568 (0.152%), neg=0, invalid=762
- 0227: dt=145.152000, rms=0.567 (0.141%), neg=0, invalid=762
- 0228: dt=124.416000, rms=0.566 (0.189%), neg=0, invalid=762
- 0229: dt=36.288000, rms=0.565 (0.066%), neg=0, invalid=762
- 0230: dt=145.152000, rms=0.565 (0.071%), neg=0, invalid=762
- 0231: dt=124.416000, rms=0.564 (0.138%), neg=0, invalid=762
- 0232: dt=36.288000, rms=0.564 (0.031%), neg=0, invalid=762
- 0233: dt=36.288000, rms=0.564 (0.019%), neg=0, invalid=762
- 0234: dt=36.288000, rms=0.564 (0.034%), neg=0, invalid=762
- 0235: dt=36.288000, rms=0.563 (0.057%), neg=0, invalid=762
- 0236: dt=36.288000, rms=0.563 (0.077%), neg=0, invalid=762
- 0237: dt=36.288000, rms=0.563 (0.086%), neg=0, invalid=762
- 0238: dt=36.288000, rms=0.562 (0.092%), neg=0, invalid=762
- 0239: dt=36.288000, rms=0.561 (0.090%), neg=0, invalid=762
- 0240: dt=36.288000, rms=0.561 (0.087%), neg=0, invalid=762
- 0241: dt=36.288000, rms=0.561 (0.085%), neg=0, invalid=762
- 0242: dt=36.288000, rms=0.560 (0.093%), neg=0, invalid=762
- 0243: dt=36.288000, rms=0.559 (0.097%), neg=0, invalid=762
- 0244: dt=36.288000, rms=0.559 (0.097%), neg=0, invalid=762
- 0245: dt=36.288000, rms=0.558 (0.094%), neg=0, invalid=762
- 0246: dt=36.288000, rms=0.558 (0.091%), neg=0, invalid=762
- 0247: dt=36.288000, rms=0.557 (0.083%), neg=0, invalid=762
- 0248: dt=36.288000, rms=0.557 (0.084%), neg=0, invalid=762
- 0249: dt=36.288000, rms=0.556 (0.081%), neg=0, invalid=762
- 0250: dt=36.288000, rms=0.556 (0.073%), neg=0, invalid=762
- 0251: dt=36.288000, rms=0.556 (0.069%), neg=0, invalid=762
- 0252: dt=36.288000, rms=0.555 (0.073%), neg=0, invalid=762
- 0253: dt=36.288000, rms=0.555 (0.066%), neg=0, invalid=762
- 0254: dt=36.288000, rms=0.555 (0.067%), neg=0, invalid=762
- 0255: dt=36.288000, rms=0.554 (0.063%), neg=0, invalid=762
- 0256: dt=36.288000, rms=0.554 (0.061%), neg=0, invalid=762
- 0257: dt=36.288000, rms=0.554 (0.056%), neg=0, invalid=762
- 0258: dt=36.288000, rms=0.553 (0.056%), neg=0, invalid=762
- 0259: dt=36.288000, rms=0.553 (0.059%), neg=0, invalid=762
- 0260: dt=36.288000, rms=0.553 (0.060%), neg=0, invalid=762
- 0261: dt=36.288000, rms=0.552 (0.054%), neg=0, invalid=762
- 0262: dt=36.288000, rms=0.552 (0.053%), neg=0, invalid=762
- 0263: dt=36.288000, rms=0.552 (0.049%), neg=0, invalid=762
- 0264: dt=36.288000, rms=0.552 (0.006%), neg=0, invalid=762
- 0265: dt=36.288000, rms=0.552 (0.006%), neg=0, invalid=762
- 0266: dt=145.152000, rms=0.552 (0.029%), neg=0, invalid=762
- 0267: dt=2.268000, rms=0.552 (-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=0.558, neg=0, invalid=762
- 0268: dt=0.010937, rms=0.558 (0.030%), neg=0, invalid=762
- 0269: dt=0.007812, rms=0.558 (0.000%), neg=0, invalid=762
- 0270: dt=0.000488, rms=0.558 (0.000%), neg=0, invalid=762
- 0271: dt=0.000122, rms=0.558 (0.000%), neg=0, invalid=762
- 0272: dt=0.000015, rms=0.558 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.558, neg=0, invalid=762
- 0273: dt=99.609387, rms=0.552 (1.192%), neg=0, invalid=762
- 0274: dt=2.800000, rms=0.551 (0.117%), neg=0, invalid=762
- 0275: dt=2.800000, rms=0.551 (0.096%), neg=0, invalid=762
- 0276: dt=0.700000, rms=0.551 (0.023%), neg=0, invalid=762
- 0277: dt=0.350000, rms=0.550 (0.011%), neg=0, invalid=762
- 0278: dt=0.175000, rms=0.550 (0.005%), neg=0, invalid=762
- 0279: dt=0.005469, rms=0.550 (-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=0.567, neg=0, invalid=762
- 0280: dt=16.128000, rms=0.554 (2.288%), neg=0, invalid=762
- 0281: dt=16.128000, rms=0.549 (1.010%), neg=0, invalid=762
- 0282: dt=16.380952, rms=0.547 (0.364%), neg=0, invalid=762
- 0283: dt=11.398693, rms=0.546 (0.214%), neg=0, invalid=762
- 0284: dt=16.202532, rms=0.544 (0.231%), neg=0, invalid=762
- 0285: dt=7.768116, rms=0.544 (0.101%), neg=0, invalid=762
- 0286: dt=16.128000, rms=0.543 (0.149%), neg=0, invalid=762
- 0287: dt=11.600000, rms=0.543 (0.059%), neg=0, invalid=762
- 0288: dt=10.285714, rms=0.542 (0.059%), neg=0, invalid=762
- 0289: dt=12.400000, rms=0.542 (0.066%), neg=0, invalid=762
- 0290: dt=8.000000, rms=0.542 (0.041%), neg=0, invalid=762
- 0291: dt=8.000000, rms=0.542 (0.046%), neg=0, invalid=762
- 0292: dt=8.000000, rms=0.541 (0.066%), neg=0, invalid=762
- 0293: dt=8.000000, rms=0.541 (0.079%), neg=0, invalid=762
- 0294: dt=8.000000, rms=0.540 (0.084%), neg=0, invalid=762
- 0295: dt=8.000000, rms=0.540 (0.108%), neg=0, invalid=762
- 0296: dt=8.000000, rms=0.539 (0.089%), neg=0, invalid=762
- 0297: dt=8.000000, rms=0.539 (0.087%), neg=0, invalid=762
- 0298: dt=8.000000, rms=0.538 (0.070%), neg=0, invalid=762
- 0299: dt=8.000000, rms=0.538 (0.080%), neg=0, invalid=762
- 0300: dt=8.000000, rms=0.538 (0.077%), neg=0, invalid=762
- 0301: dt=8.000000, rms=0.538 (-0.015%), neg=0, invalid=762
- 0302: dt=0.000000, rms=0.538 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.538, neg=0, invalid=762
- 0303: dt=12.106195, rms=0.536 (0.389%), neg=0, invalid=762
- 0304: dt=13.333333, rms=0.535 (0.149%), neg=0, invalid=762
- 0305: dt=6.000000, rms=0.535 (0.034%), neg=0, invalid=762
- 0306: dt=6.000000, rms=0.535 (0.044%), neg=0, invalid=762
- 0307: dt=6.000000, rms=0.534 (0.062%), neg=0, invalid=762
- 0308: dt=6.000000, rms=0.534 (0.061%), neg=0, invalid=762
- 0309: dt=6.000000, rms=0.534 (0.061%), neg=0, invalid=762
- 0310: dt=6.000000, rms=0.533 (0.066%), neg=0, invalid=762
- 0311: dt=6.000000, rms=0.533 (0.070%), neg=0, invalid=762
- 0312: dt=6.000000, rms=0.532 (0.073%), neg=0, invalid=762
- 0313: dt=6.000000, rms=0.532 (0.074%), neg=0, invalid=762
- 0314: dt=6.000000, rms=0.532 (0.081%), neg=0, invalid=762
- 0315: dt=6.000000, rms=0.531 (0.084%), neg=0, invalid=762
- 0316: dt=6.000000, rms=0.531 (0.081%), neg=0, invalid=762
- 0317: dt=6.000000, rms=0.530 (0.084%), neg=0, invalid=762
- 0318: dt=6.000000, rms=0.530 (0.076%), neg=0, invalid=762
- 0319: dt=6.000000, rms=0.530 (0.071%), neg=0, invalid=762
- 0320: dt=6.000000, rms=0.529 (0.063%), neg=0, invalid=762
- 0321: dt=6.000000, rms=0.529 (0.058%), neg=0, invalid=762
- 0322: dt=6.000000, rms=0.529 (0.057%), neg=0, invalid=762
- 0323: dt=6.000000, rms=0.528 (0.054%), neg=0, invalid=762
- 0324: dt=6.000000, rms=0.528 (0.050%), neg=0, invalid=762
- 0325: dt=6.000000, rms=0.528 (0.053%), neg=0, invalid=762
- 0326: dt=6.000000, rms=0.528 (0.045%), neg=0, invalid=762
- 0327: dt=6.000000, rms=0.527 (0.036%), neg=0, invalid=762
- 0328: dt=6.000000, rms=0.527 (0.034%), neg=0, invalid=762
- 0329: dt=6.000000, rms=0.527 (0.030%), neg=0, invalid=762
- 0330: dt=6.000000, rms=0.527 (0.031%), neg=0, invalid=762
- 0331: dt=6.000000, rms=0.527 (0.029%), neg=0, invalid=762
- 0332: dt=6.000000, rms=0.527 (0.024%), neg=0, invalid=762
- 0333: dt=6.000000, rms=0.526 (0.025%), neg=0, invalid=762
- 0334: dt=6.000000, rms=0.526 (0.024%), neg=0, invalid=762
- 0335: dt=6.000000, rms=0.526 (0.025%), neg=0, invalid=762
- 0336: dt=6.000000, rms=0.526 (0.019%), neg=0, invalid=762
- 0337: dt=6.000000, rms=0.526 (0.026%), neg=0, invalid=762
- 0338: dt=6.000000, rms=0.526 (0.026%), neg=0, invalid=762
- 0339: dt=6.000000, rms=0.526 (0.024%), neg=0, invalid=762
- 0340: dt=6.000000, rms=0.526 (0.019%), neg=0, invalid=762
- 0341: dt=6.912000, rms=0.526 (0.002%), neg=0, invalid=762
- 0342: dt=6.912000, rms=0.526 (0.002%), neg=0, invalid=762
- 0343: dt=6.912000, rms=0.526 (0.003%), neg=0, invalid=762
- 0344: dt=6.912000, rms=0.525 (0.004%), neg=0, invalid=762
- 0345: dt=6.912000, rms=0.526 (-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=0.540, neg=0, invalid=762
- 0346: dt=0.000000, rms=0.540 (0.043%), neg=0, invalid=762
- 0347: dt=0.000000, rms=0.540 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.540, neg=0, invalid=762
- 0348: dt=0.000000, rms=0.540 (0.043%), neg=0, invalid=762
- 0349: dt=0.000000, rms=0.540 (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=0.516, neg=0, invalid=762
- 0350: dt=0.448000, rms=0.503 (2.451%), neg=0, invalid=762
- 0351: dt=0.448000, rms=0.501 (0.420%), neg=0, invalid=762
- 0352: dt=0.448000, rms=0.500 (0.273%), neg=0, invalid=762
- 0353: dt=0.448000, rms=0.499 (0.126%), neg=0, invalid=762
- 0354: dt=0.448000, rms=0.499 (0.125%), neg=0, invalid=762
- 0355: dt=0.448000, rms=0.498 (0.057%), neg=0, invalid=762
- 0356: dt=0.448000, rms=0.498 (0.078%), neg=0, invalid=762
- 0357: dt=0.384000, rms=0.498 (0.029%), neg=0, invalid=762
- 0358: dt=0.384000, rms=0.498 (0.054%), neg=0, invalid=762
- 0359: dt=0.384000, rms=0.497 (0.070%), neg=0, invalid=762
- 0360: dt=0.384000, rms=0.497 (0.004%), neg=0, invalid=762
- 0361: dt=0.384000, rms=0.497 (0.035%), neg=0, invalid=762
- 0362: dt=0.384000, rms=0.497 (0.056%), neg=0, invalid=762
- 0363: dt=0.384000, rms=0.497 (0.048%), neg=0, invalid=762
- 0364: dt=0.384000, rms=0.497 (-0.008%), neg=0, invalid=762
- 0365: dt=0.112000, rms=0.497 (0.002%), neg=0, invalid=762
- 0366: dt=0.320000, rms=0.497 (0.007%), neg=0, invalid=762
- 0367: dt=0.256000, rms=0.497 (0.003%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.497, neg=0, invalid=762
- 0368: dt=0.384000, rms=0.492 (0.911%), neg=0, invalid=762
- 0369: dt=0.384000, rms=0.491 (0.258%), neg=0, invalid=762
- 0370: dt=0.112000, rms=0.491 (0.033%), neg=0, invalid=762
- 0371: dt=0.112000, rms=0.491 (0.029%), neg=0, invalid=762
- 0372: dt=0.112000, rms=0.490 (0.045%), neg=0, invalid=762
- 0373: dt=0.112000, rms=0.490 (0.052%), neg=0, invalid=762
- 0374: dt=0.112000, rms=0.490 (0.046%), neg=0, invalid=762
- 0375: dt=0.112000, rms=0.490 (0.033%), neg=0, invalid=762
- 0376: dt=0.112000, rms=0.490 (0.017%), neg=0, invalid=762
- 0377: dt=0.112000, rms=0.490 (0.002%), neg=0, invalid=762
- 0378: dt=0.000000, rms=0.490 (-0.002%), neg=0, invalid=762
- label assignment complete, 0 changed (0.00%)
- ********************* ALLOWING NEGATIVE NODES IN DEFORMATION********************************
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.008
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.488, neg=0, invalid=762
- 0379: dt=0.000000, rms=0.488 (0.057%), neg=0, invalid=762
- 0380: dt=0.000000, rms=0.488 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.488, neg=0, invalid=762
- 0381: dt=0.000000, rms=0.488 (0.057%), neg=0, invalid=762
- 0382: dt=0.000000, rms=0.488 (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=0.488, neg=0, invalid=762
- 0383: dt=1.944000, rms=0.488 (0.058%), neg=0, invalid=762
- 0384: dt=0.567000, rms=0.488 (0.000%), neg=0, invalid=762
- 0385: dt=0.567000, rms=0.488 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.488, neg=0, invalid=762
- 0386: dt=82.944000, rms=0.487 (0.202%), neg=0, invalid=762
- 0387: dt=124.416000, rms=0.486 (0.219%), neg=0, invalid=762
- 0388: dt=23.111111, rms=0.486 (0.046%), neg=0, invalid=762
- 0389: dt=23.111111, rms=0.486 (0.013%), neg=0, invalid=762
- 0390: dt=23.111111, rms=0.486 (0.013%), neg=0, invalid=762
- 0391: dt=23.111111, rms=0.485 (0.031%), neg=0, invalid=762
- 0392: dt=23.111111, rms=0.485 (0.061%), neg=0, invalid=762
- 0393: dt=23.111111, rms=0.485 (0.080%), neg=0, invalid=762
- 0394: dt=23.111111, rms=0.484 (0.080%), neg=0, invalid=762
- 0395: dt=23.111111, rms=0.484 (0.062%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.485, neg=0, invalid=762
- 0396: dt=2.800000, rms=0.484 (0.062%), neg=0, invalid=762
- 0397: dt=2.800000, rms=0.484 (0.010%), neg=0, invalid=762
- 0398: dt=2.800000, rms=0.484 (0.003%), neg=0, invalid=762
- 0399: dt=2.800000, rms=0.484 (-0.014%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.484, neg=0, invalid=762
- 0400: dt=71.489362, rms=0.479 (1.014%), neg=0, invalid=762
- 0401: dt=19.278689, rms=0.477 (0.428%), neg=0, invalid=762
- 0402: dt=44.800000, rms=0.476 (0.217%), neg=0, invalid=762
- 0403: dt=44.800000, rms=0.476 (-0.132%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.478, neg=0, invalid=762
- 0404: dt=6.444444, rms=0.477 (0.345%), neg=0, invalid=762
- 0405: dt=5.333333, rms=0.476 (0.063%), neg=0, invalid=762
- 0406: dt=5.333333, rms=0.476 (0.030%), neg=0, invalid=762
- 0407: dt=5.333333, rms=0.476 (-0.012%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.476, neg=0, invalid=762
- 0408: dt=15.431472, rms=0.471 (1.187%), neg=0, invalid=762
- 0409: dt=8.396694, rms=0.470 (0.226%), neg=0, invalid=762
- 0410: dt=8.396694, rms=0.469 (0.149%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 1 iterations, nbhd size=0, neg = 0
- 0411: dt=8.396694, rms=0.468 (0.196%), neg=0, invalid=762
- 0412: dt=8.396694, rms=0.467 (0.216%), neg=0, invalid=762
- 0413: dt=8.396694, rms=0.466 (0.229%), neg=0, invalid=762
- 0414: dt=8.396694, rms=0.465 (0.238%), neg=0, invalid=762
- 0415: dt=8.396694, rms=0.464 (0.205%), neg=0, invalid=762
- 0416: dt=8.396694, rms=0.463 (0.157%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0417: dt=8.396694, rms=0.463 (0.106%), neg=0, invalid=762
- 0418: dt=8.396694, rms=0.462 (0.087%), neg=0, invalid=762
- 0419: dt=4.032000, rms=0.462 (0.019%), neg=0, invalid=762
- 0420: dt=4.032000, rms=0.462 (0.005%), neg=0, invalid=762
- 0421: dt=4.032000, rms=0.462 (-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=0.467, neg=0, invalid=762
- 0422: dt=0.000000, rms=0.467 (0.059%), neg=0, invalid=762
- 0423: dt=0.000000, rms=0.467 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.467, neg=0, invalid=762
- 0424: dt=0.000000, rms=0.467 (0.059%), neg=0, invalid=762
- 0425: dt=0.000000, rms=0.467 (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=0.459, neg=0, invalid=762
- iter 0, gcam->neg = 512
- after 14 iterations, nbhd size=1, neg = 0
- 0426: dt=1.550225, rms=0.445 (3.070%), neg=0, invalid=762
- 0427: dt=0.000013, rms=0.445 (0.005%), neg=0, invalid=762
- 0428: 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=0.445, neg=0, invalid=762
- 0429: dt=0.112000, rms=0.445 (0.152%), neg=0, invalid=762
- 0430: dt=0.024000, rms=0.445 (0.006%), neg=0, invalid=762
- 0431: dt=0.024000, rms=0.445 (0.001%), neg=0, invalid=762
- 0432: dt=0.024000, rms=0.445 (-0.016%), neg=0, invalid=762
- label assignment complete, 0 changed (0.00%)
- label assignment complete, 0 changed (0.00%)
- ***************** morphing with label term set to 0 *******************************
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.008
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.438, neg=0, invalid=762
- 0433: dt=0.000000, rms=0.438 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.438, neg=0, invalid=762
- 0434: dt=0.000000, rms=0.438 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.438, neg=0, invalid=762
- 0435: dt=0.000000, rms=0.438 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.438, neg=0, invalid=762
- 0436: dt=9.072000, rms=0.438 (0.004%), neg=0, invalid=762
- 0437: dt=9.072000, rms=0.438 (0.002%), neg=0, invalid=762
- 0438: dt=9.072000, rms=0.438 (0.001%), neg=0, invalid=762
- 0439: dt=9.072000, rms=0.438 (-0.002%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.438, neg=0, invalid=762
- 0440: dt=0.700000, rms=0.438 (0.002%), neg=0, invalid=762
- 0441: dt=0.600000, rms=0.438 (0.001%), neg=0, invalid=762
- 0442: dt=0.600000, rms=0.438 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.438, neg=0, invalid=762
- 0443: dt=44.800000, rms=0.436 (0.408%), neg=0, invalid=762
- 0444: dt=44.800000, rms=0.435 (0.242%), neg=0, invalid=762
- 0445: dt=44.800000, rms=0.435 (0.063%), neg=0, invalid=762
- 0446: dt=44.800000, rms=0.434 (0.297%), neg=0, invalid=762
- 0447: dt=44.800000, rms=0.433 (0.218%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 1 iterations, nbhd size=0, neg = 0
- 0448: dt=44.800000, rms=0.432 (0.187%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 5 iterations, nbhd size=0, neg = 0
- 0449: dt=44.800000, rms=0.431 (0.124%), neg=0, invalid=762
- iter 0, gcam->neg = 8
- after 1 iterations, nbhd size=0, neg = 0
- 0450: dt=44.800000, rms=0.431 (0.133%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 3 iterations, nbhd size=0, neg = 0
- 0451: dt=44.800000, rms=0.430 (0.143%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0452: dt=44.800000, rms=0.430 (0.048%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 4 iterations, nbhd size=0, neg = 0
- 0453: dt=44.800000, rms=0.430 (0.031%), neg=0, invalid=762
- 0454: dt=11.200000, rms=0.430 (0.052%), neg=0, invalid=762
- 0455: dt=32.000000, rms=0.430 (0.023%), neg=0, invalid=762
- 0456: dt=32.000000, rms=0.430 (0.005%), neg=0, invalid=762
- 0457: dt=32.000000, rms=0.429 (0.009%), neg=0, invalid=762
- 0458: dt=32.000000, rms=0.429 (0.010%), neg=0, invalid=762
- 0459: dt=32.000000, rms=0.429 (0.003%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0460: dt=32.000000, rms=0.429 (-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=0.433, neg=0, invalid=762
- 0461: dt=0.000000, rms=0.433 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.433, neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0462: dt=8.920354, rms=0.432 (0.113%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 2 iterations, nbhd size=0, neg = 0
- 0463: dt=16.242424, rms=0.432 (0.121%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 8 iterations, nbhd size=0, neg = 0
- 0464: dt=27.076923, rms=0.431 (0.135%), neg=0, invalid=762
- iter 0, gcam->neg = 9
- after 2 iterations, nbhd size=0, neg = 0
- 0465: dt=11.520000, rms=0.431 (0.137%), neg=0, invalid=762
- 0466: dt=7.542857, rms=0.430 (0.050%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0467: dt=7.542857, rms=0.430 (0.056%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0468: dt=7.542857, rms=0.430 (0.072%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 2 iterations, nbhd size=0, neg = 0
- 0469: dt=7.542857, rms=0.429 (0.082%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0470: dt=7.542857, rms=0.429 (0.077%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 1 iterations, nbhd size=0, neg = 0
- 0471: dt=7.542857, rms=0.429 (0.083%), neg=0, invalid=762
- iter 0, gcam->neg = 14
- after 3 iterations, nbhd size=0, neg = 0
- 0472: dt=7.542857, rms=0.429 (0.062%), 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
- 0473: 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
- 0474: dt=-0.000190, rms=0.432 (0.000%), neg=0, invalid=762
- 0475: 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=0.426, neg=0, invalid=762
- iter 0, gcam->neg = 293
- after 15 iterations, nbhd size=1, neg = 0
- 0476: dt=1.024000, rms=0.421 (1.071%), neg=0, invalid=762
- 0477: dt=0.000027, rms=0.421 (0.000%), neg=0, invalid=762
- 0478: dt=0.000027, rms=0.421 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.421, neg=0, invalid=762
- 0479: dt=0.256000, rms=0.420 (0.241%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0480: dt=0.448000, rms=0.419 (0.306%), neg=0, invalid=762
- 0481: dt=0.477273, rms=0.418 (0.269%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 2 iterations, nbhd size=0, neg = 0
- 0482: dt=0.384000, rms=0.418 (0.096%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0483: dt=0.384000, rms=0.417 (0.068%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 0 iterations, nbhd size=0, neg = 0
- 0484: dt=0.384000, rms=0.417 (0.114%), neg=0, invalid=762
- iter 0, gcam->neg = 8
- after 2 iterations, nbhd size=0, neg = 0
- 0485: dt=0.384000, rms=0.416 (0.093%), neg=0, invalid=762
- iter 0, gcam->neg = 17
- after 10 iterations, nbhd size=1, neg = 0
- 0486: dt=0.384000, rms=0.416 (0.009%), neg=0, invalid=762
- 0487: dt=0.192000, rms=0.416 (0.030%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 3 iterations, nbhd size=0, neg = 0
- 0488: dt=0.448000, rms=0.416 (0.038%), neg=0, invalid=762
- 0489: dt=0.024000, rms=0.416 (0.000%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 2 hours, 25 minutes and 53 seconds.
- mri_ca_register utimesec 9751.347569
- mri_ca_register stimesec 10.807357
- mri_ca_register ru_maxrss 1338904
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 5722243
- mri_ca_register ru_majflt 0
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 0
- mri_ca_register ru_oublock 65512
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 5411
- mri_ca_register ru_nivcsw 34834
- FSRUNTIME@ mri_ca_register 2.4315 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Sat Oct 7 19:13:04 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-910
- 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-6.0.0/0051473/mri
- mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca aseg.auto_noCCseg.mgz
- == Number of threads available to mri_ca_label for OpenMP = 2 ==
- relabeling unlikely voxels with window_size = 9 and prior threshold 0.30
- using Gibbs prior factor = 0.500
- renormalizing sequences with structure alignment, equivalent to:
- -renormalize
- -renormalize_mean 0.500
- -regularize 0.500
- reading 1 input volumes
- reading classifier array from /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
- reading input volume from norm.mgz
- average std[0] = 7.3
- reading transform from transforms/talairach.m3z
- setting orig areas to linear transform determinant scaled 7.98
- 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 = 0.14156 (30)
- Left_Lateral_Ventricle (4): linear fit = 1.59 x + 0.0 (516 voxels, overlap=0.084)
- Left_Lateral_Ventricle (4): linear fit = 1.50 x + 0.0 (516 voxels, peak = 32), gca=30.0
- gca peak = 0.17677 (13)
- mri peak = 0.14862 (31)
- Right_Lateral_Ventricle (43): linear fit = 2.15 x + 0.0 (562 voxels, overlap=0.083)
- Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (562 voxels, peak = 28), gca=19.5
- gca peak = 0.28129 (95)
- mri peak = 0.15963 (94)
- Right_Pallidum (52): linear fit = 0.98 x + 0.0 (754 voxels, overlap=1.005)
- Right_Pallidum (52): linear fit = 0.98 x + 0.0 (754 voxels, peak = 93), gca=92.6
- gca peak = 0.16930 (96)
- mri peak = 0.12327 (95)
- Left_Pallidum (13): linear fit = 0.98 x + 0.0 (867 voxels, overlap=1.009)
- Left_Pallidum (13): linear fit = 0.98 x + 0.0 (867 voxels, peak = 94), gca=93.6
- gca peak = 0.24553 (55)
- mri peak = 0.12389 (72)
- Right_Hippocampus (53): linear fit = 1.26 x + 0.0 (1243 voxels, overlap=0.017)
- Right_Hippocampus (53): linear fit = 1.26 x + 0.0 (1243 voxels, peak = 70), gca=69.6
- gca peak = 0.30264 (59)
- mri peak = 0.10975 (76)
- Left_Hippocampus (17): linear fit = 1.29 x + 0.0 (1139 voxels, overlap=0.019)
- Left_Hippocampus (17): linear fit = 1.29 x + 0.0 (1139 voxels, peak = 76), gca=76.4
- gca peak = 0.07580 (103)
- mri peak = 0.12808 (103)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (66483 voxels, overlap=0.728)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (66483 voxels, peak = 102), gca=102.5
- gca peak = 0.07714 (104)
- mri peak = 0.11986 (103)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (67868 voxels, overlap=0.732)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (67868 voxels, peak = 103), gca=103.5
- gca peak = 0.09712 (58)
- mri peak = 0.04823 (84)
- Left_Cerebral_Cortex (3): linear fit = 1.40 x + 0.0 (44726 voxels, overlap=0.000)
- Left_Cerebral_Cortex (3): linear fit = 1.40 x + 0.0 (44726 voxels, peak = 81), gca=81.5
- gca peak = 0.11620 (58)
- mri peak = 0.04538 (78)
- Right_Cerebral_Cortex (42): linear fit = 1.40 x + 0.0 (41251 voxels, overlap=0.000)
- Right_Cerebral_Cortex (42): linear fit = 1.40 x + 0.0 (41251 voxels, peak = 81), gca=81.5
- gca peak = 0.30970 (66)
- mri peak = 0.13499 (84)
- Right_Caudate (50): linear fit = 1.24 x + 0.0 (884 voxels, overlap=0.018)
- Right_Caudate (50): linear fit = 1.24 x + 0.0 (884 voxels, peak = 82), gca=81.5
- gca peak = 0.15280 (69)
- mri peak = 0.15489 (81)
- Left_Caudate (11): linear fit = 1.07 x + 0.0 (884 voxels, overlap=0.426)
- Left_Caudate (11): linear fit = 1.07 x + 0.0 (884 voxels, peak = 73), gca=73.5
- gca peak = 0.13902 (56)
- mri peak = 0.06249 (75)
- Left_Cerebellum_Cortex (8): linear fit = 1.38 x + 0.0 (26264 voxels, overlap=0.001)
- Left_Cerebellum_Cortex (8): linear fit = 1.38 x + 0.0 (26264 voxels, peak = 77), gca=77.0
- gca peak = 0.14777 (55)
- mri peak = 0.05713 (77)
- Right_Cerebellum_Cortex (47): linear fit = 1.38 x + 0.0 (28877 voxels, overlap=0.001)
- Right_Cerebellum_Cortex (47): linear fit = 1.38 x + 0.0 (28877 voxels, peak = 76), gca=75.6
- gca peak = 0.16765 (84)
- mri peak = 0.12306 (87)
- Left_Cerebellum_White_Matter (7): linear fit = 1.07 x + 0.0 (7484 voxels, overlap=0.729)
- Left_Cerebellum_White_Matter (7): linear fit = 1.07 x + 0.0 (7484 voxels, peak = 89), gca=89.5
- gca peak = 0.18739 (84)
- mri peak = 0.10565 (89)
- Right_Cerebellum_White_Matter (46): linear fit = 1.07 x + 0.0 (6749 voxels, overlap=0.671)
- Right_Cerebellum_White_Matter (46): linear fit = 1.07 x + 0.0 (6749 voxels, peak = 89), gca=89.5
- gca peak = 0.29869 (57)
- mri peak = 0.11581 (77)
- Left_Amygdala (18): linear fit = 1.30 x + 0.0 (543 voxels, overlap=0.057)
- Left_Amygdala (18): linear fit = 1.30 x + 0.0 (543 voxels, peak = 74), gca=74.4
- gca peak = 0.33601 (57)
- mri peak = 0.12036 (72)
- Right_Amygdala (54): linear fit = 1.26 x + 0.0 (672 voxels, overlap=0.042)
- Right_Amygdala (54): linear fit = 1.26 x + 0.0 (672 voxels, peak = 72), gca=72.1
- gca peak = 0.11131 (90)
- mri peak = 0.09068 (89)
- Left_Thalamus_Proper (10): linear fit = 1.02 x + 0.0 (5208 voxels, overlap=0.832)
- Left_Thalamus_Proper (10): linear fit = 1.02 x + 0.0 (5208 voxels, peak = 92), gca=92.2
- gca peak = 0.11793 (83)
- mri peak = 0.08139 (90)
- Right_Thalamus_Proper (49): linear fit = 1.08 x + 0.0 (4938 voxels, overlap=0.753)
- Right_Thalamus_Proper (49): linear fit = 1.08 x + 0.0 (4938 voxels, peak = 89), gca=89.2
- gca peak = 0.08324 (81)
- mri peak = 0.11077 (87)
- Left_Putamen (12): linear fit = 1.08 x + 0.0 (1950 voxels, overlap=0.426)
- Left_Putamen (12): linear fit = 1.08 x + 0.0 (1950 voxels, peak = 87), gca=87.1
- gca peak = 0.10360 (77)
- mri peak = 0.10410 (84)
- Right_Putamen (51): linear fit = 1.08 x + 0.0 (2363 voxels, overlap=0.546)
- Right_Putamen (51): linear fit = 1.08 x + 0.0 (2363 voxels, peak = 83), gca=82.8
- gca peak = 0.08424 (78)
- mri peak = 0.09754 (84)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (13728 voxels, overlap=0.476)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (13728 voxels, peak = 83), gca=83.1
- gca peak = 0.12631 (89)
- mri peak = 0.09346 (92)
- Right_VentralDC (60): linear fit = 1.03 x + 0.0 (1729 voxels, overlap=0.737)
- Right_VentralDC (60): linear fit = 1.03 x + 0.0 (1729 voxels, peak = 92), gca=92.1
- gca peak = 0.14500 (87)
- mri peak = 0.09156 (91)
- Left_VentralDC (28): linear fit = 1.07 x + 0.0 (1806 voxels, overlap=0.723)
- Left_VentralDC (28): linear fit = 1.07 x + 0.0 (1806 voxels, peak = 93), gca=92.7
- gca peak = 0.14975 (24)
- mri peak = 0.19048 (28)
- gca peak = 0.19357 (14)
- mri peak = 0.14888 (32)
- Fourth_Ventricle (15): linear fit = 2.07 x + 0.0 (409 voxels, overlap=0.115)
- Fourth_Ventricle (15): linear fit = 2.07 x + 0.0 (409 voxels, peak = 29), gca=28.9
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16825 (27)
- gca peak Left_Thalamus = 1.00000 (94)
- gca peak Third_Ventricle = 0.14975 (24)
- gca peak Fourth_Ventricle = 0.19357 (14)
- 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 1.32 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 1.50 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.12544 (31)
- mri peak = 0.14156 (30)
- Left_Lateral_Ventricle (4): linear fit = 1.08 x + 0.0 (516 voxels, overlap=0.717)
- Left_Lateral_Ventricle (4): linear fit = 1.08 x + 0.0 (516 voxels, peak = 33), gca=33.3
- gca peak = 0.13981 (19)
- mri peak = 0.14862 (31)
- Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (562 voxels, overlap=0.297)
- Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (562 voxels, peak = 28), gca=28.4
- gca peak = 0.25137 (91)
- mri peak = 0.15963 (94)
- Right_Pallidum (52): linear fit = 1.01 x + 0.0 (754 voxels, overlap=1.000)
- Right_Pallidum (52): linear fit = 1.01 x + 0.0 (754 voxels, peak = 92), gca=92.4
- gca peak = 0.20254 (94)
- mri peak = 0.12327 (95)
- Left_Pallidum (13): linear fit = 1.01 x + 0.0 (867 voxels, overlap=1.005)
- Left_Pallidum (13): linear fit = 1.01 x + 0.0 (867 voxels, peak = 95), gca=95.4
- gca peak = 0.20044 (70)
- mri peak = 0.12389 (72)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (1243 voxels, overlap=0.985)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (1243 voxels, peak = 70), gca=70.0
- gca peak = 0.25605 (73)
- mri peak = 0.10975 (76)
- Left_Hippocampus (17): linear fit = 0.99 x + 0.0 (1139 voxels, overlap=1.002)
- Left_Hippocampus (17): linear fit = 0.99 x + 0.0 (1139 voxels, peak = 72), gca=71.9
- gca peak = 0.07830 (102)
- mri peak = 0.12808 (103)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (66483 voxels, overlap=0.713)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (66483 voxels, peak = 102), gca=102.0
- gca peak = 0.08042 (104)
- mri peak = 0.11986 (103)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (67868 voxels, overlap=0.722)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (67868 voxels, peak = 103), gca=103.5
- gca peak = 0.06961 (81)
- mri peak = 0.04823 (84)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (44726 voxels, overlap=0.959)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (44726 voxels, peak = 81), gca=81.0
- gca peak = 0.08229 (81)
- mri peak = 0.04538 (78)
- Right_Cerebral_Cortex (42): linear fit = 0.98 x + 0.0 (41251 voxels, overlap=0.962)
- Right_Cerebral_Cortex (42): linear fit = 0.98 x + 0.0 (41251 voxels, peak = 79), gca=79.0
- gca peak = 0.22960 (81)
- mri peak = 0.13499 (84)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (884 voxels, overlap=0.998)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (884 voxels, peak = 81), gca=81.0
- gca peak = 0.12832 (73)
- mri peak = 0.15489 (81)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (884 voxels, overlap=0.717)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (884 voxels, peak = 73), gca=73.0
- gca peak = 0.10568 (76)
- mri peak = 0.06249 (75)
- Left_Cerebellum_Cortex (8): linear fit = 0.99 x + 0.0 (26264 voxels, overlap=0.951)
- Left_Cerebellum_Cortex (8): linear fit = 0.99 x + 0.0 (26264 voxels, peak = 75), gca=74.9
- gca peak = 0.11457 (75)
- mri peak = 0.05713 (77)
- Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (28877 voxels, overlap=0.956)
- Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (28877 voxels, peak = 74), gca=73.9
- gca peak = 0.15873 (90)
- mri peak = 0.12306 (87)
- Left_Cerebellum_White_Matter (7): linear fit = 0.99 x + 0.0 (7484 voxels, overlap=0.959)
- Left_Cerebellum_White_Matter (7): linear fit = 0.99 x + 0.0 (7484 voxels, peak = 89), gca=88.7
- gca peak = 0.15153 (90)
- mri peak = 0.10565 (89)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (6749 voxels, overlap=0.941)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (6749 voxels, peak = 90), gca=89.6
- gca peak = 0.28378 (76)
- mri peak = 0.11581 (77)
- Left_Amygdala (18): linear fit = 1.00 x + 0.0 (543 voxels, overlap=1.004)
- Left_Amygdala (18): linear fit = 1.00 x + 0.0 (543 voxels, peak = 76), gca=76.0
- gca peak = 0.36610 (72)
- mri peak = 0.12036 (72)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (672 voxels, overlap=0.994)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (672 voxels, peak = 72), gca=72.0
- gca peak = 0.10456 (92)
- mri peak = 0.09068 (89)
- Left_Thalamus_Proper (10): linear fit = 0.99 x + 0.0 (5208 voxels, overlap=0.902)
- Left_Thalamus_Proper (10): linear fit = 0.99 x + 0.0 (5208 voxels, peak = 91), gca=90.6
- gca peak = 0.10366 (87)
- mri peak = 0.08139 (90)
- Right_Thalamus_Proper (49): linear fit = 0.99 x + 0.0 (4938 voxels, overlap=0.950)
- Right_Thalamus_Proper (49): linear fit = 0.99 x + 0.0 (4938 voxels, peak = 86), gca=85.7
- gca peak = 0.08487 (87)
- mri peak = 0.11077 (87)
- Left_Putamen (12): linear fit = 1.02 x + 0.0 (1950 voxels, overlap=0.785)
- Left_Putamen (12): linear fit = 1.02 x + 0.0 (1950 voxels, peak = 89), gca=89.2
- gca peak = 0.10649 (81)
- mri peak = 0.10410 (84)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (2363 voxels, overlap=0.802)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (2363 voxels, peak = 81), gca=81.0
- gca peak = 0.07255 (83)
- mri peak = 0.09754 (84)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (13728 voxels, overlap=0.704)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (13728 voxels, peak = 83), gca=82.6
- gca peak = 0.13218 (87)
- mri peak = 0.09346 (92)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1729 voxels, overlap=0.803)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1729 voxels, peak = 87), gca=86.6
- gca peak = 0.15658 (91)
- mri peak = 0.09156 (91)
- Left_VentralDC (28): linear fit = 0.98 x + 0.0 (1806 voxels, overlap=0.828)
- Left_VentralDC (28): linear fit = 0.98 x + 0.0 (1806 voxels, peak = 89), gca=88.7
- gca peak = 0.12656 (38)
- mri peak = 0.19048 (28)
- gca peak = 0.16542 (24)
- mri peak = 0.14888 (32)
- Fourth_Ventricle (15): linear fit = 1.36 x + 0.0 (409 voxels, overlap=0.263)
- Fourth_Ventricle (15): linear fit = 1.36 x + 0.0 (409 voxels, peak = 33), gca=32.5
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.17746 (35)
- gca peak Left_Thalamus = 0.36646 (102)
- gca peak Third_Ventricle = 0.12656 (38)
- gca peak CSF = 0.15446 (55)
- gca peak Left_Accumbens_area = 0.59594 (67)
- gca peak Left_undetermined = 0.95280 (34)
- gca peak Left_vessel = 0.75997 (52)
- gca peak Left_choroid_plexus = 0.12303 (35)
- gca peak Right_Inf_Lat_Vent = 0.19572 (29)
- gca peak Right_Accumbens_area = 0.33216 (80)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14504 (37)
- gca peak Fifth_Ventricle = 0.51780 (46)
- gca peak WM_hypointensities = 0.07737 (76)
- gca peak non_WM_hypointensities = 0.11534 (54)
- gca peak Optic_Chiasm = 0.68918 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 0.99 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 1.31 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
- 109991 voxels changed in iteration 0 of unlikely voxel relabeling
- 269 voxels changed in iteration 1 of unlikely voxel relabeling
- 3 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 155308 gm and wm labels changed (%37 to gray, %63 to white out of all changed labels)
- 448 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 101103 changed. image ll: -2.191, PF=0.500
- pass 2: 30976 changed. image ll: -2.189, PF=0.500
- pass 3: 10125 changed.
- pass 4: 3925 changed.
- 136956 voxels changed in iteration 0 of unlikely voxel relabeling
- 750 voxels changed in iteration 1 of unlikely voxel relabeling
- 7 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 6292 voxels changed in iteration 0 of unlikely voxel relabeling
- 135 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
- 4459 voxels changed in iteration 0 of unlikely voxel relabeling
- 61 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
- 4451 voxels changed in iteration 0 of unlikely voxel relabeling
- 21 voxels changed in iteration 1 of unlikely voxel relabeling
- 3 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
- MRItoUCHAR: min=0, max=85
- MRItoUCHAR: converting to UCHAR
- writing labeled volume to aseg.auto_noCCseg.mgz
- mri_ca_label utimesec 5263.257863
- mri_ca_label stimesec 1.760732
- mri_ca_label ru_maxrss 2118164
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 662732
- mri_ca_label ru_majflt 0
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 65504
- mri_ca_label ru_oublock 480
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 377
- mri_ca_label ru_nivcsw 15069
- auto-labeling took 87 minutes and 15 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/transforms/cc_up.lta 0051473
- 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-6.0.0/0051473/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/norm.mgz
- 81728 voxels in left wm, 73244 in right wm, xrange [121, 136]
- searching rotation angles z=[-5 9], y=[-4 10]
-
searching scale 1 Z rot -5.1
searching scale 1 Z rot -4.9
searching scale 1 Z rot -4.6
searching scale 1 Z rot -4.4
searching scale 1 Z rot -4.1
searching scale 1 Z rot -3.9
searching scale 1 Z rot -3.6
searching scale 1 Z rot -3.4
searching scale 1 Z rot -3.1
searching scale 1 Z rot -2.9
searching scale 1 Z rot -2.6
searching scale 1 Z rot -2.4
searching scale 1 Z rot -2.1
searching scale 1 Z rot -1.9
searching scale 1 Z rot -1.6
searching scale 1 Z rot -1.4
searching scale 1 Z rot -1.1
searching scale 1 Z rot -0.9
searching scale 1 Z rot -0.6
searching scale 1 Z rot -0.4
searching scale 1 Z rot -0.1
searching scale 1 Z rot 0.1
searching scale 1 Z rot 0.4
searching scale 1 Z rot 0.6
searching scale 1 Z rot 0.9
searching scale 1 Z rot 1.1
searching scale 1 Z rot 1.4
searching scale 1 Z rot 1.6
searching scale 1 Z rot 1.9
searching scale 1 Z rot 2.1
searching scale 1 Z rot 2.4
searching scale 1 Z rot 2.6
searching scale 1 Z rot 2.9
searching scale 1 Z rot 3.1
searching scale 1 Z rot 3.4
searching scale 1 Z rot 3.6
searching scale 1 Z rot 3.9
searching scale 1 Z rot 4.1
searching scale 1 Z rot 4.4
searching scale 1 Z rot 4.6
searching scale 1 Z rot 4.9
searching scale 1 Z rot 5.1
searching scale 1 Z rot 5.4
searching scale 1 Z rot 5.6
searching scale 1 Z rot 5.9
searching scale 1 Z rot 6.1
searching scale 1 Z rot 6.4
searching scale 1 Z rot 6.6
searching scale 1 Z rot 6.9
searching scale 1 Z rot 7.1
searching scale 1 Z rot 7.4
searching scale 1 Z rot 7.6
searching scale 1 Z rot 7.9
searching scale 1 Z rot 8.1
searching scale 1 Z rot 8.4 global minimum found at slice 128.0, rotations (3.10, 1.63)
- final transformation (x=128.0, yr=3.103, zr=1.634):
- 0.99813 -0.02852 0.05410 -3.10520;
- 0.02848 0.99959 0.00154 44.22654;
- -0.05412 0.00000 0.99853 31.08028;
- 0.00000 0.00000 0.00000 1.00000;
- updating x range to be [125, 130] in xformed coordinates
- best xformed slice 127
- cc center is found at 127 80 104
- eigenvectors:
- -0.00075 -0.00205 1.00000;
- 0.04213 -0.99911 -0.00202;
- 0.99911 0.04213 0.00084;
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/aseg.auto.mgz...
- corpus callosum segmentation took 1.6 minutes
- #--------------------------------------
- #@# Merge ASeg Sat Oct 7 20:41:54 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Sat Oct 7 20:41:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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...
- 2842 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 110
- gm peak at 88 (88), valley at 26 (26)
- csf peak at 45, setting threshold to 73
- 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 87 (87), valley at 26 (26)
- csf peak at 44, setting threshold to 72
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to brain.mgz
- 3D bias adjustment took 3 minutes and 16 seconds.
- #--------------------------------------------
- #@# Mask BFS Sat Oct 7 20:45:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1759026 voxels in mask (pct= 10.48)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Sat Oct 7 20:45:14 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): 104.7 +- 5.3 [79.0 --> 125.0]
- GM (80.0) : 76.2 +- 13.9 [30.0 --> 95.0]
- setting bottom of white matter range to 90.2
- setting top of gray matter range to 104.1
- doing initial intensity segmentation...
- using local statistics to label ambiguous voxels...
- using local geometry to label remaining ambiguous voxels...
- reclassifying voxels using Gaussian border classifier...
- removing voxels with positive offset direction...
- smoothing T1 volume with sigma = 0.250
- removing 1-dimensional structures...
- 12668 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 3890 filled
- 3312 bright non-wm voxels segmented.
- 7456 diagonally connected voxels added...
- white matter segmentation took 2.3 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 0.63 minutes
- reading wm segmentation from wm.seg.mgz...
- 725 voxels added to wm to prevent paths from MTL structures to cortex
- 6863 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 44496 voxels turned on, 57593 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+): 48 found - 48 modified | TOTAL: 48
- pass 2 (xy+): 0 found - 48 modified | TOTAL: 48
- pass 1 (xy-): 36 found - 36 modified | TOTAL: 84
- pass 2 (xy-): 0 found - 36 modified | TOTAL: 84
- pass 1 (yz+): 46 found - 46 modified | TOTAL: 130
- pass 2 (yz+): 0 found - 46 modified | TOTAL: 130
- pass 1 (yz-): 48 found - 48 modified | TOTAL: 178
- pass 2 (yz-): 0 found - 48 modified | TOTAL: 178
- pass 1 (xz+): 32 found - 32 modified | TOTAL: 210
- pass 2 (xz+): 0 found - 32 modified | TOTAL: 210
- pass 1 (xz-): 42 found - 42 modified | TOTAL: 252
- pass 2 (xz-): 0 found - 42 modified | TOTAL: 252
- Iteration Number : 1
- pass 1 (+++): 24 found - 24 modified | TOTAL: 24
- pass 2 (+++): 0 found - 24 modified | TOTAL: 24
- pass 1 (+++): 34 found - 34 modified | TOTAL: 58
- pass 2 (+++): 0 found - 34 modified | TOTAL: 58
- pass 1 (+++): 27 found - 27 modified | TOTAL: 85
- pass 2 (+++): 0 found - 27 modified | TOTAL: 85
- pass 1 (+++): 28 found - 28 modified | TOTAL: 113
- pass 2 (+++): 0 found - 28 modified | TOTAL: 113
- Iteration Number : 1
- pass 1 (++): 233 found - 233 modified | TOTAL: 233
- pass 2 (++): 0 found - 233 modified | TOTAL: 233
- pass 1 (+-): 241 found - 241 modified | TOTAL: 474
- pass 2 (+-): 0 found - 241 modified | TOTAL: 474
- pass 1 (--): 191 found - 191 modified | TOTAL: 665
- pass 2 (--): 0 found - 191 modified | TOTAL: 665
- pass 1 (-+): 266 found - 266 modified | TOTAL: 931
- pass 2 (-+): 0 found - 266 modified | TOTAL: 931
- Iteration Number : 2
- pass 1 (xy+): 14 found - 14 modified | TOTAL: 14
- pass 2 (xy+): 0 found - 14 modified | TOTAL: 14
- pass 1 (xy-): 16 found - 16 modified | TOTAL: 30
- pass 2 (xy-): 0 found - 16 modified | TOTAL: 30
- pass 1 (yz+): 11 found - 11 modified | TOTAL: 41
- pass 2 (yz+): 0 found - 11 modified | TOTAL: 41
- pass 1 (yz-): 19 found - 19 modified | TOTAL: 60
- pass 2 (yz-): 0 found - 19 modified | TOTAL: 60
- pass 1 (xz+): 13 found - 13 modified | TOTAL: 73
- pass 2 (xz+): 0 found - 13 modified | TOTAL: 73
- pass 1 (xz-): 14 found - 14 modified | TOTAL: 87
- pass 2 (xz-): 0 found - 14 modified | TOTAL: 87
- Iteration Number : 2
- pass 1 (+++): 3 found - 3 modified | TOTAL: 3
- pass 2 (+++): 0 found - 3 modified | TOTAL: 3
- pass 1 (+++): 4 found - 4 modified | TOTAL: 7
- pass 2 (+++): 0 found - 4 modified | TOTAL: 7
- pass 1 (+++): 0 found - 0 modified | TOTAL: 7
- pass 1 (+++): 0 found - 0 modified | TOTAL: 7
- Iteration Number : 2
- pass 1 (++): 13 found - 13 modified | TOTAL: 13
- pass 2 (++): 0 found - 13 modified | TOTAL: 13
- pass 1 (+-): 9 found - 9 modified | TOTAL: 22
- pass 2 (+-): 0 found - 9 modified | TOTAL: 22
- pass 1 (--): 11 found - 11 modified | TOTAL: 33
- pass 2 (--): 0 found - 11 modified | TOTAL: 33
- pass 1 (-+): 6 found - 6 modified | TOTAL: 39
- pass 2 (-+): 0 found - 6 modified | TOTAL: 39
- Iteration Number : 3
- pass 1 (xy+): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy+): 0 found - 1 modified | TOTAL: 1
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 1
- pass 1 (yz+): 3 found - 3 modified | TOTAL: 4
- pass 2 (yz+): 0 found - 3 modified | TOTAL: 4
- pass 1 (yz-): 2 found - 2 modified | TOTAL: 6
- pass 2 (yz-): 0 found - 2 modified | TOTAL: 6
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 6
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 6
- Iteration Number : 3
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 3
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 4
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 1 found - 1 modified | TOTAL: 1
- pass 2 (yz+): 0 found - 1 modified | TOTAL: 1
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 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 (+-): 1 found - 1 modified | TOTAL: 1
- pass 2 (+-): 0 found - 1 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 5
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 5
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 5
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 1437 (out of 581503: 0.247118)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Sat Oct 7 20:48:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri
- mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.auto_noCCseg.mgz wm.mgz filled.mgz
- logging cutting plane coordinates to ../scripts/ponscc.cut.log...
- INFO: Using transforms/talairach.lta and its offset for Talairach volume ...
- using segmentation aseg.auto_noCCseg.mgz...
- reading input volume...done.
- searching for cutting planes...voxel to talairach voxel transform
- 0.97819 -0.00137 0.04930 -4.08450;
- -0.01623 1.04830 0.16669 2.65836;
- -0.05856 -0.15767 0.94978 29.56989;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 0.97819 -0.00137 0.04930 -4.08450;
- -0.01623 1.04830 0.16669 2.65836;
- -0.05856 -0.15767 0.94978 29.56989;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 807 (min = 350, max = 1400), aspect = 0.37 (min = 0.10, max = 0.75)
- no need to search
- using seed (125, 124, 147), TAL = (3.0, 19.0, 4.0)
- talairach voxel to voxel transform
- 1.01909 -0.00645 -0.05176 5.71019;
- 0.00564 0.92935 -0.16340 2.38413;
- 0.06377 0.15388 1.02256 -30.38570;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (125, 124, 147) --> (3.0, 19.0, 4.0)
- done.
- writing output to filled.mgz...
- filling took 0.7 minutes
- talairach cc position changed to (3.00, 19.00, 4.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(21.00, 19.00, 4.00) SRC: (106.34, 94.21, 145.84)
- search lh wm seed point around talairach space (-15.00, 19.00, 4.00), SRC: (143.03, 94.41, 148.13)
- 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 20:49:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz
- Iteration Number : 1
- pass 1 (xy+): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy+): 0 found - 1 modified | TOTAL: 1
- pass 1 (xy-): 1 found - 1 modified | TOTAL: 2
- pass 2 (xy-): 0 found - 1 modified | TOTAL: 2
- pass 1 (yz+): 2 found - 2 modified | TOTAL: 4
- pass 2 (yz+): 0 found - 2 modified | TOTAL: 4
- pass 1 (yz-): 2 found - 2 modified | TOTAL: 6
- pass 2 (yz-): 0 found - 2 modified | TOTAL: 6
- pass 1 (xz+): 1 found - 1 modified | TOTAL: 7
- pass 2 (xz+): 0 found - 1 modified | TOTAL: 7
- pass 1 (xz-): 1 found - 1 modified | TOTAL: 8
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 8
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 1 found - 1 modified | TOTAL: 1
- pass 2 (+-): 0 found - 1 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 1 found - 1 modified | TOTAL: 2
- pass 2 (-+): 0 found - 1 modified | TOTAL: 2
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 10 (out of 284154: 0.003519)
- 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: 1126 vertices, 1245 faces
- slice 40: 7120 vertices, 7387 faces
- slice 50: 16691 vertices, 17049 faces
- slice 60: 28029 vertices, 28442 faces
- slice 70: 40568 vertices, 41052 faces
- slice 80: 53128 vertices, 53568 faces
- slice 90: 65979 vertices, 66460 faces
- slice 100: 79764 vertices, 80301 faces
- slice 110: 93887 vertices, 94430 faces
- slice 120: 107025 vertices, 107575 faces
- slice 130: 119985 vertices, 120527 faces
- slice 140: 131462 vertices, 131909 faces
- slice 150: 141208 vertices, 141658 faces
- slice 160: 150349 vertices, 150791 faces
- slice 170: 157735 vertices, 158149 faces
- slice 180: 164356 vertices, 164715 faces
- slice 190: 169048 vertices, 169334 faces
- slice 200: 170655 vertices, 170852 faces
- slice 210: 170790 vertices, 170966 faces
- slice 220: 170790 vertices, 170966 faces
- slice 230: 170790 vertices, 170966 faces
- slice 240: 170790 vertices, 170966 faces
- slice 250: 170790 vertices, 170966 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...
- 170790 voxel in cpt #1: X=-176 [v=170790,e=512898,f=341932] located at (-28.995720, -23.414497, 40.022003)
- For the whole surface: X=-176 [v=170790,e=512898,f=341932]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Tessellate rh Sat Oct 7 20:49:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz
- Iteration Number : 1
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy-): 0 found - 1 modified | TOTAL: 1
- pass 1 (yz+): 2 found - 2 modified | TOTAL: 3
- pass 2 (yz+): 0 found - 2 modified | TOTAL: 3
- pass 1 (yz-): 2 found - 2 modified | TOTAL: 5
- pass 2 (yz-): 0 found - 2 modified | TOTAL: 5
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 5
- pass 1 (xz-): 1 found - 1 modified | TOTAL: 6
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 6
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 1 found - 1 modified | TOTAL: 1
- pass 2 (+-): 0 found - 1 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 1 found - 1 modified | TOTAL: 2
- pass 2 (-+): 0 found - 1 modified | TOTAL: 2
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 8 (out of 279600: 0.002861)
- 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 30: 1926 vertices, 2083 faces
- slice 40: 8791 vertices, 9114 faces
- slice 50: 18226 vertices, 18614 faces
- slice 60: 29499 vertices, 29923 faces
- slice 70: 41275 vertices, 41760 faces
- slice 80: 52929 vertices, 53372 faces
- slice 90: 65549 vertices, 66047 faces
- slice 100: 78736 vertices, 79258 faces
- slice 110: 92039 vertices, 92583 faces
- slice 120: 105200 vertices, 105734 faces
- slice 130: 117834 vertices, 118410 faces
- slice 140: 129046 vertices, 129545 faces
- slice 150: 138728 vertices, 139250 faces
- slice 160: 147987 vertices, 148442 faces
- slice 170: 155979 vertices, 156451 faces
- slice 180: 162433 vertices, 162860 faces
- slice 190: 166869 vertices, 167199 faces
- slice 200: 168428 vertices, 168628 faces
- slice 210: 168428 vertices, 168628 faces
- slice 220: 168428 vertices, 168628 faces
- slice 230: 168428 vertices, 168628 faces
- slice 240: 168428 vertices, 168628 faces
- slice 250: 168428 vertices, 168628 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...
- 168428 voxel in cpt #1: X=-200 [v=168428,e=505884,f=337256] located at (28.709526, -23.824608, 39.806896)
- For the whole surface: X=-200 [v=168428,e=505884,f=337256]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Sat Oct 7 20:49:13 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Sat Oct 7 20:49:13 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 28192 of (28192 28195) to complete...
- Waiting for PID 28195 of (28192 28195) 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 (28192 28195) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Sat Oct 7 20:49:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Sat Oct 7 20:49:22 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 28236 of (28236 28239) to complete...
- Waiting for PID 28239 of (28236 28239) 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 = 48.6 mm, total surface area = 87514 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 1.1 minutes
-
step 000: RMS=0.166 (target=0.015)
step 005: RMS=0.127 (target=0.015)
step 010: RMS=0.100 (target=0.015)
step 015: RMS=0.086 (target=0.015)
step 020: RMS=0.076 (target=0.015)
step 025: RMS=0.069 (target=0.015)
step 030: RMS=0.063 (target=0.015)
step 035: RMS=0.058 (target=0.015)
step 040: RMS=0.055 (target=0.015)
step 045: RMS=0.052 (target=0.015)
step 050: RMS=0.051 (target=0.015)
step 055: RMS=0.050 (target=0.015)
step 060: RMS=0.049 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 63.134402
- mris_inflate stimesec 0.156976
- mris_inflate ru_maxrss 249672
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 36293
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 12040
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 7441
- mris_inflate ru_nivcsw 6850
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 49.0 mm, total surface area = 86552 mm^2
- writing inflated surface to ../surf/rh.inflated.nofix
- inflation took 1.0 minutes
-
step 000: RMS=0.168 (target=0.015)
step 005: RMS=0.130 (target=0.015)
step 010: RMS=0.101 (target=0.015)
step 015: RMS=0.088 (target=0.015)
step 020: RMS=0.079 (target=0.015)
step 025: RMS=0.071 (target=0.015)
step 030: RMS=0.065 (target=0.015)
step 035: RMS=0.060 (target=0.015)
step 040: RMS=0.057 (target=0.015)
step 045: RMS=0.054 (target=0.015)
step 050: RMS=0.052 (target=0.015)
step 055: RMS=0.052 (target=0.015)
step 060: RMS=0.051 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 60.915739
- mris_inflate stimesec 0.141978
- mris_inflate ru_maxrss 246248
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 35436
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 11856
- mris_inflate ru_oublock 11872
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 5605
- mris_inflate ru_nivcsw 6916
- PIDs (28236 28239) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Sat Oct 7 20:50:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Sat Oct 7 20:50:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 28325 of (28325 28328) to complete...
- Waiting for PID 28328 of (28325 28328) 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 0.88 +- 0.56 (0.00-->6.39) (max @ vno 67054 --> 67055)
- face area 0.02 +- 0.03 (-0.21-->0.53)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.272...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=177.932, avgs=0
- 005/300: dt: 0.9000, rms radial error=177.672, avgs=0
- 010/300: dt: 0.9000, rms radial error=177.113, avgs=0
- 015/300: dt: 0.9000, rms radial error=176.381, avgs=0
- 020/300: dt: 0.9000, rms radial error=175.547, avgs=0
- 025/300: dt: 0.9000, rms radial error=174.654, avgs=0
- 030/300: dt: 0.9000, rms radial error=173.729, avgs=0
- 035/300: dt: 0.9000, rms radial error=172.786, avgs=0
- 040/300: dt: 0.9000, rms radial error=171.836, avgs=0
- 045/300: dt: 0.9000, rms radial error=170.883, avgs=0
- 050/300: dt: 0.9000, rms radial error=169.931, avgs=0
- 055/300: dt: 0.9000, rms radial error=168.981, avgs=0
- 060/300: dt: 0.9000, rms radial error=168.035, avgs=0
- 065/300: dt: 0.9000, rms radial error=167.093, avgs=0
- 070/300: dt: 0.9000, rms radial error=166.155, avgs=0
- 075/300: dt: 0.9000, rms radial error=165.222, avgs=0
- 080/300: dt: 0.9000, rms radial error=164.294, avgs=0
- 085/300: dt: 0.9000, rms radial error=163.370, avgs=0
- 090/300: dt: 0.9000, rms radial error=162.451, avgs=0
- 095/300: dt: 0.9000, rms radial error=161.537, avgs=0
- 100/300: dt: 0.9000, rms radial error=160.628, avgs=0
- 105/300: dt: 0.9000, rms radial error=159.724, avgs=0
- 110/300: dt: 0.9000, rms radial error=158.825, avgs=0
- 115/300: dt: 0.9000, rms radial error=157.930, avgs=0
- 120/300: dt: 0.9000, rms radial error=157.041, avgs=0
- 125/300: dt: 0.9000, rms radial error=156.156, avgs=0
- 130/300: dt: 0.9000, rms radial error=155.276, avgs=0
- 135/300: dt: 0.9000, rms radial error=154.401, avgs=0
- 140/300: dt: 0.9000, rms radial error=153.530, avgs=0
- 145/300: dt: 0.9000, rms radial error=152.665, avgs=0
- 150/300: dt: 0.9000, rms radial error=151.804, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.948, avgs=0
- 160/300: dt: 0.9000, rms radial error=150.097, avgs=0
- 165/300: dt: 0.9000, rms radial error=149.250, avgs=0
- 170/300: dt: 0.9000, rms radial error=148.411, avgs=0
- 175/300: dt: 0.9000, rms radial error=147.576, avgs=0
- 180/300: dt: 0.9000, rms radial error=146.746, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.921, avgs=0
- 190/300: dt: 0.9000, rms radial error=145.100, avgs=0
- 195/300: dt: 0.9000, rms radial error=144.284, avgs=0
- 200/300: dt: 0.9000, rms radial error=143.472, avgs=0
- 205/300: dt: 0.9000, rms radial error=142.664, avgs=0
- 210/300: dt: 0.9000, rms radial error=141.862, avgs=0
- 215/300: dt: 0.9000, rms radial error=141.063, avgs=0
- 220/300: dt: 0.9000, rms radial error=140.269, avgs=0
- 225/300: dt: 0.9000, rms radial error=139.480, avgs=0
- 230/300: dt: 0.9000, rms radial error=138.694, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.913, avgs=0
- 240/300: dt: 0.9000, rms radial error=137.137, avgs=0
- 245/300: dt: 0.9000, rms radial error=136.365, avgs=0
- 250/300: dt: 0.9000, rms radial error=135.598, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.835, avgs=0
- 260/300: dt: 0.9000, rms radial error=134.077, avgs=0
- 265/300: dt: 0.9000, rms radial error=133.322, avgs=0
- 270/300: dt: 0.9000, rms radial error=132.572, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.827, avgs=0
- 280/300: dt: 0.9000, rms radial error=131.085, avgs=0
- 285/300: dt: 0.9000, rms radial error=130.348, avgs=0
- 290/300: dt: 0.9000, rms radial error=129.615, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.886, avgs=0
- 300/300: dt: 0.9000, rms radial error=128.161, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 20892.95
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00017
- epoch 2 (K=40.0), pass 1, starting sse = 3856.01
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00004
- epoch 3 (K=160.0), pass 1, starting sse = 485.64
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.04/10 = 0.00366
- epoch 4 (K=640.0), pass 1, starting sse = 42.43
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.12/12 = 0.01028
- final distance error %30.01
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.08 hours
- mris_sphere utimesec 289.536983
- mris_sphere stimesec 0.206968
- mris_sphere ru_maxrss 249872
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 35831
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 12024
- mris_sphere ru_oublock 12064
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 12432
- mris_sphere ru_nivcsw 21410
- FSRUNTIME@ mris_sphere 0.0804 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 0.88 +- 0.56 (0.00-->7.16) (max @ vno 115014 --> 115015)
- face area 0.02 +- 0.03 (-0.11-->0.45)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.275...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=177.439, avgs=0
- 005/300: dt: 0.9000, rms radial error=177.184, avgs=0
- 010/300: dt: 0.9000, rms radial error=176.636, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.915, avgs=0
- 020/300: dt: 0.9000, rms radial error=175.093, avgs=0
- 025/300: dt: 0.9000, rms radial error=174.210, avgs=0
- 030/300: dt: 0.9000, rms radial error=173.281, avgs=0
- 035/300: dt: 0.9000, rms radial error=172.339, avgs=0
- 040/300: dt: 0.9000, rms radial error=171.390, avgs=0
- 045/300: dt: 0.9000, rms radial error=170.438, avgs=0
- 050/300: dt: 0.9000, rms radial error=169.487, avgs=0
- 055/300: dt: 0.9000, rms radial error=168.538, avgs=0
- 060/300: dt: 0.9000, rms radial error=167.594, avgs=0
- 065/300: dt: 0.9000, rms radial error=166.654, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.718, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.787, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.861, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.941, avgs=0
- 090/300: dt: 0.9000, rms radial error=162.026, avgs=0
- 095/300: dt: 0.9000, rms radial error=161.116, avgs=0
- 100/300: dt: 0.9000, rms radial error=160.211, avgs=0
- 105/300: dt: 0.9000, rms radial error=159.311, avgs=0
- 110/300: dt: 0.9000, rms radial error=158.416, avgs=0
- 115/300: dt: 0.9000, rms radial error=157.526, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.641, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.761, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.885, avgs=0
- 135/300: dt: 0.9000, rms radial error=154.014, avgs=0
- 140/300: dt: 0.9000, rms radial error=153.149, avgs=0
- 145/300: dt: 0.9000, rms radial error=152.287, avgs=0
- 150/300: dt: 0.9000, rms radial error=151.431, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.579, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.732, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.890, avgs=0
- 170/300: dt: 0.9000, rms radial error=148.053, avgs=0
- 175/300: dt: 0.9000, rms radial error=147.220, avgs=0
- 180/300: dt: 0.9000, rms radial error=146.392, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.569, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.750, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.936, avgs=0
- 200/300: dt: 0.9000, rms radial error=143.126, avgs=0
- 205/300: dt: 0.9000, rms radial error=142.321, avgs=0
- 210/300: dt: 0.9000, rms radial error=141.520, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.724, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.932, avgs=0
- 225/300: dt: 0.9000, rms radial error=139.144, avgs=0
- 230/300: dt: 0.9000, rms radial error=138.361, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.582, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.807, avgs=0
- 245/300: dt: 0.9000, rms radial error=136.037, avgs=0
- 250/300: dt: 0.9000, rms radial error=135.271, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.509, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.751, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.998, avgs=0
- 270/300: dt: 0.9000, rms radial error=132.249, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.504, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.763, avgs=0
- 285/300: dt: 0.9000, rms radial error=130.026, avgs=0
- 290/300: dt: 0.9000, rms radial error=129.293, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.565, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.840, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 20530.98
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00012
- epoch 2 (K=40.0), pass 1, starting sse = 3754.22
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00001
- epoch 3 (K=160.0), pass 1, starting sse = 472.34
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.04/10 = 0.00365
- epoch 4 (K=640.0), pass 1, starting sse = 43.77
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.07/11 = 0.00646
- final distance error %29.71
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.08 hours
- mris_sphere utimesec 288.462147
- mris_sphere stimesec 0.188971
- mris_sphere ru_maxrss 246456
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 35487
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 11856
- mris_sphere ru_oublock 11896
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 11622
- mris_sphere ru_nivcsw 21893
- FSRUNTIME@ mris_sphere 0.0802 hours 1 threads
- PIDs (28325 28328) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Sat Oct 7 20:55:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Sat Oct 7 20:55:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Sat Oct 7 20:55:15 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051473 lh
- #@# Fix Topology rh Sat Oct 7 20:55:15 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051473 rh
- Waiting for PID 28536 of (28536 28539) to complete...
- Waiting for PID 28539 of (28536 28539) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051473 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=-176 (nv=170790, nf=341932, ne=512898, g=89)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 10 iterations
- marking ambiguous vertices...
- 10331 ambiguous faces found in tessellation
- segmenting defects...
- 106 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 12 into 13
- -merging segment 22 into 23
- -merging segment 84 into 81
- -merging segment 86 into 82
- -merging segment 105 into 104
- 101 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.0924 (-4.5462)
- -vertex loglikelihood: -5.5986 (-2.7993)
- -normal dot loglikelihood: -3.5436 (-3.5436)
- -quad curv loglikelihood: -6.4111 (-3.2055)
- Total Loglikelihood : -24.6457
- CORRECTING DEFECT 0 (vertices=162, convex hull=141, v0=462)
- After retessellation of defect 0 (v0=462), euler #=-101 (164397,490353,325855) : difference with theory (-98) = 3
- CORRECTING DEFECT 1 (vertices=51, convex hull=19, v0=908)
- After retessellation of defect 1 (v0=908), euler #=-100 (164399,490363,325864) : difference with theory (-97) = 3
- CORRECTING DEFECT 2 (vertices=28, convex hull=68, v0=2352)
- After retessellation of defect 2 (v0=2352), euler #=-99 (164408,490417,325910) : difference with theory (-96) = 3
- CORRECTING DEFECT 3 (vertices=40, convex hull=58, v0=2984)
- After retessellation of defect 3 (v0=2984), euler #=-98 (164423,490490,325969) : difference with theory (-95) = 3
- CORRECTING DEFECT 4 (vertices=30, convex hull=30, v0=6700)
- After retessellation of defect 4 (v0=6700), euler #=-97 (164424,490503,325982) : difference with theory (-94) = 3
- CORRECTING DEFECT 5 (vertices=91, convex hull=60, v0=15185)
- After retessellation of defect 5 (v0=15185), euler #=-96 (164436,490562,326030) : difference with theory (-93) = 3
- CORRECTING DEFECT 6 (vertices=38, convex hull=60, v0=21340)
- After retessellation of defect 6 (v0=21340), euler #=-95 (164454,490641,326092) : difference with theory (-92) = 3
- CORRECTING DEFECT 7 (vertices=54, convex hull=78, v0=27146)
- After retessellation of defect 7 (v0=27146), euler #=-94 (164484,490767,326189) : difference with theory (-91) = 3
- CORRECTING DEFECT 8 (vertices=31, convex hull=54, v0=28029)
- After retessellation of defect 8 (v0=28029), euler #=-93 (164498,490832,326241) : difference with theory (-90) = 3
- CORRECTING DEFECT 9 (vertices=28, convex hull=59, v0=28259)
- After retessellation of defect 9 (v0=28259), euler #=-92 (164508,490883,326283) : difference with theory (-89) = 3
- CORRECTING DEFECT 10 (vertices=55, convex hull=55, v0=28878)
- After retessellation of defect 10 (v0=28878), euler #=-91 (164519,490938,326328) : difference with theory (-88) = 3
- CORRECTING DEFECT 11 (vertices=8, convex hull=28, v0=31224)
- After retessellation of defect 11 (v0=31224), euler #=-90 (164522,490955,326343) : difference with theory (-87) = 3
- CORRECTING DEFECT 12 (vertices=59, convex hull=107, v0=31566)
- After retessellation of defect 12 (v0=31566), euler #=-88 (164551,491086,326447) : difference with theory (-86) = 2
- CORRECTING DEFECT 13 (vertices=5, convex hull=22, v0=32359)
- After retessellation of defect 13 (v0=32359), euler #=-87 (164551,491092,326454) : difference with theory (-85) = 2
- CORRECTING DEFECT 14 (vertices=37, convex hull=63, v0=34145)
- After retessellation of defect 14 (v0=34145), euler #=-86 (164564,491153,326503) : difference with theory (-84) = 2
- CORRECTING DEFECT 15 (vertices=41, convex hull=91, v0=35328)
- After retessellation of defect 15 (v0=35328), euler #=-85 (164572,491213,326556) : difference with theory (-83) = 2
- CORRECTING DEFECT 16 (vertices=27, convex hull=72, v0=42524)
- After retessellation of defect 16 (v0=42524), euler #=-84 (164591,491299,326624) : difference with theory (-82) = 2
- CORRECTING DEFECT 17 (vertices=95, convex hull=125, v0=43921)
- After retessellation of defect 17 (v0=43921), euler #=-83 (164654,491542,326805) : difference with theory (-81) = 2
- CORRECTING DEFECT 18 (vertices=22, convex hull=59, v0=47320)
- After retessellation of defect 18 (v0=47320), euler #=-82 (164664,491593,326847) : difference with theory (-80) = 2
- CORRECTING DEFECT 19 (vertices=40, convex hull=60, v0=51800)
- After retessellation of defect 19 (v0=51800), euler #=-81 (164676,491653,326896) : difference with theory (-79) = 2
- CORRECTING DEFECT 20 (vertices=36, convex hull=81, v0=57833)
- After retessellation of defect 20 (v0=57833), euler #=-80 (164700,491755,326975) : difference with theory (-78) = 2
- CORRECTING DEFECT 21 (vertices=491, convex hull=379, v0=60264)
- After retessellation of defect 21 (v0=60264), euler #=-78 (164719,492000,327203) : difference with theory (-77) = 1
- CORRECTING DEFECT 22 (vertices=51, convex hull=92, v0=63194)
- After retessellation of defect 22 (v0=63194), euler #=-77 (164747,492125,327301) : difference with theory (-76) = 1
- CORRECTING DEFECT 23 (vertices=27, convex hull=70, v0=64440)
- After retessellation of defect 23 (v0=64440), euler #=-76 (164759,492187,327352) : difference with theory (-75) = 1
- CORRECTING DEFECT 24 (vertices=10, convex hull=15, v0=65133)
- After retessellation of defect 24 (v0=65133), euler #=-75 (164760,492193,327358) : difference with theory (-74) = 1
- CORRECTING DEFECT 25 (vertices=27, convex hull=70, v0=66500)
- After retessellation of defect 25 (v0=66500), euler #=-74 (164772,492254,327408) : difference with theory (-73) = 1
- CORRECTING DEFECT 26 (vertices=25, convex hull=31, v0=68211)
- After retessellation of defect 26 (v0=68211), euler #=-73 (164776,492274,327425) : difference with theory (-72) = 1
- CORRECTING DEFECT 27 (vertices=9, convex hull=18, v0=69111)
- After retessellation of defect 27 (v0=69111), euler #=-72 (164778,492285,327435) : difference with theory (-71) = 1
- CORRECTING DEFECT 28 (vertices=18, convex hull=14, v0=70825)
- After retessellation of defect 28 (v0=70825), euler #=-71 (164780,492293,327442) : difference with theory (-70) = 1
- CORRECTING DEFECT 29 (vertices=42, convex hull=64, v0=71101)
- After retessellation of defect 29 (v0=71101), euler #=-70 (164800,492378,327508) : difference with theory (-69) = 1
- CORRECTING DEFECT 30 (vertices=50, convex hull=83, v0=73641)
- After retessellation of defect 30 (v0=73641), euler #=-69 (164826,492491,327596) : difference with theory (-68) = 1
- CORRECTING DEFECT 31 (vertices=35, convex hull=65, v0=74248)
- After retessellation of defect 31 (v0=74248), euler #=-68 (164837,492551,327646) : difference with theory (-67) = 1
- CORRECTING DEFECT 32 (vertices=13, convex hull=14, v0=74793)
- After retessellation of defect 32 (v0=74793), euler #=-67 (164837,492556,327652) : difference with theory (-66) = 1
- CORRECTING DEFECT 33 (vertices=49, convex hull=57, v0=76684)
- After retessellation of defect 33 (v0=76684), euler #=-66 (164860,492648,327722) : difference with theory (-65) = 1
- CORRECTING DEFECT 34 (vertices=17, convex hull=21, v0=77075)
- After retessellation of defect 34 (v0=77075), euler #=-65 (164863,492664,327736) : difference with theory (-64) = 1
- CORRECTING DEFECT 35 (vertices=27, convex hull=61, v0=78788)
- After retessellation of defect 35 (v0=78788), euler #=-64 (164873,492718,327781) : difference with theory (-63) = 1
- CORRECTING DEFECT 36 (vertices=87, convex hull=91, v0=79695)
- After retessellation of defect 36 (v0=79695), euler #=-63 (164884,492793,327846) : difference with theory (-62) = 1
- CORRECTING DEFECT 37 (vertices=59, convex hull=99, v0=80243)
- After retessellation of defect 37 (v0=80243), euler #=-62 (164918,492938,327958) : difference with theory (-61) = 1
- CORRECTING DEFECT 38 (vertices=41, convex hull=92, v0=82179)
- After retessellation of defect 38 (v0=82179), euler #=-61 (164930,493014,328023) : difference with theory (-60) = 1
- CORRECTING DEFECT 39 (vertices=27, convex hull=57, v0=86631)
- After retessellation of defect 39 (v0=86631), euler #=-60 (164945,493080,328075) : difference with theory (-59) = 1
- CORRECTING DEFECT 40 (vertices=23, convex hull=38, v0=86817)
- After retessellation of defect 40 (v0=86817), euler #=-59 (164947,493101,328095) : difference with theory (-58) = 1
- CORRECTING DEFECT 41 (vertices=21, convex hull=61, v0=87713)
- After retessellation of defect 41 (v0=87713), euler #=-58 (164956,493150,328136) : difference with theory (-57) = 1
- CORRECTING DEFECT 42 (vertices=73, convex hull=37, v0=89824)
- After retessellation of defect 42 (v0=89824), euler #=-57 (164966,493200,328177) : difference with theory (-56) = 1
- CORRECTING DEFECT 43 (vertices=300, convex hull=261, v0=90983)
- After retessellation of defect 43 (v0=90983), euler #=-56 (165079,493667,328532) : difference with theory (-55) = 1
- CORRECTING DEFECT 44 (vertices=22, convex hull=23, v0=96418)
- After retessellation of defect 44 (v0=96418), euler #=-55 (165082,493682,328545) : difference with theory (-54) = 1
- CORRECTING DEFECT 45 (vertices=72, convex hull=37, v0=96442)
- After retessellation of defect 45 (v0=96442), euler #=-54 (165089,493715,328572) : difference with theory (-53) = 1
- CORRECTING DEFECT 46 (vertices=42, convex hull=59, v0=98791)
- After retessellation of defect 46 (v0=98791), euler #=-53 (165108,493796,328635) : difference with theory (-52) = 1
- CORRECTING DEFECT 47 (vertices=23, convex hull=28, v0=100408)
- After retessellation of defect 47 (v0=100408), euler #=-52 (165111,493815,328652) : difference with theory (-51) = 1
- CORRECTING DEFECT 48 (vertices=23, convex hull=46, v0=103054)
- After retessellation of defect 48 (v0=103054), euler #=-51 (165120,493855,328684) : difference with theory (-50) = 1
- CORRECTING DEFECT 49 (vertices=53, convex hull=103, v0=103847)
- After retessellation of defect 49 (v0=103847), euler #=-50 (165149,493994,328795) : difference with theory (-49) = 1
- CORRECTING DEFECT 50 (vertices=19, convex hull=59, v0=103883)
- After retessellation of defect 50 (v0=103883), euler #=-49 (165160,494047,328838) : difference with theory (-48) = 1
- CORRECTING DEFECT 51 (vertices=21, convex hull=46, v0=104438)
- After retessellation of defect 51 (v0=104438), euler #=-48 (165167,494084,328869) : difference with theory (-47) = 1
- CORRECTING DEFECT 52 (vertices=28, convex hull=28, v0=106420)
- After retessellation of defect 52 (v0=106420), euler #=-47 (165171,494102,328884) : difference with theory (-46) = 1
- CORRECTING DEFECT 53 (vertices=368, convex hull=259, v0=110540)
- After retessellation of defect 53 (v0=110540), euler #=-46 (165287,494575,329242) : difference with theory (-45) = 1
- CORRECTING DEFECT 54 (vertices=37, convex hull=56, v0=111659)
- After retessellation of defect 54 (v0=111659), euler #=-45 (165302,494641,329294) : difference with theory (-44) = 1
- CORRECTING DEFECT 55 (vertices=32, convex hull=30, v0=111945)
- After retessellation of defect 55 (v0=111945), euler #=-44 (165310,494673,329319) : difference with theory (-43) = 1
- CORRECTING DEFECT 56 (vertices=30, convex hull=62, v0=113079)
- After retessellation of defect 56 (v0=113079), euler #=-43 (165329,494755,329383) : difference with theory (-42) = 1
- CORRECTING DEFECT 57 (vertices=31, convex hull=29, v0=114264)
- After retessellation of defect 57 (v0=114264), euler #=-42 (165333,494780,329405) : difference with theory (-41) = 1
- CORRECTING DEFECT 58 (vertices=113, convex hull=80, v0=115783)
- After retessellation of defect 58 (v0=115783), euler #=-41 (165361,494897,329495) : difference with theory (-40) = 1
- CORRECTING DEFECT 59 (vertices=6, convex hull=33, v0=115825)
- After retessellation of defect 59 (v0=115825), euler #=-40 (165364,494915,329511) : difference with theory (-39) = 1
- CORRECTING DEFECT 60 (vertices=25, convex hull=67, v0=116973)
- After retessellation of defect 60 (v0=116973), euler #=-39 (165373,494966,329554) : difference with theory (-38) = 1
- CORRECTING DEFECT 61 (vertices=309, convex hull=114, v0=117414)
- After retessellation of defect 61 (v0=117414), euler #=-38 (165421,495162,329703) : difference with theory (-37) = 1
- CORRECTING DEFECT 62 (vertices=6, convex hull=18, v0=118006)
- After retessellation of defect 62 (v0=118006), euler #=-37 (165423,495174,329714) : difference with theory (-36) = 1
- CORRECTING DEFECT 63 (vertices=36, convex hull=57, v0=118736)
- After retessellation of defect 63 (v0=118736), euler #=-36 (165433,495227,329758) : difference with theory (-35) = 1
- CORRECTING DEFECT 64 (vertices=96, convex hull=36, v0=121003)
- After retessellation of defect 64 (v0=121003), euler #=-35 (165439,495261,329787) : difference with theory (-34) = 1
- CORRECTING DEFECT 65 (vertices=174, convex hull=78, v0=122559)
- After retessellation of defect 65 (v0=122559), euler #=-34 (165460,495358,329864) : difference with theory (-33) = 1
- CORRECTING DEFECT 66 (vertices=41, convex hull=80, v0=126159)
- After retessellation of defect 66 (v0=126159), euler #=-33 (165476,495439,329930) : difference with theory (-32) = 1
- CORRECTING DEFECT 67 (vertices=63, convex hull=48, v0=127123)
- After retessellation of defect 67 (v0=127123), euler #=-32 (165494,495511,329985) : difference with theory (-31) = 1
- CORRECTING DEFECT 68 (vertices=97, convex hull=108, v0=127173)
- After retessellation of defect 68 (v0=127173), euler #=-31 (165532,495675,330112) : difference with theory (-30) = 1
- CORRECTING DEFECT 69 (vertices=54, convex hull=88, v0=127181)
- After retessellation of defect 69 (v0=127181), euler #=-30 (165557,495789,330202) : difference with theory (-29) = 1
- CORRECTING DEFECT 70 (vertices=28, convex hull=67, v0=127222)
- After retessellation of defect 70 (v0=127222), euler #=-29 (165575,495869,330265) : difference with theory (-28) = 1
- CORRECTING DEFECT 71 (vertices=211, convex hull=95, v0=128420)
- After retessellation of defect 71 (v0=128420), euler #=-28 (165623,496052,330401) : difference with theory (-27) = 1
- CORRECTING DEFECT 72 (vertices=104, convex hull=84, v0=129190)
- After retessellation of defect 72 (v0=129190), euler #=-27 (165650,496171,330494) : difference with theory (-26) = 1
- CORRECTING DEFECT 73 (vertices=34, convex hull=50, v0=130130)
- After retessellation of defect 73 (v0=130130), euler #=-26 (165660,496219,330533) : difference with theory (-25) = 1
- CORRECTING DEFECT 74 (vertices=75, convex hull=109, v0=130365)
- After retessellation of defect 74 (v0=130365), euler #=-25 (165701,496392,330666) : difference with theory (-24) = 1
- CORRECTING DEFECT 75 (vertices=64, convex hull=61, v0=131613)
- After retessellation of defect 75 (v0=131613), euler #=-24 (165718,496473,330731) : difference with theory (-23) = 1
- CORRECTING DEFECT 76 (vertices=16, convex hull=42, v0=131837)
- After retessellation of defect 76 (v0=131837), euler #=-23 (165721,496495,330751) : difference with theory (-22) = 1
- CORRECTING DEFECT 77 (vertices=17, convex hull=27, v0=132322)
- After retessellation of defect 77 (v0=132322), euler #=-22 (165723,496510,330765) : difference with theory (-21) = 1
- CORRECTING DEFECT 78 (vertices=152, convex hull=29, v0=132441)
- After retessellation of defect 78 (v0=132441), euler #=-21 (165729,496537,330787) : difference with theory (-20) = 1
- CORRECTING DEFECT 79 (vertices=81, convex hull=112, v0=135755)
- After retessellation of defect 79 (v0=135755), euler #=-19 (165751,496651,330881) : difference with theory (-19) = 0
- CORRECTING DEFECT 80 (vertices=50, convex hull=73, v0=136604)
- After retessellation of defect 80 (v0=136604), euler #=-17 (165769,496736,330950) : difference with theory (-18) = -1
- CORRECTING DEFECT 81 (vertices=38, convex hull=70, v0=136783)
- After retessellation of defect 81 (v0=136783), euler #=-16 (165783,496804,331005) : difference with theory (-17) = -1
- CORRECTING DEFECT 82 (vertices=23, convex hull=62, v0=139208)
- After retessellation of defect 82 (v0=139208), euler #=-15 (165792,496857,331050) : difference with theory (-16) = -1
- CORRECTING DEFECT 83 (vertices=98, convex hull=100, v0=140221)
- After retessellation of defect 83 (v0=140221), euler #=-14 (165821,496985,331150) : difference with theory (-15) = -1
- CORRECTING DEFECT 84 (vertices=5, convex hull=16, v0=140562)
- After retessellation of defect 84 (v0=140562), euler #=-13 (165821,496989,331155) : difference with theory (-14) = -1
- CORRECTING DEFECT 85 (vertices=66, convex hull=91, v0=142269)
- After retessellation of defect 85 (v0=142269), euler #=-12 (165860,497146,331274) : difference with theory (-13) = -1
- CORRECTING DEFECT 86 (vertices=39, convex hull=41, v0=144412)
- After retessellation of defect 86 (v0=144412), euler #=-11 (165869,497185,331305) : difference with theory (-12) = -1
- CORRECTING DEFECT 87 (vertices=42, convex hull=92, v0=153931)
- After retessellation of defect 87 (v0=153931), euler #=-10 (165893,497292,331389) : difference with theory (-11) = -1
- CORRECTING DEFECT 88 (vertices=160, convex hull=71, v0=155466)
- After retessellation of defect 88 (v0=155466), euler #=-9 (165918,497396,331469) : difference with theory (-10) = -1
- CORRECTING DEFECT 89 (vertices=20, convex hull=72, v0=155667)
- After retessellation of defect 89 (v0=155667), euler #=-8 (165923,497440,331509) : difference with theory (-9) = -1
- CORRECTING DEFECT 90 (vertices=15, convex hull=25, v0=156006)
- After retessellation of defect 90 (v0=156006), euler #=-7 (165924,497448,331517) : difference with theory (-8) = -1
- CORRECTING DEFECT 91 (vertices=31, convex hull=61, v0=156540)
- After retessellation of defect 91 (v0=156540), euler #=-6 (165940,497521,331575) : difference with theory (-7) = -1
- CORRECTING DEFECT 92 (vertices=128, convex hull=36, v0=157544)
- After retessellation of defect 92 (v0=157544), euler #=-5 (165948,497565,331612) : difference with theory (-6) = -1
- CORRECTING DEFECT 93 (vertices=48, convex hull=86, v0=163350)
- After retessellation of defect 93 (v0=163350), euler #=-4 (165979,497693,331710) : difference with theory (-5) = -1
- CORRECTING DEFECT 94 (vertices=47, convex hull=86, v0=164154)
- After retessellation of defect 94 (v0=164154), euler #=-3 (166003,497798,331792) : difference with theory (-4) = -1
- CORRECTING DEFECT 95 (vertices=78, convex hull=92, v0=165989)
- After retessellation of defect 95 (v0=165989), euler #=-2 (166023,497900,331875) : difference with theory (-3) = -1
- CORRECTING DEFECT 96 (vertices=33, convex hull=53, v0=166129)
- After retessellation of defect 96 (v0=166129), euler #=-1 (166041,497975,331933) : difference with theory (-2) = -1
- CORRECTING DEFECT 97 (vertices=46, convex hull=84, v0=166159)
- After retessellation of defect 97 (v0=166159), euler #=0 (166061,498066,332005) : difference with theory (-1) = -1
- CORRECTING DEFECT 98 (vertices=49, convex hull=66, v0=167510)
- After retessellation of defect 98 (v0=167510), euler #=1 (166081,498155,332075) : difference with theory (0) = -1
- CORRECTING DEFECT 99 (vertices=40, convex hull=63, v0=169164)
- After retessellation of defect 99 (v0=169164), euler #=2 (166093,498218,332127) : difference with theory (1) = -1
- CORRECTING DEFECT 100 (vertices=262, convex hull=95, v0=170364)
- After retessellation of defect 100 (v0=170364), euler #=2 (166125,498369,332246) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.25 (0.07-->11.20) (max @ vno 60558 --> 68285)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.25 (0.07-->11.20) (max @ vno 60558 --> 68285)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 292 mutations (34.3%), 560 crossovers (65.7%), 335 vertices were eliminated
- building final representation...
- 4665 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=166125, nf=332246, ne=498369, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 67.1 minutes
- 0 defective edges
- removing intersecting faces
- 000: 682 intersecting
- 001: 40 intersecting
- mris_fix_topology utimesec 4026.809831
- mris_fix_topology stimesec 0.208968
- mris_fix_topology ru_maxrss 530448
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 56474
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 12024
- mris_fix_topology ru_oublock 16304
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 471
- mris_fix_topology ru_nivcsw 6333
- FSRUNTIME@ mris_fix_topology lh 1.1186 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051473 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=-200 (nv=168428, nf=337256, ne=505884, g=101)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 10 iterations
- marking ambiguous vertices...
- 10110 ambiguous faces found in tessellation
- segmenting defects...
- 99 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- 99 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.0178 (-4.5089)
- -vertex loglikelihood: -5.6626 (-2.8313)
- -normal dot loglikelihood: -3.5889 (-3.5889)
- -quad curv loglikelihood: -6.3603 (-3.1801)
- Total Loglikelihood : -24.6297
- CORRECTING DEFECT 0 (vertices=59, convex hull=90, v0=125)
- After retessellation of defect 0 (v0=125), euler #=-91 (162160,483655,321404) : difference with theory (-96) = -5
- CORRECTING DEFECT 1 (vertices=5, convex hull=25, v0=793)
- After retessellation of defect 1 (v0=793), euler #=-90 (162161,483664,321413) : difference with theory (-95) = -5
- CORRECTING DEFECT 2 (vertices=154, convex hull=131, v0=795)
- After retessellation of defect 2 (v0=795), euler #=-89 (162202,483848,321557) : difference with theory (-94) = -5
- CORRECTING DEFECT 3 (vertices=40, convex hull=66, v0=1935)
- After retessellation of defect 3 (v0=1935), euler #=-88 (162220,483929,321621) : difference with theory (-93) = -5
- CORRECTING DEFECT 4 (vertices=49, convex hull=88, v0=4914)
- After retessellation of defect 4 (v0=4914), euler #=-87 (162236,484014,321691) : difference with theory (-92) = -5
- CORRECTING DEFECT 5 (vertices=31, convex hull=77, v0=6654)
- After retessellation of defect 5 (v0=6654), euler #=-86 (162250,484081,321745) : difference with theory (-91) = -5
- CORRECTING DEFECT 6 (vertices=17, convex hull=54, v0=7743)
- After retessellation of defect 6 (v0=7743), euler #=-85 (162259,484128,321784) : difference with theory (-90) = -5
- CORRECTING DEFECT 7 (vertices=23, convex hull=55, v0=12528)
- After retessellation of defect 7 (v0=12528), euler #=-84 (162272,484189,321833) : difference with theory (-89) = -5
- CORRECTING DEFECT 8 (vertices=13, convex hull=28, v0=13581)
- After retessellation of defect 8 (v0=13581), euler #=-83 (162274,484205,321848) : difference with theory (-88) = -5
- CORRECTING DEFECT 9 (vertices=40, convex hull=70, v0=13666)
- After retessellation of defect 9 (v0=13666), euler #=-82 (162287,484275,321906) : difference with theory (-87) = -5
- CORRECTING DEFECT 10 (vertices=205, convex hull=96, v0=13679)
- After retessellation of defect 10 (v0=13679), euler #=-81 (162325,484430,322024) : difference with theory (-86) = -5
- CORRECTING DEFECT 11 (vertices=74, convex hull=90, v0=18118)
- After retessellation of defect 11 (v0=18118), euler #=-80 (162344,484525,322101) : difference with theory (-85) = -5
- CORRECTING DEFECT 12 (vertices=39, convex hull=26, v0=18751)
- After retessellation of defect 12 (v0=18751), euler #=-79 (162346,484541,322116) : difference with theory (-84) = -5
- CORRECTING DEFECT 13 (vertices=35, convex hull=53, v0=19488)
- After retessellation of defect 13 (v0=19488), euler #=-78 (162366,484624,322180) : difference with theory (-83) = -5
- CORRECTING DEFECT 14 (vertices=98, convex hull=66, v0=22460)
- After retessellation of defect 14 (v0=22460), euler #=-77 (162378,484692,322237) : difference with theory (-82) = -5
- CORRECTING DEFECT 15 (vertices=94, convex hull=96, v0=25672)
- After retessellation of defect 15 (v0=25672), euler #=-76 (162402,484811,322333) : difference with theory (-81) = -5
- CORRECTING DEFECT 16 (vertices=37, convex hull=91, v0=26153)
- After retessellation of defect 16 (v0=26153), euler #=-75 (162423,484914,322416) : difference with theory (-80) = -5
- CORRECTING DEFECT 17 (vertices=223, convex hull=104, v0=28007)
- After retessellation of defect 17 (v0=28007), euler #=-74 (162480,485132,322578) : difference with theory (-79) = -5
- CORRECTING DEFECT 18 (vertices=49, convex hull=78, v0=29622)
- After retessellation of defect 18 (v0=29622), euler #=-73 (162513,485261,322675) : difference with theory (-78) = -5
- CORRECTING DEFECT 19 (vertices=32, convex hull=72, v0=33005)
- After retessellation of defect 19 (v0=33005), euler #=-72 (162531,485344,322741) : difference with theory (-77) = -5
- CORRECTING DEFECT 20 (vertices=25, convex hull=63, v0=37037)
- After retessellation of defect 20 (v0=37037), euler #=-71 (162540,485395,322784) : difference with theory (-76) = -5
- CORRECTING DEFECT 21 (vertices=28, convex hull=44, v0=37535)
- After retessellation of defect 21 (v0=37535), euler #=-70 (162552,485448,322826) : difference with theory (-75) = -5
- CORRECTING DEFECT 22 (vertices=11, convex hull=31, v0=38404)
- After retessellation of defect 22 (v0=38404), euler #=-69 (162553,485461,322839) : difference with theory (-74) = -5
- CORRECTING DEFECT 23 (vertices=17, convex hull=64, v0=39199)
- After retessellation of defect 23 (v0=39199), euler #=-68 (162562,485514,322884) : difference with theory (-73) = -5
- CORRECTING DEFECT 24 (vertices=57, convex hull=68, v0=39590)
- After retessellation of defect 24 (v0=39590), euler #=-67 (162589,485621,322965) : difference with theory (-72) = -5
- CORRECTING DEFECT 25 (vertices=39, convex hull=63, v0=52737)
- After retessellation of defect 25 (v0=52737), euler #=-66 (162609,485706,323031) : difference with theory (-71) = -5
- CORRECTING DEFECT 26 (vertices=28, convex hull=63, v0=53219)
- After retessellation of defect 26 (v0=53219), euler #=-65 (162619,485758,323074) : difference with theory (-70) = -5
- CORRECTING DEFECT 27 (vertices=55, convex hull=84, v0=53408)
- After retessellation of defect 27 (v0=53408), euler #=-64 (162654,485905,323187) : difference with theory (-69) = -5
- CORRECTING DEFECT 28 (vertices=52, convex hull=109, v0=55822)
- After retessellation of defect 28 (v0=55822), euler #=-63 (162680,486030,323287) : difference with theory (-68) = -5
- CORRECTING DEFECT 29 (vertices=37, convex hull=58, v0=58993)
- After retessellation of defect 29 (v0=58993), euler #=-62 (162707,486134,323365) : difference with theory (-67) = -5
- CORRECTING DEFECT 30 (vertices=22, convex hull=55, v0=59124)
- After retessellation of defect 30 (v0=59124), euler #=-61 (162716,486185,323408) : difference with theory (-66) = -5
- CORRECTING DEFECT 31 (vertices=291, convex hull=170, v0=60117)
- After retessellation of defect 31 (v0=60117), euler #=-62 (162786,486489,323641) : difference with theory (-65) = -3
- CORRECTING DEFECT 32 (vertices=42, convex hull=45, v0=60124)
- After retessellation of defect 32 (v0=60124), euler #=-61 (162800,486548,323687) : difference with theory (-64) = -3
- CORRECTING DEFECT 33 (vertices=73, convex hull=95, v0=61266)
- After retessellation of defect 33 (v0=61266), euler #=-60 (162836,486698,323802) : difference with theory (-63) = -3
- CORRECTING DEFECT 34 (vertices=12, convex hull=30, v0=62557)
- After retessellation of defect 34 (v0=62557), euler #=-59 (162838,486714,323817) : difference with theory (-62) = -3
- CORRECTING DEFECT 35 (vertices=27, convex hull=74, v0=64816)
- After retessellation of defect 35 (v0=64816), euler #=-58 (162850,486780,323872) : difference with theory (-61) = -3
- CORRECTING DEFECT 36 (vertices=43, convex hull=65, v0=70793)
- After retessellation of defect 36 (v0=70793), euler #=-57 (162873,486878,323948) : difference with theory (-60) = -3
- CORRECTING DEFECT 37 (vertices=6, convex hull=17, v0=72294)
- After retessellation of defect 37 (v0=72294), euler #=-56 (162874,486886,323956) : difference with theory (-59) = -3
- CORRECTING DEFECT 38 (vertices=31, convex hull=76, v0=79876)
- After retessellation of defect 38 (v0=79876), euler #=-55 (162884,486947,324008) : difference with theory (-58) = -3
- CORRECTING DEFECT 39 (vertices=81, convex hull=102, v0=81201)
- After retessellation of defect 39 (v0=81201), euler #=-54 (162905,487054,324095) : difference with theory (-57) = -3
- CORRECTING DEFECT 40 (vertices=90, convex hull=35, v0=83559)
- After retessellation of defect 40 (v0=83559), euler #=-53 (162914,487093,324126) : difference with theory (-56) = -3
- CORRECTING DEFECT 41 (vertices=25, convex hull=60, v0=85200)
- After retessellation of defect 41 (v0=85200), euler #=-52 (162930,487165,324183) : difference with theory (-55) = -3
- CORRECTING DEFECT 42 (vertices=70, convex hull=51, v0=86264)
- After retessellation of defect 42 (v0=86264), euler #=-52 (162942,487225,324231) : difference with theory (-54) = -2
- CORRECTING DEFECT 43 (vertices=12, convex hull=20, v0=88059)
- After retessellation of defect 43 (v0=88059), euler #=-51 (162943,487235,324241) : difference with theory (-53) = -2
- CORRECTING DEFECT 44 (vertices=46, convex hull=58, v0=92106)
- After retessellation of defect 44 (v0=92106), euler #=-50 (162963,487316,324303) : difference with theory (-52) = -2
- CORRECTING DEFECT 45 (vertices=18, convex hull=26, v0=93048)
- After retessellation of defect 45 (v0=93048), euler #=-49 (162965,487334,324320) : difference with theory (-51) = -2
- CORRECTING DEFECT 46 (vertices=18, convex hull=53, v0=93442)
- After retessellation of defect 46 (v0=93442), euler #=-48 (162974,487381,324359) : difference with theory (-50) = -2
- CORRECTING DEFECT 47 (vertices=49, convex hull=86, v0=94589)
- After retessellation of defect 47 (v0=94589), euler #=-47 (162997,487486,324442) : difference with theory (-49) = -2
- CORRECTING DEFECT 48 (vertices=27, convex hull=33, v0=97396)
- After retessellation of defect 48 (v0=97396), euler #=-46 (163004,487519,324469) : difference with theory (-48) = -2
- CORRECTING DEFECT 49 (vertices=40, convex hull=59, v0=100047)
- After retessellation of defect 49 (v0=100047), euler #=-45 (163021,487594,324528) : difference with theory (-47) = -2
- CORRECTING DEFECT 50 (vertices=41, convex hull=50, v0=100829)
- After retessellation of defect 50 (v0=100829), euler #=-44 (163031,487643,324568) : difference with theory (-46) = -2
- CORRECTING DEFECT 51 (vertices=13, convex hull=31, v0=101500)
- After retessellation of defect 51 (v0=101500), euler #=-43 (163032,487656,324581) : difference with theory (-45) = -2
- CORRECTING DEFECT 52 (vertices=80, convex hull=78, v0=101627)
- After retessellation of defect 52 (v0=101627), euler #=-42 (163044,487723,324637) : difference with theory (-44) = -2
- CORRECTING DEFECT 53 (vertices=11, convex hull=21, v0=102311)
- After retessellation of defect 53 (v0=102311), euler #=-41 (163047,487738,324650) : difference with theory (-43) = -2
- CORRECTING DEFECT 54 (vertices=49, convex hull=110, v0=103293)
- After retessellation of defect 54 (v0=103293), euler #=-40 (163081,487885,324764) : difference with theory (-42) = -2
- CORRECTING DEFECT 55 (vertices=68, convex hull=102, v0=104784)
- After retessellation of defect 55 (v0=104784), euler #=-39 (163131,488083,324913) : difference with theory (-41) = -2
- CORRECTING DEFECT 56 (vertices=54, convex hull=53, v0=105453)
- After retessellation of defect 56 (v0=105453), euler #=-38 (163148,488153,324967) : difference with theory (-40) = -2
- CORRECTING DEFECT 57 (vertices=178, convex hull=130, v0=106549)
- After retessellation of defect 57 (v0=106549), euler #=-37 (163176,488296,325083) : difference with theory (-39) = -2
- CORRECTING DEFECT 58 (vertices=74, convex hull=93, v0=108461)
- After retessellation of defect 58 (v0=108461), euler #=-36 (163207,488426,325183) : difference with theory (-38) = -2
- CORRECTING DEFECT 59 (vertices=26, convex hull=49, v0=108937)
- After retessellation of defect 59 (v0=108937), euler #=-35 (163215,488471,325221) : difference with theory (-37) = -2
- CORRECTING DEFECT 60 (vertices=244, convex hull=220, v0=109766)
- After retessellation of defect 60 (v0=109766), euler #=-34 (163275,488766,325457) : difference with theory (-36) = -2
- CORRECTING DEFECT 61 (vertices=27, convex hull=25, v0=110318)
- After retessellation of defect 61 (v0=110318), euler #=-33 (163277,488779,325469) : difference with theory (-35) = -2
- CORRECTING DEFECT 62 (vertices=12, convex hull=32, v0=111546)
- After retessellation of defect 62 (v0=111546), euler #=-32 (163279,488799,325488) : difference with theory (-34) = -2
- CORRECTING DEFECT 63 (vertices=84, convex hull=93, v0=111582)
- After retessellation of defect 63 (v0=111582), euler #=-31 (163306,488923,325586) : difference with theory (-33) = -2
- CORRECTING DEFECT 64 (vertices=16, convex hull=42, v0=112351)
- After retessellation of defect 64 (v0=112351), euler #=-30 (163314,488962,325618) : difference with theory (-32) = -2
- CORRECTING DEFECT 65 (vertices=45, convex hull=28, v0=114808)
- After retessellation of defect 65 (v0=114808), euler #=-29 (163321,488991,325641) : difference with theory (-31) = -2
- CORRECTING DEFECT 66 (vertices=131, convex hull=43, v0=115041)
- After retessellation of defect 66 (v0=115041), euler #=-28 (163332,489042,325682) : difference with theory (-30) = -2
- CORRECTING DEFECT 67 (vertices=38, convex hull=65, v0=116503)
- After retessellation of defect 67 (v0=116503), euler #=-27 (163350,489125,325748) : difference with theory (-29) = -2
- CORRECTING DEFECT 68 (vertices=31, convex hull=65, v0=116571)
- After retessellation of defect 68 (v0=116571), euler #=-26 (163360,489182,325796) : difference with theory (-28) = -2
- CORRECTING DEFECT 69 (vertices=40, convex hull=41, v0=117606)
- After retessellation of defect 69 (v0=117606), euler #=-25 (163368,489221,325828) : difference with theory (-27) = -2
- CORRECTING DEFECT 70 (vertices=146, convex hull=64, v0=120015)
- After retessellation of defect 70 (v0=120015), euler #=-24 (163383,489293,325886) : difference with theory (-26) = -2
- CORRECTING DEFECT 71 (vertices=201, convex hull=152, v0=121430)
- After retessellation of defect 71 (v0=121430), euler #=-23 (163429,489502,326050) : difference with theory (-25) = -2
- CORRECTING DEFECT 72 (vertices=234, convex hull=172, v0=121452)
- After retessellation of defect 72 (v0=121452), euler #=-22 (163492,489770,326256) : difference with theory (-24) = -2
- CORRECTING DEFECT 73 (vertices=259, convex hull=190, v0=122855)
- After retessellation of defect 73 (v0=122855), euler #=-21 (163558,490064,326485) : difference with theory (-23) = -2
- CORRECTING DEFECT 74 (vertices=102, convex hull=63, v0=123950)
- After retessellation of defect 74 (v0=123950), euler #=-20 (163573,490134,326541) : difference with theory (-22) = -2
- CORRECTING DEFECT 75 (vertices=192, convex hull=120, v0=125950)
- After retessellation of defect 75 (v0=125950), euler #=-20 (163596,490263,326647) : difference with theory (-21) = -1
- CORRECTING DEFECT 76 (vertices=5, convex hull=12, v0=129169)
- After retessellation of defect 76 (v0=129169), euler #=-19 (163596,490265,326650) : difference with theory (-20) = -1
- CORRECTING DEFECT 77 (vertices=15, convex hull=24, v0=129404)
- After retessellation of defect 77 (v0=129404), euler #=-18 (163599,490279,326662) : difference with theory (-19) = -1
- CORRECTING DEFECT 78 (vertices=24, convex hull=46, v0=129555)
- After retessellation of defect 78 (v0=129555), euler #=-17 (163608,490328,326703) : difference with theory (-18) = -1
- CORRECTING DEFECT 79 (vertices=68, convex hull=95, v0=134541)
- After retessellation of defect 79 (v0=134541), euler #=-16 (163625,490418,326777) : difference with theory (-17) = -1
- CORRECTING DEFECT 80 (vertices=94, convex hull=105, v0=135044)
- After retessellation of defect 80 (v0=135044), euler #=-15 (163646,490528,326867) : difference with theory (-16) = -1
- CORRECTING DEFECT 81 (vertices=60, convex hull=72, v0=136478)
- After retessellation of defect 81 (v0=136478), euler #=-14 (163658,490592,326920) : difference with theory (-15) = -1
- CORRECTING DEFECT 82 (vertices=36, convex hull=56, v0=137980)
- After retessellation of defect 82 (v0=137980), euler #=-13 (163673,490655,326969) : difference with theory (-14) = -1
- CORRECTING DEFECT 83 (vertices=106, convex hull=79, v0=139837)
- After retessellation of defect 83 (v0=139837), euler #=-12 (163689,490744,327043) : difference with theory (-13) = -1
- CORRECTING DEFECT 84 (vertices=16, convex hull=18, v0=140892)
- After retessellation of defect 84 (v0=140892), euler #=-11 (163689,490750,327050) : difference with theory (-12) = -1
- CORRECTING DEFECT 85 (vertices=31, convex hull=47, v0=140898)
- After retessellation of defect 85 (v0=140898), euler #=-10 (163698,490795,327087) : difference with theory (-11) = -1
- CORRECTING DEFECT 86 (vertices=42, convex hull=83, v0=146184)
- After retessellation of defect 86 (v0=146184), euler #=-9 (163706,490853,327138) : difference with theory (-10) = -1
- CORRECTING DEFECT 87 (vertices=68, convex hull=74, v0=148789)
- After retessellation of defect 87 (v0=148789), euler #=-8 (163719,490921,327194) : difference with theory (-9) = -1
- CORRECTING DEFECT 88 (vertices=65, convex hull=50, v0=151019)
- After retessellation of defect 88 (v0=151019), euler #=-7 (163727,490965,327231) : difference with theory (-8) = -1
- CORRECTING DEFECT 89 (vertices=6, convex hull=21, v0=151234)
- After retessellation of defect 89 (v0=151234), euler #=-6 (163728,490973,327239) : difference with theory (-7) = -1
- CORRECTING DEFECT 90 (vertices=16, convex hull=23, v0=151745)
- After retessellation of defect 90 (v0=151745), euler #=-5 (163730,490985,327250) : difference with theory (-6) = -1
- CORRECTING DEFECT 91 (vertices=143, convex hull=88, v0=155171)
- After retessellation of defect 91 (v0=155171), euler #=-4 (163761,491118,327353) : difference with theory (-5) = -1
- CORRECTING DEFECT 92 (vertices=105, convex hull=99, v0=155176)
- After retessellation of defect 92 (v0=155176), euler #=-3 (163790,491247,327454) : difference with theory (-4) = -1
- CORRECTING DEFECT 93 (vertices=9, convex hull=20, v0=156105)
- After retessellation of defect 93 (v0=156105), euler #=-2 (163791,491254,327461) : difference with theory (-3) = -1
- CORRECTING DEFECT 94 (vertices=23, convex hull=26, v0=161799)
- After retessellation of defect 94 (v0=161799), euler #=-1 (163793,491270,327476) : difference with theory (-2) = -1
- CORRECTING DEFECT 95 (vertices=32, convex hull=70, v0=165885)
- After retessellation of defect 95 (v0=165885), euler #=0 (163804,491330,327526) : difference with theory (-1) = -1
- CORRECTING DEFECT 96 (vertices=106, convex hull=74, v0=167348)
- After retessellation of defect 96 (v0=167348), euler #=1 (163821,491414,327594) : difference with theory (0) = -1
- CORRECTING DEFECT 97 (vertices=45, convex hull=45, v0=167478)
- After retessellation of defect 97 (v0=167478), euler #=2 (163827,491448,327623) : difference with theory (1) = -1
- CORRECTING DEFECT 98 (vertices=74, convex hull=56, v0=167760)
- After retessellation of defect 98 (v0=167760), euler #=2 (163844,491526,327684) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.26 (0.07-->10.58) (max @ vno 148652 --> 155187)
- 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 (0.07-->10.58) (max @ vno 148652 --> 155187)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 357 mutations (35.3%), 655 crossovers (64.7%), 494 vertices were eliminated
- building final representation...
- 4584 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=163844, nf=327684, ne=491526, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.orig...
- defective orientation at vertex 73780(73793) with faces 147342 and 323635
- defective orientation at vertex 73780(75186) with faces 147343 and 323576
- defective orientation at vertex 73793(73780) with faces 147342 and 323635
- defective orientation at vertex 73793(75196) with faces 147342 and 323638
- defective orientation at vertex 75186(73780) with faces 147343 and 323576
- defective orientation at vertex 75186(75196) with faces 147343 and 323577
- defective orientation at vertex 75196(73793) with faces 147342 and 323638
- defective orientation at vertex 75196(75186) with faces 147343 and 323577
- 0.005 % of the vertices (8 vertices) exhibit an orientation change
- topology fixing took 74.6 minutes
- 0 defective edges
- removing intersecting faces
- 000: 653 intersecting
- 001: 22 intersecting
- 002: 2 intersecting
- mris_fix_topology utimesec 4478.091226
- mris_fix_topology stimesec 0.219966
- mris_fix_topology ru_maxrss 522912
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 56200
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 23376
- mris_fix_topology ru_oublock 16096
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 682
- mris_fix_topology ru_nivcsw 10645
- FSRUNTIME@ mris_fix_topology rh 1.2436 hours 1 threads
- PIDs (28536 28539) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 166125 - 498369 + 332246 = 2 --> 0 holes
- F =2V-4: 332246 = 332250-4 (0)
- 2E=3F: 996738 = 996738 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 163844 - 491526 + 327684 = 2 --> 0 holes
- F =2V-4: 327684 = 327688-4 (0)
- 2E=3F: 983052 = 983052 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 106 intersecting
- 001: 8 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 72 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Sat Oct 7 22:10:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051473 lh
- #--------------------------------------------
- #@# Make White Surf rh Sat Oct 7 22:10:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051473 rh
- Waiting for PID 919 of (919 922) to complete...
- Waiting for PID 922 of (919 922) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051473 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-6.0.0/0051473/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- 33643 bright wm thresholded.
- 4088 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.orig...
- computing class statistics...
- border white: 336363 voxels (2.00%)
- border gray 353810 voxels (2.11%)
- WM (105.0): 104.0 +- 5.7 [70.0 --> 110.0]
- GM (87.0) : 86.1 +- 10.2 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 75.8 (was 70)
- setting MAX_BORDER_WHITE to 112.7 (was 105)
- setting MIN_BORDER_WHITE to 86.0 (was 85)
- setting MAX_CSF to 65.6 (was 40)
- setting MAX_GRAY to 101.3 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 75.8 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 55.4 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.81 +- 0.23 (0.02-->5.93) (max @ vno 165232 --> 165278)
- face area 0.27 +- 0.13 (0.00-->6.80)
- mean absolute distance = 0.79 +- 0.99
- 5421 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=107+-3.5, GM=86+-6.1
- mean inside = 101.2, mean outside = 89.5
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=92.7, 223 (223) missing vertices, mean dist 0.3 [0.7 (%33.2)->0.8 (%66.8))]
- %65 local maxima, %31 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.90 +- 0.26 (0.05-->5.98) (max @ vno 165232 --> 165278)
- face area 0.27 +- 0.14 (0.00-->4.74)
- mean absolute distance = 0.44 +- 0.66
- 6162 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2032094.5, rms=6.410
- 001: dt: 0.5000, sse=1330557.9, rms=4.577 (28.591%)
- 002: dt: 0.5000, sse=1035056.0, rms=3.445 (24.734%)
- 003: dt: 0.5000, sse=898730.9, rms=2.764 (19.778%)
- 004: dt: 0.5000, sse=838707.1, rms=2.368 (14.323%)
- 005: dt: 0.5000, sse=807289.4, rms=2.170 (8.341%)
- 006: dt: 0.5000, sse=794348.8, rms=2.077 (4.295%)
- rms = 2.03, time step reduction 1 of 3 to 0.250...
- 007: dt: 0.5000, sse=789165.6, rms=2.034 (2.063%)
- 008: dt: 0.2500, sse=759583.4, rms=1.629 (19.927%)
- 009: dt: 0.2500, sse=748623.2, rms=1.563 (4.054%)
- rms = 1.54, time step reduction 2 of 3 to 0.125...
- 010: dt: 0.2500, sse=746499.2, rms=1.537 (1.671%)
- rms = 1.52, time step reduction 3 of 3 to 0.062...
- 011: dt: 0.1250, sse=740678.4, rms=1.518 (1.242%)
- positioning took 1.3 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=94.6, 141 (58) missing vertices, mean dist -0.3 [0.5 (%69.4)->0.3 (%30.6))]
- %79 local maxima, %16 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 0.88 +- 0.25 (0.05-->6.72) (max @ vno 63205 --> 60598)
- face area 0.34 +- 0.17 (0.00-->6.07)
- mean absolute distance = 0.32 +- 0.45
- 6492 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1117786.6, rms=3.072
- 012: dt: 0.5000, sse=951899.9, rms=1.915 (37.647%)
- 013: dt: 0.5000, sse=894422.3, rms=1.563 (18.415%)
- 014: dt: 0.5000, sse=882457.3, rms=1.477 (5.450%)
- rms = 1.46, time step reduction 1 of 3 to 0.250...
- 015: dt: 0.5000, sse=894222.4, rms=1.461 (1.097%)
- 016: dt: 0.2500, sse=863425.9, rms=1.205 (17.567%)
- rms = 1.17, time step reduction 2 of 3 to 0.125...
- 017: dt: 0.2500, sse=861662.9, rms=1.171 (2.756%)
- rms = 1.16, time step reduction 3 of 3 to 0.062...
- 018: dt: 0.1250, sse=858919.1, rms=1.161 (0.891%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 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=96.1, 162 (41) missing vertices, mean dist -0.2 [0.4 (%69.9)->0.2 (%30.1))]
- %87 local maxima, % 8 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.87 +- 0.26 (0.05-->6.95) (max @ vno 63205 --> 60598)
- face area 0.33 +- 0.17 (0.00-->5.95)
- mean absolute distance = 0.25 +- 0.36
- 4889 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=959278.5, rms=2.329
- 019: dt: 0.5000, sse=866702.5, rms=1.444 (37.984%)
- 020: dt: 0.5000, sse=848573.3, rms=1.287 (10.874%)
- rms = 1.32, time step reduction 1 of 3 to 0.250...
- 021: dt: 0.2500, sse=833891.9, rms=1.145 (11.073%)
- 022: dt: 0.2500, sse=831137.8, rms=1.078 (5.839%)
- rms = 1.07, time step reduction 2 of 3 to 0.125...
- 023: dt: 0.2500, sse=829972.5, rms=1.070 (0.757%)
- rms = 1.06, time step reduction 3 of 3 to 0.062...
- 024: dt: 0.1250, sse=829316.7, rms=1.062 (0.772%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=96.6, 138 (17) missing vertices, mean dist -0.1 [0.3 (%57.1)->0.2 (%42.9))]
- %90 local maxima, % 6 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=834802.9, rms=1.308
- 025: dt: 0.5000, sse=817057.3, rms=0.885 (32.339%)
- rms = 1.13, time step reduction 1 of 3 to 0.250...
- rms = 0.84, time step reduction 2 of 3 to 0.125...
- 026: dt: 0.2500, sse=799082.1, rms=0.836 (5.546%)
- rms = 0.84, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=806679.2, rms=0.839 (-0.368%)
- positioning took 0.5 minutes
- generating cortex label...
- 16 non-cortical segments detected
- only using segment with 7143 vertices
- erasing segment 0 (vno[0] = 36677)
- erasing segment 1 (vno[0] = 39298)
- erasing segment 3 (vno[0] = 67109)
- erasing segment 4 (vno[0] = 104768)
- erasing segment 5 (vno[0] = 109715)
- erasing segment 6 (vno[0] = 112660)
- erasing segment 7 (vno[0] = 115222)
- erasing segment 8 (vno[0] = 116330)
- erasing segment 9 (vno[0] = 117180)
- erasing segment 10 (vno[0] = 117489)
- erasing segment 11 (vno[0] = 117548)
- erasing segment 12 (vno[0] = 119872)
- erasing segment 13 (vno[0] = 119905)
- erasing segment 14 (vno[0] = 125115)
- erasing segment 15 (vno[0] = 138080)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.area
- vertex spacing 0.88 +- 0.27 (0.05-->7.06) (max @ vno 60598 --> 63205)
- face area 0.32 +- 0.16 (0.00-->5.85)
- refinement took 5.7 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051473 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-6.0.0/0051473/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- 33643 bright wm thresholded.
- 4088 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.orig...
- computing class statistics...
- border white: 336363 voxels (2.00%)
- border gray 353810 voxels (2.11%)
- WM (105.0): 104.0 +- 5.7 [70.0 --> 110.0]
- GM (87.0) : 86.1 +- 10.2 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 73.8 (was 70)
- setting MAX_BORDER_WHITE to 112.7 (was 105)
- setting MIN_BORDER_WHITE to 84.0 (was 85)
- setting MAX_CSF to 63.6 (was 40)
- setting MAX_GRAY to 101.3 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 73.8 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 53.4 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.81 +- 0.23 (0.03-->4.13) (max @ vno 148651 --> 155187)
- face area 0.27 +- 0.13 (0.00-->3.25)
- mean absolute distance = 0.83 +- 0.98
- 5798 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=107+-4.3, GM=84+-7.0
- mean inside = 101.0, mean outside = 89.0
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- mean border=91.6, 217 (217) missing vertices, mean dist 0.4 [0.7 (%31.0)->0.9 (%69.0))]
- %68 local maxima, %28 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.91 +- 0.27 (0.09-->4.29) (max @ vno 141643 --> 142409)
- face area 0.27 +- 0.14 (0.00-->2.98)
- mean absolute distance = 0.44 +- 0.64
- 6334 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2240773.0, rms=6.957
- 001: dt: 0.5000, sse=1448937.2, rms=5.032 (27.660%)
- 002: dt: 0.5000, sse=1104227.4, rms=3.815 (24.186%)
- 003: dt: 0.5000, sse=936115.5, rms=3.046 (20.151%)
- 004: dt: 0.5000, sse=857659.2, rms=2.591 (14.939%)
- 005: dt: 0.5000, sse=821265.9, rms=2.335 (9.893%)
- 006: dt: 0.5000, sse=801151.4, rms=2.203 (5.638%)
- 007: dt: 0.5000, sse=791861.1, rms=2.127 (3.456%)
- rms = 2.08, time step reduction 1 of 3 to 0.250...
- 008: dt: 0.5000, sse=787020.9, rms=2.081 (2.176%)
- 009: dt: 0.2500, sse=742725.9, rms=1.621 (22.118%)
- 010: dt: 0.2500, sse=736518.4, rms=1.547 (4.553%)
- rms = 1.52, time step reduction 2 of 3 to 0.125...
- 011: dt: 0.2500, sse=738466.4, rms=1.520 (1.703%)
- rms = 1.50, time step reduction 3 of 3 to 0.062...
- 012: dt: 0.1250, sse=733246.1, rms=1.502 (1.227%)
- positioning took 1.5 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=93.7, 154 (43) missing vertices, mean dist -0.3 [0.5 (%71.7)->0.3 (%28.3))]
- %81 local maxima, %15 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.89 +- 0.26 (0.05-->4.24) (max @ vno 141643 --> 142409)
- face area 0.35 +- 0.17 (0.00-->4.00)
- mean absolute distance = 0.32 +- 0.44
- 6174 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1176836.5, rms=3.328
- 013: dt: 0.5000, sse=965691.1, rms=2.095 (37.058%)
- 014: dt: 0.5000, sse=917916.1, rms=1.729 (17.440%)
- 015: dt: 0.5000, sse=905338.3, rms=1.618 (6.469%)
- rms = 1.60, time step reduction 1 of 3 to 0.250...
- 016: dt: 0.5000, sse=899530.4, rms=1.600 (1.063%)
- 017: dt: 0.2500, sse=880213.0, rms=1.300 (18.742%)
- rms = 1.25, time step reduction 2 of 3 to 0.125...
- 018: dt: 0.2500, sse=874035.6, rms=1.254 (3.566%)
- rms = 1.24, time step reduction 3 of 3 to 0.062...
- 019: dt: 0.1250, sse=872944.6, rms=1.239 (1.207%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=95.3, 151 (27) missing vertices, mean dist -0.2 [0.3 (%71.4)->0.3 (%28.6))]
- %89 local maxima, % 7 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 0.88 +- 0.26 (0.06-->4.18) (max @ vno 141643 --> 142409)
- face area 0.33 +- 0.17 (0.00-->3.84)
- mean absolute distance = 0.25 +- 0.35
- 4689 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=976713.8, rms=2.421
- 020: dt: 0.5000, sse=881508.2, rms=1.536 (36.554%)
- 021: dt: 0.5000, sse=859745.9, rms=1.389 (9.588%)
- rms = 1.42, time step reduction 1 of 3 to 0.250...
- 022: dt: 0.2500, sse=841384.4, rms=1.227 (11.680%)
- 023: dt: 0.2500, sse=837019.9, rms=1.149 (6.319%)
- rms = 1.14, time step reduction 2 of 3 to 0.125...
- 024: dt: 0.2500, sse=837503.1, rms=1.138 (0.927%)
- rms = 1.13, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=833808.8, rms=1.130 (0.775%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=95.9, 195 (20) missing vertices, mean dist -0.1 [0.3 (%57.9)->0.2 (%42.1))]
- %91 local maxima, % 5 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-6.0.0/0051473/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=836879.1, rms=1.360
- 026: dt: 0.5000, sse=816594.1, rms=0.979 (28.042%)
- rms = 1.21, time step reduction 1 of 3 to 0.250...
- 027: dt: 0.2500, sse=807582.0, rms=0.918 (6.252%)
- rms = 0.94, time step reduction 2 of 3 to 0.125...
- rms = 0.91, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=802314.6, rms=0.912 (0.613%)
- positioning took 0.5 minutes
- generating cortex label...
- 12 non-cortical segments detected
- only using segment with 7608 vertices
- erasing segment 1 (vno[0] = 99214)
- erasing segment 2 (vno[0] = 111474)
- erasing segment 3 (vno[0] = 119758)
- erasing segment 4 (vno[0] = 120249)
- erasing segment 5 (vno[0] = 128314)
- erasing segment 6 (vno[0] = 129139)
- erasing segment 7 (vno[0] = 131727)
- erasing segment 8 (vno[0] = 134927)
- erasing segment 9 (vno[0] = 138047)
- erasing segment 10 (vno[0] = 140544)
- erasing segment 11 (vno[0] = 142824)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.area
- vertex spacing 0.88 +- 0.26 (0.03-->4.16) (max @ vno 141643 --> 142409)
- face area 0.33 +- 0.16 (0.00-->3.77)
- refinement took 5.9 minutes
- PIDs (919 922) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Sat Oct 7 22:15:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Sat Oct 7 22:15:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 1402 of (1402 1405) to complete...
- Waiting for PID 1405 of (1402 1405) 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 (1402 1405) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Sat Oct 7 22:16:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Sat Oct 7 22:16:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 1499 of (1499 1502) to complete...
- Waiting for PID 1502 of (1499 1502) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 48.5 mm, total surface area = 96570 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=0.128 (target=0.015)
step 010: RMS=0.098 (target=0.015)
step 015: RMS=0.082 (target=0.015)
step 020: RMS=0.067 (target=0.015)
step 025: RMS=0.057 (target=0.015)
step 030: RMS=0.048 (target=0.015)
step 035: RMS=0.043 (target=0.015)
step 040: RMS=0.036 (target=0.015)
step 045: RMS=0.030 (target=0.015)
step 050: RMS=0.028 (target=0.015)
step 055: RMS=0.025 (target=0.015)
step 060: RMS=0.023 (target=0.015)
- inflation complete.
- inflation took 0.9 minutes
- mris_inflate utimesec 53.216909
- mris_inflate stimesec 0.119981
- mris_inflate ru_maxrss 243080
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 35284
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 11688
- mris_inflate ru_oublock 13008
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2190
- mris_inflate ru_nivcsw 3597
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 49.0 mm, total surface area = 96732 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.183 (target=0.015)
step 005: RMS=0.131 (target=0.015)
step 010: RMS=0.100 (target=0.015)
step 015: RMS=0.082 (target=0.015)
step 020: RMS=0.070 (target=0.015)
step 025: RMS=0.059 (target=0.015)
step 030: RMS=0.050 (target=0.015)
step 035: RMS=0.043 (target=0.015)
step 040: RMS=0.037 (target=0.015)
step 045: RMS=0.034 (target=0.015)
step 050: RMS=0.031 (target=0.015)
step 055: RMS=0.029 (target=0.015)
step 060: RMS=0.026 (target=0.015)
- inflation complete.
- inflation took 0.8 minutes
- mris_inflate utimesec 48.308655
- mris_inflate stimesec 0.122981
- mris_inflate ru_maxrss 239692
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 34436
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 12832
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2221
- mris_inflate ru_nivcsw 3475
- PIDs (1499 1502) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Sat Oct 7 22:16:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 22:16:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 1608 of (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) to complete...
- Waiting for PID 1611 of (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) to complete...
- Waiting for PID 1614 of (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) to complete...
- Waiting for PID 1617 of (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) to complete...
- Waiting for PID 1620 of (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) to complete...
- Waiting for PID 1623 of (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) to complete...
- Waiting for PID 1626 of (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) to complete...
- Waiting for PID 1629 of (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) to complete...
- Waiting for PID 1632 of (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) to complete...
- Waiting for PID 1635 of (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) to complete...
- Waiting for PID 1638 of (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) to complete...
- Waiting for PID 1641 of (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = -57.422*4pi (-721.586) --> 58 handles
- ICI = 232.6, FI = 2308.2, variation=38283.842
- 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
- 207 vertices thresholded to be in k1 ~ [-0.47 0.24], k2 ~ [-0.11 0.15]
- total integrated curvature = 0.408*4pi (5.133) --> 1 handles
- ICI = 1.6, FI = 10.5, variation=180.963
- 157 vertices thresholded to be in [-0.03 0.01]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 138 vertices thresholded to be in [-0.13 0.13]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.015, std = 0.022
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = 15.008*4pi (188.590) --> -14 handles
- ICI = 231.9, FI = 2282.2, variation=36239.712
- 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
- 212 vertices thresholded to be in k1 ~ [-0.30 0.39], k2 ~ [-0.11 0.10]
- total integrated curvature = 0.316*4pi (3.968) --> 1 handles
- ICI = 1.5, FI = 11.4, variation=188.765
- 166 vertices thresholded to be in [-0.02 0.01]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 154 vertices thresholded to be in [-0.14 0.17]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.016, std = 0.023
- done.
- PIDs (1608 1611 1614 1617 1620 1623 1626 1629 1632 1635 1638 1641) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Sat Oct 7 22:18:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0051473 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 [ 0051473/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 [ 316 ]
- Gb_filter = 0
- WARN: S lookup min: -0.435277
- WARN: S explicit min: 0.000000 vertex = 97
- #-----------------------------------------
- #@# Curvature Stats rh Sat Oct 7 22:18:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0051473 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 [ 0051473/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 [ 319 ]
- Gb_filter = 0
- WARN: S lookup min: -0.102073
- WARN: S explicit min: 0.000000 vertex = 195
- #--------------------------------------------
- #@# Sphere lh Sat Oct 7 22:18:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Sat Oct 7 22:18:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 1800 of (1800 1804) to complete...
- Waiting for PID 1804 of (1800 1804) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0.262...
- 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 %20.69
- pass 1: epoch 2 of 3 starting distance error %20.67
- unfolding complete - removing small folds...
- starting distance error %20.60
- removing remaining folds...
- final distance error %20.62
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 312 negative triangles
- 183: dt=0.9900, 312 negative triangles
- 184: dt=0.9900, 161 negative triangles
- 185: dt=0.9900, 115 negative triangles
- 186: dt=0.9900, 83 negative triangles
- 187: dt=0.9900, 76 negative triangles
- 188: dt=0.9900, 61 negative triangles
- 189: dt=0.9900, 64 negative triangles
- 190: dt=0.9900, 66 negative triangles
- 191: dt=0.9900, 53 negative triangles
- 192: dt=0.9900, 58 negative triangles
- 193: dt=0.9900, 55 negative triangles
- 194: dt=0.9900, 53 negative triangles
- 195: dt=0.9900, 51 negative triangles
- 196: dt=0.9900, 45 negative triangles
- 197: dt=0.9900, 42 negative triangles
- 198: dt=0.9900, 42 negative triangles
- 199: dt=0.9900, 43 negative triangles
- 200: dt=0.9900, 40 negative triangles
- 201: dt=0.9900, 41 negative triangles
- 202: dt=0.9900, 34 negative triangles
- 203: dt=0.9900, 37 negative triangles
- 204: dt=0.9900, 36 negative triangles
- 205: dt=0.9900, 35 negative triangles
- 206: dt=0.9900, 38 negative triangles
- 207: dt=0.9900, 38 negative triangles
- 208: dt=0.9900, 32 negative triangles
- 209: dt=0.9900, 33 negative triangles
- 210: dt=0.9900, 29 negative triangles
- 211: dt=0.9900, 29 negative triangles
- 212: dt=0.9900, 30 negative triangles
- 213: dt=0.9900, 27 negative triangles
- 214: dt=0.9900, 27 negative triangles
- 215: dt=0.9900, 23 negative triangles
- 216: dt=0.9900, 23 negative triangles
- 217: dt=0.9900, 21 negative triangles
- 218: dt=0.9900, 24 negative triangles
- 219: dt=0.9900, 20 negative triangles
- 220: dt=0.9900, 23 negative triangles
- 221: dt=0.9900, 16 negative triangles
- 222: dt=0.9900, 12 negative triangles
- 223: dt=0.9900, 11 negative triangles
- 224: dt=0.9900, 13 negative triangles
- 225: dt=0.9900, 13 negative triangles
- 226: dt=0.9900, 8 negative triangles
- 227: dt=0.9900, 10 negative triangles
- 228: dt=0.9900, 8 negative triangles
- 229: dt=0.9900, 7 negative triangles
- 230: dt=0.9900, 7 negative triangles
- 231: dt=0.9900, 4 negative triangles
- 232: dt=0.9900, 1 negative triangles
- 233: dt=0.9900, 2 negative triangles
- 234: dt=0.9900, 1 negative triangles
- 235: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 1.34 hours
- mris_sphere utimesec 4813.638215
- mris_sphere stimesec 1.526767
- mris_sphere ru_maxrss 341124
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 59929
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 11752
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 126162
- mris_sphere ru_nivcsw 402471
- FSRUNTIME@ mris_sphere 1.3386 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0.259...
- MRISunfold() max_passes = 1 -------
- tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
- using quadratic fit line minimization
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 1.000000
- desired_rms_height -1.000000
- momentum 0.900000
- nbhd_size 7
- max_nbrs 8
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 1234
- --------------------
- mrisRemoveNegativeArea()
- pass 1: epoch 1 of 3 starting distance error %20.54
- pass 1: epoch 2 of 3 starting distance error %20.51
- unfolding complete - removing small folds...
- starting distance error %20.45
- removing remaining folds...
- final distance error %20.47
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 469 negative triangles
- 197: dt=0.9900, 469 negative triangles
- 198: dt=0.9900, 227 negative triangles
- 199: dt=0.9900, 177 negative triangles
- 200: dt=0.9900, 149 negative triangles
- 201: dt=0.9900, 137 negative triangles
- 202: dt=0.9900, 139 negative triangles
- 203: dt=0.9900, 134 negative triangles
- 204: dt=0.9900, 130 negative triangles
- 205: dt=0.9900, 125 negative triangles
- 206: dt=0.9900, 128 negative triangles
- 207: dt=0.9900, 113 negative triangles
- 208: dt=0.9900, 110 negative triangles
- 209: dt=0.9900, 117 negative triangles
- 210: dt=0.9900, 107 negative triangles
- 211: dt=0.9900, 107 negative triangles
- 212: dt=0.9900, 102 negative triangles
- 213: dt=0.9900, 98 negative triangles
- 214: dt=0.9900, 107 negative triangles
- 215: dt=0.9900, 90 negative triangles
- 216: dt=0.9900, 107 negative triangles
- 217: dt=0.9900, 81 negative triangles
- 218: dt=0.9900, 88 negative triangles
- 219: dt=0.9900, 84 negative triangles
- 220: dt=0.9900, 80 negative triangles
- 221: dt=0.9900, 69 negative triangles
- 222: dt=0.9900, 72 negative triangles
- 223: dt=0.9900, 72 negative triangles
- 224: dt=0.9900, 77 negative triangles
- 225: dt=0.9900, 74 negative triangles
- 226: dt=0.9900, 69 negative triangles
- 227: dt=0.9900, 73 negative triangles
- 228: dt=0.9900, 64 negative triangles
- 229: dt=0.9900, 68 negative triangles
- 230: dt=0.9900, 75 negative triangles
- 231: dt=0.9900, 60 negative triangles
- 232: dt=0.9900, 61 negative triangles
- 233: dt=0.9900, 69 negative triangles
- 234: dt=0.9900, 63 negative triangles
- 235: dt=0.9900, 56 negative triangles
- 236: dt=0.9900, 62 negative triangles
- 237: dt=0.9900, 57 negative triangles
- 238: dt=0.9900, 54 negative triangles
- 239: dt=0.9900, 56 negative triangles
- 240: dt=0.9900, 48 negative triangles
- 241: dt=0.9900, 48 negative triangles
- 242: dt=0.9900, 36 negative triangles
- 243: dt=0.9900, 37 negative triangles
- 244: dt=0.9900, 33 negative triangles
- 245: dt=0.9900, 37 negative triangles
- 246: dt=0.9900, 34 negative triangles
- 247: dt=0.9900, 33 negative triangles
- 248: dt=0.9900, 36 negative triangles
- 249: dt=0.9900, 38 negative triangles
- 250: dt=0.9900, 28 negative triangles
- 251: dt=0.9900, 34 negative triangles
- 252: dt=0.9900, 29 negative triangles
- 253: dt=0.9900, 27 negative triangles
- 254: dt=0.9900, 28 negative triangles
- 255: dt=0.9900, 28 negative triangles
- 256: dt=0.9900, 25 negative triangles
- 257: dt=0.9900, 25 negative triangles
- 258: dt=0.9900, 30 negative triangles
- 259: dt=0.9900, 29 negative triangles
- 260: dt=0.9900, 31 negative triangles
- 261: dt=0.9900, 30 negative triangles
- 262: dt=0.9900, 28 negative triangles
- 263: dt=0.9900, 24 negative triangles
- 264: dt=0.9900, 31 negative triangles
- 265: dt=0.9900, 30 negative triangles
- 266: dt=0.9900, 30 negative triangles
- 267: dt=0.9900, 27 negative triangles
- 268: dt=0.9900, 27 negative triangles
- 269: dt=0.9900, 30 negative triangles
- 270: dt=0.9900, 31 negative triangles
- 271: dt=0.9900, 30 negative triangles
- 272: dt=0.9900, 28 negative triangles
- 273: dt=0.9405, 28 negative triangles
- 274: dt=0.9405, 33 negative triangles
- 275: dt=0.9405, 29 negative triangles
- 276: dt=0.9405, 24 negative triangles
- 277: dt=0.9405, 22 negative triangles
- 278: dt=0.9405, 22 negative triangles
- 279: dt=0.9405, 21 negative triangles
- 280: dt=0.9405, 23 negative triangles
- 281: dt=0.9405, 21 negative triangles
- 282: dt=0.9405, 21 negative triangles
- 283: dt=0.9405, 23 negative triangles
- 284: dt=0.9405, 20 negative triangles
- 285: dt=0.9405, 25 negative triangles
- 286: dt=0.9405, 25 negative triangles
- 287: dt=0.9405, 25 negative triangles
- 288: dt=0.9405, 20 negative triangles
- 289: dt=0.9405, 22 negative triangles
- 290: dt=0.9405, 22 negative triangles
- 291: dt=0.9405, 23 negative triangles
- 292: dt=0.9405, 21 negative triangles
- 293: dt=0.9405, 25 negative triangles
- 294: dt=0.8935, 23 negative triangles
- 295: dt=0.8935, 20 negative triangles
- 296: dt=0.8935, 25 negative triangles
- 297: dt=0.8935, 22 negative triangles
- 298: dt=0.8935, 20 negative triangles
- 299: dt=0.8935, 25 negative triangles
- 300: dt=0.8935, 22 negative triangles
- 301: dt=0.8935, 27 negative triangles
- 302: dt=0.8935, 24 negative triangles
- 303: dt=0.8935, 22 negative triangles
- 304: dt=0.8488, 20 negative triangles
- 305: dt=0.8488, 26 negative triangles
- 306: dt=0.8488, 22 negative triangles
- 307: dt=0.8488, 26 negative triangles
- 308: dt=0.8488, 21 negative triangles
- 309: dt=0.8488, 20 negative triangles
- 310: dt=0.8488, 24 negative triangles
- 311: dt=0.8488, 21 negative triangles
- 312: dt=0.8488, 23 negative triangles
- 313: dt=0.8488, 25 negative triangles
- 314: dt=0.8064, 22 negative triangles
- 315: dt=0.8064, 23 negative triangles
- 316: dt=0.8064, 22 negative triangles
- 317: dt=0.8064, 23 negative triangles
- 318: dt=0.8064, 24 negative triangles
- 319: dt=0.8064, 25 negative triangles
- 320: dt=0.8064, 24 negative triangles
- 321: dt=0.8064, 22 negative triangles
- 322: dt=0.8064, 23 negative triangles
- 323: dt=0.8064, 24 negative triangles
- 324: dt=0.7660, 26 negative triangles
- 325: dt=0.7660, 25 negative triangles
- 326: dt=0.7660, 23 negative triangles
- 327: dt=0.7660, 24 negative triangles
- 328: dt=0.7660, 26 negative triangles
- 329: dt=0.7660, 26 negative triangles
- 330: dt=0.7660, 27 negative triangles
- 331: dt=0.7660, 24 negative triangles
- 332: dt=0.7660, 24 negative triangles
- 333: dt=0.7660, 29 negative triangles
- 334: dt=0.7277, 24 negative triangles
- expanding nbhd size to 1
- 335: dt=0.9900, 27 negative triangles
- 336: dt=0.9900, 24 negative triangles
- 337: dt=0.9900, 20 negative triangles
- 338: dt=0.9900, 16 negative triangles
- 339: dt=0.9900, 17 negative triangles
- 340: dt=0.9900, 16 negative triangles
- 341: dt=0.9900, 16 negative triangles
- 342: dt=0.9900, 16 negative triangles
- 343: dt=0.9900, 16 negative triangles
- 344: dt=0.9900, 15 negative triangles
- 345: dt=0.9900, 15 negative triangles
- 346: dt=0.9900, 16 negative triangles
- 347: dt=0.9900, 16 negative triangles
- 348: dt=0.9900, 16 negative triangles
- 349: dt=0.9900, 16 negative triangles
- 350: dt=0.9900, 16 negative triangles
- 351: dt=0.9900, 16 negative triangles
- 352: dt=0.9900, 16 negative triangles
- 353: dt=0.9900, 16 negative triangles
- 354: dt=0.9405, 15 negative triangles
- 355: dt=0.9405, 15 negative triangles
- 356: dt=0.9405, 15 negative triangles
- 357: dt=0.9405, 15 negative triangles
- 358: dt=0.9405, 13 negative triangles
- 359: dt=0.9405, 12 negative triangles
- 360: dt=0.9405, 10 negative triangles
- 361: dt=0.9405, 9 negative triangles
- 362: dt=0.9405, 9 negative triangles
- 363: dt=0.9405, 9 negative triangles
- 364: dt=0.9405, 10 negative triangles
- 365: dt=0.9405, 10 negative triangles
- 366: dt=0.9405, 10 negative triangles
- 367: dt=0.9405, 9 negative triangles
- 368: dt=0.9405, 9 negative triangles
- 369: dt=0.9405, 9 negative triangles
- 370: dt=0.9405, 8 negative triangles
- 371: dt=0.9405, 8 negative triangles
- 372: dt=0.9405, 8 negative triangles
- 373: dt=0.9405, 8 negative triangles
- 374: dt=0.9405, 8 negative triangles
- 375: dt=0.9405, 8 negative triangles
- 376: dt=0.9405, 8 negative triangles
- 377: dt=0.9405, 9 negative triangles
- 378: dt=0.9405, 9 negative triangles
- 379: dt=0.9405, 8 negative triangles
- 380: dt=0.9405, 5 negative triangles
- 381: dt=0.9405, 4 negative triangles
- 382: dt=0.9405, 4 negative triangles
- 383: dt=0.9405, 5 negative triangles
- 384: dt=0.9405, 3 negative triangles
- 385: dt=0.9405, 3 negative triangles
- 386: dt=0.9405, 3 negative triangles
- 387: dt=0.9405, 2 negative triangles
- 388: dt=0.9405, 2 negative triangles
- 389: dt=0.9405, 2 negative triangles
- 390: dt=0.9405, 2 negative triangles
- 391: dt=0.9405, 1 negative triangles
- 392: dt=0.9405, 2 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 1.41 hours
- mris_sphere utimesec 5289.381891
- mris_sphere stimesec 1.696742
- mris_sphere ru_maxrss 336448
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 58750
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 11680
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 129574
- mris_sphere ru_nivcsw 396115
- FSRUNTIME@ mris_sphere 1.4093 hours 1 threads
- PIDs (1800 1804) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Sat Oct 7 23:43:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 23:43:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 4753 of (4753 4756) to complete...
- Waiting for PID 4756 of (4753 4756) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 = 5.579
- curvature mean = 0.012, std = 0.814
- curvature mean = 0.024, std = 0.842
- Starting MRISrigidBodyAlignGlobal()
- d=32.00 min @ (0.00, -8.00, 8.00) sse = 299177.9, tmin=2.8422
- d=16.00 min @ (4.00, 0.00, -4.00) sse = 298139.5, tmin=4.3085
- d=8.00 min @ (-2.00, 0.00, 2.00) sse = 279768.4, tmin=5.8277
- d=4.00 min @ (0.00, 1.00, 0.00) sse = 277934.0, tmin=7.3534
- d=1.00 min @ (0.00, 0.00, -0.25) sse = 277762.8, tmin=10.3923
- tol=1.0e+00, sigma=0.5, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
- using quadratic fit line minimization
- MRISrigidBodyAlignGlobal() done 11.90 min
- curvature mean = -0.025, std = 0.819
- curvature mean = 0.011, std = 0.929
- curvature mean = -0.032, std = 0.826
- curvature mean = 0.004, std = 0.966
- curvature mean = -0.034, std = 0.828
- curvature mean = 0.001, std = 0.982
- 2 Reading smoothwm
- curvature mean = -0.030, std = 0.322
- curvature mean = 0.030, std = 0.242
- curvature mean = 0.076, std = 0.293
- curvature mean = 0.029, std = 0.300
- curvature mean = 0.044, std = 0.470
- curvature mean = 0.028, std = 0.325
- curvature mean = 0.026, std = 0.610
- curvature mean = 0.028, std = 0.336
- curvature mean = 0.010, std = 0.725
- MRISregister() return, current seed 0
- -01: dt=0.0000, 127 negative triangles
- 125: dt=0.9900, 127 negative triangles
- expanding nbhd size to 1
- 126: dt=0.9900, 175 negative triangles
- 127: dt=0.9900, 120 negative triangles
- 128: dt=0.9900, 116 negative triangles
- 129: dt=0.9900, 121 negative triangles
- 130: dt=0.9900, 118 negative triangles
- 131: dt=0.9900, 113 negative triangles
- 132: dt=0.9900, 89 negative triangles
- 133: dt=0.9900, 97 negative triangles
- 134: dt=0.9900, 79 negative triangles
- 135: dt=0.9900, 83 negative triangles
- 136: dt=0.9900, 75 negative triangles
- 137: dt=0.9900, 79 negative triangles
- 138: dt=0.9900, 65 negative triangles
- 139: dt=0.9900, 66 negative triangles
- 140: dt=0.9900, 59 negative triangles
- 141: dt=0.9900, 57 negative triangles
- 142: dt=0.9900, 51 negative triangles
- 143: dt=0.9900, 41 negative triangles
- 144: dt=0.9900, 42 negative triangles
- 145: dt=0.9900, 37 negative triangles
- 146: dt=0.9900, 37 negative triangles
- 147: dt=0.9900, 39 negative triangles
- 148: dt=0.9900, 35 negative triangles
- 149: dt=0.9900, 28 negative triangles
- 150: dt=0.9900, 29 negative triangles
- 151: dt=0.9900, 25 negative triangles
- 152: dt=0.9900, 27 negative triangles
- 153: dt=0.9900, 19 negative triangles
- 154: dt=0.9900, 17 negative triangles
- 155: dt=0.9900, 18 negative triangles
- 156: dt=0.9900, 20 negative triangles
- 157: dt=0.9900, 16 negative triangles
- 158: dt=0.9900, 15 negative triangles
- 159: dt=0.9900, 14 negative triangles
- 160: dt=0.9900, 14 negative triangles
- 161: dt=0.9900, 16 negative triangles
- 162: dt=0.9900, 15 negative triangles
- 163: dt=0.9900, 15 negative triangles
- 164: dt=0.9900, 16 negative triangles
- 165: dt=0.9900, 18 negative triangles
- 166: dt=0.9900, 17 negative triangles
- 167: dt=0.9900, 14 negative triangles
- 168: dt=0.9900, 13 negative triangles
- 169: dt=0.9900, 12 negative triangles
- 170: dt=0.9900, 11 negative triangles
- 171: dt=0.9900, 11 negative triangles
- 172: dt=0.9900, 10 negative triangles
- 173: dt=0.9900, 10 negative triangles
- 174: dt=0.9900, 12 negative triangles
- 175: dt=0.9900, 10 negative triangles
- 176: dt=0.9900, 10 negative triangles
- 177: dt=0.9900, 9 negative triangles
- 178: dt=0.9900, 7 negative triangles
- 179: dt=0.9900, 7 negative triangles
- 180: dt=0.9900, 8 negative triangles
- 181: dt=0.9900, 9 negative triangles
- 182: dt=0.9900, 8 negative triangles
- 183: dt=0.9900, 7 negative triangles
- 184: dt=0.9900, 7 negative triangles
- 185: dt=0.9900, 7 negative triangles
- 186: dt=0.9900, 6 negative triangles
- 187: dt=0.9900, 5 negative triangles
- 188: dt=0.9900, 5 negative triangles
- 189: dt=0.9900, 5 negative triangles
- 190: dt=0.9900, 5 negative triangles
- 191: dt=0.9900, 5 negative triangles
- 192: dt=0.9900, 5 negative triangles
- 193: dt=0.9900, 6 negative triangles
- 194: dt=0.9900, 3 negative triangles
- 195: dt=0.9900, 2 negative triangles
- 196: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 1.75 hours
- mris_register utimesec 6286.900245
- mris_register stimesec 4.434325
- mris_register ru_maxrss 295372
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 42092
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 11688
- mris_register ru_oublock 11776
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 268007
- mris_register ru_nivcsw 382923
- FSRUNTIME@ mris_register 1.7520 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 = 5.579
- curvature mean = 0.026, std = 0.809
- curvature mean = 0.020, std = 0.846
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (0.00, -16.00, 16.00) sse = 446619.8, tmin=1.3946
- d=32.00 min @ (0.00, 8.00, -8.00) sse = 280755.4, tmin=2.8167
- d=8.00 min @ (2.00, 0.00, 2.00) sse = 263704.7, tmin=5.7141
- d=1.00 min @ (-0.25, 0.00, 0.00) sse = 263561.7, tmin=10.0510
- d=0.50 min @ (0.00, -0.12, -0.12) sse = 263513.1, tmin=11.5022
- tol=1.0e+00, sigma=0.5, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
- using quadratic fit line minimization
- MRISrigidBodyAlignGlobal() done 11.50 min
- curvature mean = -0.011, std = 0.817
- curvature mean = 0.009, std = 0.939
- curvature mean = -0.017, std = 0.824
- curvature mean = 0.003, std = 0.975
- curvature mean = -0.020, std = 0.825
- curvature mean = 0.001, std = 0.990
- 2 Reading smoothwm
- curvature mean = -0.033, std = 0.367
- curvature mean = 0.030, std = 0.238
- curvature mean = 0.070, std = 0.267
- curvature mean = 0.027, std = 0.294
- curvature mean = 0.045, std = 0.420
- curvature mean = 0.027, std = 0.318
- curvature mean = 0.027, std = 0.547
- curvature mean = 0.027, std = 0.329
- curvature mean = 0.011, std = 0.657
- MRISregister() return, current seed 0
- -01: dt=0.0000, 194 negative triangles
- 124: dt=0.9900, 194 negative triangles
- expanding nbhd size to 1
- 125: dt=0.9900, 237 negative triangles
- 126: dt=0.9900, 190 negative triangles
- 127: dt=0.9900, 189 negative triangles
- 128: dt=0.9900, 199 negative triangles
- 129: dt=0.9900, 180 negative triangles
- 130: dt=0.9900, 179 negative triangles
- 131: dt=0.9900, 163 negative triangles
- 132: dt=0.9900, 157 negative triangles
- 133: dt=0.9900, 148 negative triangles
- 134: dt=0.9900, 142 negative triangles
- 135: dt=0.9900, 133 negative triangles
- 136: dt=0.9900, 139 negative triangles
- 137: dt=0.9900, 116 negative triangles
- 138: dt=0.9900, 116 negative triangles
- 139: dt=0.9900, 107 negative triangles
- 140: dt=0.9900, 103 negative triangles
- 141: dt=0.9900, 94 negative triangles
- 142: dt=0.9900, 93 negative triangles
- 143: dt=0.9900, 88 negative triangles
- 144: dt=0.9900, 90 negative triangles
- 145: dt=0.9900, 79 negative triangles
- 146: dt=0.9900, 82 negative triangles
- 147: dt=0.9900, 76 negative triangles
- 148: dt=0.9900, 69 negative triangles
- 149: dt=0.9900, 64 negative triangles
- 150: dt=0.9900, 67 negative triangles
- 151: dt=0.9900, 62 negative triangles
- 152: dt=0.9900, 58 negative triangles
- 153: dt=0.9900, 55 negative triangles
- 154: dt=0.9900, 49 negative triangles
- 155: dt=0.9900, 49 negative triangles
- 156: dt=0.9900, 45 negative triangles
- 157: dt=0.9900, 44 negative triangles
- 158: dt=0.9900, 38 negative triangles
- 159: dt=0.9900, 37 negative triangles
- 160: dt=0.9900, 33 negative triangles
- 161: dt=0.9900, 32 negative triangles
- 162: dt=0.9900, 31 negative triangles
- 163: dt=0.9900, 27 negative triangles
- 164: dt=0.9900, 26 negative triangles
- 165: dt=0.9900, 25 negative triangles
- 166: dt=0.9900, 22 negative triangles
- 167: dt=0.9900, 20 negative triangles
- 168: dt=0.9900, 19 negative triangles
- 169: dt=0.9900, 20 negative triangles
- 170: dt=0.9900, 20 negative triangles
- 171: dt=0.9900, 18 negative triangles
- 172: dt=0.9900, 18 negative triangles
- 173: dt=0.9900, 17 negative triangles
- 174: dt=0.9900, 16 negative triangles
- 175: dt=0.9900, 15 negative triangles
- 176: dt=0.9900, 16 negative triangles
- 177: dt=0.9900, 16 negative triangles
- 178: dt=0.9900, 16 negative triangles
- 179: dt=0.9900, 14 negative triangles
- 180: dt=0.9900, 13 negative triangles
- 181: dt=0.9900, 12 negative triangles
- 182: dt=0.9900, 12 negative triangles
- 183: dt=0.9900, 12 negative triangles
- 184: dt=0.9900, 15 negative triangles
- 185: dt=0.9900, 15 negative triangles
- 186: dt=0.9900, 11 negative triangles
- 187: dt=0.9900, 11 negative triangles
- 188: dt=0.9900, 11 negative triangles
- 189: dt=0.9900, 11 negative triangles
- 190: dt=0.9900, 11 negative triangles
- 191: dt=0.9900, 14 negative triangles
- 192: dt=0.9900, 14 negative triangles
- 193: dt=0.9900, 10 negative triangles
- 194: dt=0.9900, 10 negative triangles
- 195: dt=0.9900, 10 negative triangles
- 196: dt=0.9900, 10 negative triangles
- 197: dt=0.9900, 10 negative triangles
- 198: dt=0.9900, 12 negative triangles
- 199: dt=0.9900, 14 negative triangles
- 200: dt=0.9900, 10 negative triangles
- 201: dt=0.9900, 10 negative triangles
- 202: dt=0.9900, 10 negative triangles
- 203: dt=0.9405, 10 negative triangles
- 204: dt=0.9405, 10 negative triangles
- 205: dt=0.9405, 12 negative triangles
- 206: dt=0.9405, 10 negative triangles
- 207: dt=0.9405, 9 negative triangles
- 208: dt=0.9405, 8 negative triangles
- 209: dt=0.9405, 7 negative triangles
- 210: dt=0.9405, 7 negative triangles
- 211: dt=0.9405, 9 negative triangles
- 212: dt=0.9405, 7 negative triangles
- 213: dt=0.9405, 7 negative triangles
- 214: dt=0.9405, 6 negative triangles
- 215: dt=0.9405, 6 negative triangles
- 216: dt=0.9405, 8 negative triangles
- 217: dt=0.9405, 6 negative triangles
- 218: dt=0.9405, 7 negative triangles
- 219: dt=0.9405, 4 negative triangles
- 220: dt=0.9405, 5 negative triangles
- 221: dt=0.9405, 3 negative triangles
- 222: dt=0.9405, 4 negative triangles
- 223: dt=0.9405, 3 negative triangles
- 224: dt=0.9405, 4 negative triangles
- 225: dt=0.9405, 3 negative triangles
- 226: dt=0.9405, 3 negative triangles
- 227: dt=0.9405, 4 negative triangles
- 228: dt=0.9405, 2 negative triangles
- 229: dt=0.9405, 2 negative triangles
- 230: dt=0.9405, 2 negative triangles
- 231: dt=0.9405, 2 negative triangles
- 232: dt=0.9405, 2 negative triangles
- 233: dt=0.9405, 2 negative triangles
- 234: dt=0.9405, 2 negative triangles
- 235: dt=0.9405, 2 negative triangles
- 236: dt=0.9405, 2 negative triangles
- 237: dt=0.9405, 2 negative triangles
- 238: dt=0.8935, 2 negative triangles
- 239: dt=0.8935, 2 negative triangles
- 240: dt=0.8935, 2 negative triangles
- 241: dt=0.8935, 2 negative triangles
- 242: dt=0.8935, 2 negative triangles
- 243: dt=0.8935, 2 negative triangles
- 244: dt=0.8935, 2 negative triangles
- 245: dt=0.8935, 2 negative triangles
- 246: dt=0.8935, 2 negative triangles
- 247: dt=0.8935, 2 negative triangles
- 248: dt=0.8488, 2 negative triangles
- 249: dt=0.8488, 2 negative triangles
- 250: dt=0.8488, 2 negative triangles
- 251: dt=0.8488, 2 negative triangles
- 252: dt=0.8488, 2 negative triangles
- 253: dt=0.8488, 2 negative triangles
- 254: dt=0.8488, 2 negative triangles
- 255: dt=0.8488, 2 negative triangles
- 256: dt=0.8488, 2 negative triangles
- 257: dt=0.8488, 2 negative triangles
- 258: dt=0.8064, 2 negative triangles
- 259: dt=0.8064, 2 negative triangles
- 260: dt=0.8064, 2 negative triangles
- 261: dt=0.8064, 2 negative triangles
- 262: dt=0.8064, 2 negative triangles
- 263: dt=0.8064, 2 negative triangles
- 264: dt=0.8064, 2 negative triangles
- 265: dt=0.8064, 2 negative triangles
- 266: dt=0.8064, 2 negative triangles
- 267: dt=0.8064, 2 negative triangles
- 268: dt=0.7660, 2 negative triangles
- 269: dt=0.7660, 2 negative triangles
- 270: dt=0.7660, 2 negative triangles
- 271: dt=0.7660, 2 negative triangles
- 272: dt=0.7660, 2 negative triangles
- 273: dt=0.7660, 2 negative triangles
- 274: dt=0.7660, 2 negative triangles
- 275: dt=0.7660, 2 negative triangles
- 276: dt=0.7660, 2 negative triangles
- 277: dt=0.7660, 2 negative triangles
- 278: dt=0.7277, 2 negative triangles
- 279: dt=0.7277, 2 negative triangles
- 280: dt=0.7277, 2 negative triangles
- 281: dt=0.7277, 2 negative triangles
- 282: dt=0.7277, 2 negative triangles
- 283: dt=0.7277, 2 negative triangles
- 284: dt=0.7277, 2 negative triangles
- 285: dt=0.7277, 2 negative triangles
- 286: dt=0.7277, 2 negative triangles
- 287: dt=0.7277, 2 negative triangles
- 288: dt=0.6914, 2 negative triangles
- 289: dt=0.6914, 2 negative triangles
- 290: dt=0.6914, 2 negative triangles
- 291: dt=0.6914, 2 negative triangles
- 292: dt=0.6914, 2 negative triangles
- 293: dt=0.6914, 2 negative triangles
- 294: dt=0.6914, 2 negative triangles
- 295: dt=0.6914, 2 negative triangles
- 296: dt=0.6914, 2 negative triangles
- 297: dt=0.6914, 2 negative triangles
- 298: dt=0.6568, 2 negative triangles
- 299: dt=0.6568, 2 negative triangles
- 300: dt=0.6568, 2 negative triangles
- 301: dt=0.6568, 2 negative triangles
- 302: dt=0.6568, 2 negative triangles
- 303: dt=0.6568, 2 negative triangles
- 304: dt=0.6568, 2 negative triangles
- 305: dt=0.6568, 2 negative triangles
- 306: dt=0.6568, 2 negative triangles
- 307: dt=0.6568, 2 negative triangles
- 308: dt=0.6239, 2 negative triangles
- 309: dt=0.6239, 2 negative triangles
- 310: dt=0.6239, 2 negative triangles
- 311: dt=0.6239, 2 negative triangles
- 312: dt=0.6239, 2 negative triangles
- 313: dt=0.6239, 2 negative triangles
- 314: dt=0.6239, 2 negative triangles
- 315: dt=0.6239, 2 negative triangles
- 316: dt=0.6239, 2 negative triangles
- 317: dt=0.6239, 2 negative triangles
- 318: dt=0.5927, 2 negative triangles
- 319: dt=0.5927, 2 negative triangles
- 320: dt=0.5927, 2 negative triangles
- 321: dt=0.5927, 2 negative triangles
- 322: dt=0.5927, 2 negative triangles
- 323: dt=0.5927, 2 negative triangles
- 324: dt=0.5927, 2 negative triangles
- 325: dt=0.5927, 2 negative triangles
- 326: dt=0.5927, 2 negative triangles
- 327: dt=0.5927, 2 negative triangles
- 328: dt=0.5631, 2 negative triangles
- 329: dt=0.5631, 2 negative triangles
- 330: dt=0.5631, 2 negative triangles
- 331: dt=0.5631, 2 negative triangles
- 332: dt=0.5631, 2 negative triangles
- 333: dt=0.5631, 2 negative triangles
- 334: dt=0.5631, 2 negative triangles
- 335: dt=0.5631, 2 negative triangles
- 336: dt=0.5631, 2 negative triangles
- 337: dt=0.5631, 2 negative triangles
- 338: dt=0.5350, 2 negative triangles
- 339: dt=0.5350, 2 negative triangles
- 340: dt=0.5350, 2 negative triangles
- 341: dt=0.5350, 2 negative triangles
- 342: dt=0.5350, 2 negative triangles
- 343: dt=0.5350, 2 negative triangles
- 344: dt=0.5350, 2 negative triangles
- 345: dt=0.5350, 2 negative triangles
- 346: dt=0.5350, 2 negative triangles
- 347: dt=0.5350, 2 negative triangles
- 348: dt=0.5082, 2 negative triangles
- 349: dt=0.5082, 2 negative triangles
- 350: dt=0.5082, 2 negative triangles
- 351: dt=0.5082, 2 negative triangles
- 352: dt=0.5082, 2 negative triangles
- 353: dt=0.5082, 2 negative triangles
- 354: dt=0.5082, 2 negative triangles
- 355: dt=0.5082, 2 negative triangles
- 356: dt=0.5082, 2 negative triangles
- 357: dt=0.5082, 2 negative triangles
- 358: dt=0.4828, 2 negative triangles
- 359: dt=0.4828, 2 negative triangles
- 360: dt=0.4828, 2 negative triangles
- 361: dt=0.4828, 2 negative triangles
- 362: dt=0.4828, 2 negative triangles
- 363: dt=0.4828, 2 negative triangles
- 364: dt=0.4828, 2 negative triangles
- 365: dt=0.4828, 2 negative triangles
- 366: dt=0.4828, 2 negative triangles
- 367: dt=0.4828, 2 negative triangles
- 368: dt=0.4587, 2 negative triangles
- 369: dt=0.4587, 2 negative triangles
- 370: dt=0.4587, 2 negative triangles
- 371: dt=0.4587, 2 negative triangles
- 372: dt=0.4587, 2 negative triangles
- 373: dt=0.4587, 2 negative triangles
- 374: dt=0.4587, 2 negative triangles
- 375: dt=0.4587, 2 negative triangles
- 376: dt=0.4587, 2 negative triangles
- 377: dt=0.4587, 2 negative triangles
- 378: dt=0.4357, 2 negative triangles
- 379: dt=0.4357, 2 negative triangles
- 380: dt=0.4357, 2 negative triangles
- 381: dt=0.4357, 2 negative triangles
- 382: dt=0.4357, 2 negative triangles
- 383: dt=0.4357, 2 negative triangles
- 384: dt=0.4357, 2 negative triangles
- 385: dt=0.4357, 2 negative triangles
- 386: dt=0.4357, 2 negative triangles
- 387: dt=0.4357, 2 negative triangles
- 388: dt=0.4139, 2 negative triangles
- 389: dt=0.4139, 2 negative triangles
- 390: dt=0.4139, 2 negative triangles
- 391: dt=0.4139, 2 negative triangles
- 392: dt=0.4139, 2 negative triangles
- 393: dt=0.4139, 2 negative triangles
- 394: dt=0.4139, 2 negative triangles
- 395: dt=0.4139, 2 negative triangles
- 396: dt=0.4139, 2 negative triangles
- 397: dt=0.4139, 2 negative triangles
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- 922: dt=0.0273, 2 negative triangles
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- 924: dt=0.0273, 2 negative triangles
- 925: dt=0.0273, 2 negative triangles
- 926: dt=0.0273, 2 negative triangles
- 927: dt=0.0273, 2 negative triangles
- 928: dt=0.0259, 2 negative triangles
- 929: dt=0.0259, 2 negative triangles
- 930: dt=0.0259, 2 negative triangles
- 931: dt=0.0259, 2 negative triangles
- 932: dt=0.0259, 2 negative triangles
- 933: dt=0.0259, 2 negative triangles
- 934: dt=0.0259, 2 negative triangles
- 935: dt=0.0259, 2 negative triangles
- 936: dt=0.0259, 2 negative triangles
- 937: dt=0.0259, 2 negative triangles
- 938: dt=0.0246, 2 negative triangles
- 939: dt=0.0246, 2 negative triangles
- 940: dt=0.0246, 2 negative triangles
- 941: dt=0.0246, 2 negative triangles
- 942: dt=0.0246, 2 negative triangles
- 943: dt=0.0246, 2 negative triangles
- 944: dt=0.0246, 2 negative triangles
- 945: dt=0.0246, 2 negative triangles
- 946: dt=0.0246, 2 negative triangles
- 947: dt=0.0246, 2 negative triangles
- 948: dt=0.0234, 2 negative triangles
- 949: dt=0.0234, 2 negative triangles
- 950: dt=0.0234, 2 negative triangles
- 951: dt=0.0234, 2 negative triangles
- 952: dt=0.0234, 2 negative triangles
- 953: dt=0.0234, 2 negative triangles
- 954: dt=0.0234, 2 negative triangles
- 955: dt=0.0234, 2 negative triangles
- 956: dt=0.0234, 2 negative triangles
- 957: dt=0.0234, 2 negative triangles
- 958: dt=0.0222, 2 negative triangles
- 959: dt=0.0222, 2 negative triangles
- 960: dt=0.0222, 2 negative triangles
- 961: dt=0.0222, 2 negative triangles
- 962: dt=0.0222, 2 negative triangles
- 963: dt=0.0222, 2 negative triangles
- 964: dt=0.0222, 2 negative triangles
- 965: dt=0.0222, 2 negative triangles
- 966: dt=0.0222, 2 negative triangles
- 967: dt=0.0222, 2 negative triangles
- 968: dt=0.0211, 2 negative triangles
- 969: dt=0.0211, 2 negative triangles
- 970: dt=0.0211, 2 negative triangles
- 971: dt=0.0211, 2 negative triangles
- 972: dt=0.0211, 2 negative triangles
- 973: dt=0.0211, 2 negative triangles
- 974: dt=0.0211, 2 negative triangles
- 975: dt=0.0211, 2 negative triangles
- 976: dt=0.0211, 2 negative triangles
- 977: dt=0.0211, 2 negative triangles
- 978: dt=0.0201, 2 negative triangles
- 979: dt=0.0201, 2 negative triangles
- 980: dt=0.0201, 2 negative triangles
- 981: dt=0.0201, 2 negative triangles
- 982: dt=0.0201, 2 negative triangles
- 983: dt=0.0201, 2 negative triangles
- 984: dt=0.0201, 2 negative triangles
- 985: dt=0.0201, 2 negative triangles
- 986: dt=0.0201, 2 negative triangles
- 987: dt=0.0201, 2 negative triangles
- 988: dt=0.0191, 2 negative triangles
- 989: dt=0.0191, 2 negative triangles
- 990: dt=0.0191, 2 negative triangles
- 991: dt=0.0191, 2 negative triangles
- 992: dt=0.0191, 2 negative triangles
- 993: dt=0.0191, 2 negative triangles
- 994: dt=0.0191, 2 negative triangles
- 995: dt=0.0191, 2 negative triangles
- 996: dt=0.0191, 2 negative triangles
- 997: dt=0.0191, 2 negative triangles
- 998: dt=0.0181, 2 negative triangles
- 999: dt=0.0181, 2 negative triangles
- 1000: dt=0.0181, 2 negative triangles
- 1001: dt=0.0181, 2 negative triangles
- 1002: dt=0.0181, 2 negative triangles
- 1003: dt=0.0181, 2 negative triangles
- 1004: dt=0.0181, 2 negative triangles
- 1005: dt=0.0181, 2 negative triangles
- 1006: dt=0.0181, 2 negative triangles
- 1007: dt=0.0181, 2 negative triangles
- 1008: dt=0.0172, 2 negative triangles
- 1009: dt=0.0172, 2 negative triangles
- 1010: dt=0.0172, 2 negative triangles
- 1011: dt=0.0172, 2 negative triangles
- 1012: dt=0.0172, 2 negative triangles
- 1013: dt=0.0172, 2 negative triangles
- 1014: dt=0.0172, 2 negative triangles
- 1015: dt=0.0172, 2 negative triangles
- 1016: dt=0.0172, 2 negative triangles
- 1017: dt=0.0172, 2 negative triangles
- 1018: dt=0.0164, 2 negative triangles
- 1019: dt=0.0164, 2 negative triangles
- 1020: dt=0.0164, 2 negative triangles
- 1021: dt=0.0164, 2 negative triangles
- 1022: dt=0.0164, 2 negative triangles
- 1023: dt=0.0164, 2 negative triangles
- 1024: dt=0.0164, 2 negative triangles
- 1025: dt=0.0164, 2 negative triangles
- 1026: dt=0.0164, 2 negative triangles
- 1027: dt=0.0164, 2 negative triangles
- 1028: dt=0.0155, 2 negative triangles
- 1029: dt=0.0155, 2 negative triangles
- 1030: dt=0.0155, 2 negative triangles
- 1031: dt=0.0155, 2 negative triangles
- 1032: dt=0.0155, 2 negative triangles
- 1033: dt=0.0155, 2 negative triangles
- 1034: dt=0.0155, 2 negative triangles
- 1035: dt=0.0155, 2 negative triangles
- 1036: dt=0.0155, 2 negative triangles
- 1037: dt=0.0155, 2 negative triangles
- 1038: dt=0.0148, 2 negative triangles
- 1039: dt=0.0148, 2 negative triangles
- 1040: dt=0.0148, 2 negative triangles
- 1041: dt=0.0148, 2 negative triangles
- 1042: dt=0.0148, 2 negative triangles
- 1043: dt=0.0148, 2 negative triangles
- 1044: dt=0.0148, 2 negative triangles
- 1045: dt=0.0148, 2 negative triangles
- 1046: dt=0.0148, 2 negative triangles
- 1047: dt=0.0148, 2 negative triangles
- 1048: dt=0.0140, 2 negative triangles
- 1049: dt=0.0140, 2 negative triangles
- 1050: dt=0.0140, 2 negative triangles
- 1051: dt=0.0140, 2 negative triangles
- 1052: dt=0.0140, 2 negative triangles
- 1053: dt=0.0140, 2 negative triangles
- 1054: dt=0.0140, 2 negative triangles
- 1055: dt=0.0140, 2 negative triangles
- 1056: dt=0.0140, 2 negative triangles
- 1057: dt=0.0140, 2 negative triangles
- 1058: dt=0.0133, 2 negative triangles
- 1059: dt=0.0133, 2 negative triangles
- 1060: dt=0.0133, 2 negative triangles
- 1061: dt=0.0133, 2 negative triangles
- 1062: dt=0.0133, 2 negative triangles
- 1063: dt=0.0133, 2 negative triangles
- 1064: dt=0.0133, 2 negative triangles
- 1065: dt=0.0133, 2 negative triangles
- 1066: dt=0.0133, 2 negative triangles
- 1067: dt=0.0133, 2 negative triangles
- 1068: dt=0.0127, 2 negative triangles
- 1069: dt=0.0127, 2 negative triangles
- 1070: dt=0.0127, 2 negative triangles
- 1071: dt=0.0127, 2 negative triangles
- 1072: dt=0.0127, 2 negative triangles
- 1073: dt=0.0127, 2 negative triangles
- 1074: dt=0.0127, 2 negative triangles
- 1075: dt=0.0127, 2 negative triangles
- 1076: dt=0.0127, 2 negative triangles
- 1077: dt=0.0127, 2 negative triangles
- 1078: dt=0.0120, 2 negative triangles
- 1079: dt=0.0120, 2 negative triangles
- 1080: dt=0.0120, 2 negative triangles
- 1081: dt=0.0120, 2 negative triangles
- 1082: dt=0.0120, 2 negative triangles
- 1083: dt=0.0120, 2 negative triangles
- 1084: dt=0.0120, 2 negative triangles
- 1085: dt=0.0120, 2 negative triangles
- 1086: dt=0.0120, 2 negative triangles
- 1087: dt=0.0120, 2 negative triangles
- 1088: dt=0.0114, 2 negative triangles
- 1089: dt=0.0114, 2 negative triangles
- 1090: dt=0.0114, 2 negative triangles
- 1091: dt=0.0114, 2 negative triangles
- 1092: dt=0.0114, 2 negative triangles
- 1093: dt=0.0114, 2 negative triangles
- 1094: dt=0.0114, 2 negative triangles
- 1095: dt=0.0114, 2 negative triangles
- 1096: dt=0.0114, 2 negative triangles
- 1097: dt=0.0114, 2 negative triangles
- 1098: dt=0.0108, 2 negative triangles
- 1099: dt=0.0108, 2 negative triangles
- 1100: dt=0.0108, 2 negative triangles
- 1101: dt=0.0108, 2 negative triangles
- 1102: dt=0.0108, 2 negative triangles
- 1103: dt=0.0108, 2 negative triangles
- 1104: dt=0.0108, 2 negative triangles
- 1105: dt=0.0108, 2 negative triangles
- 1106: dt=0.0108, 2 negative triangles
- 1107: dt=0.0108, 2 negative triangles
- 1108: dt=0.0103, 2 negative triangles
- 1109: dt=0.0103, 2 negative triangles
- 1110: dt=0.0103, 2 negative triangles
- 1111: dt=0.0103, 2 negative triangles
- 1112: dt=0.0103, 2 negative triangles
- 1113: dt=0.0103, 2 negative triangles
- 1114: dt=0.0103, 2 negative triangles
- 1115: dt=0.0103, 2 negative triangles
- 1116: dt=0.0103, 2 negative triangles
- 1117: dt=0.0103, 2 negative triangles
- 1118: dt=0.0098, 2 negative triangles
- 1119: dt=0.0098, 2 negative triangles
- 1120: dt=0.0098, 2 negative triangles
- 1121: dt=0.0098, 2 negative triangles
- 1122: dt=0.0098, 2 negative triangles
- 1123: dt=0.0098, 2 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- 1124: dt=0.0098, 2 negative triangles
- 1125: 2 negative triangles
- registration took 2.03 hours
- mris_register utimesec 7965.585047
- mris_register stimesec 4.596301
- mris_register ru_maxrss 294280
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 41745
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 0
- mris_register ru_oublock 11856
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 390329
- mris_register ru_nivcsw 299637
- FSRUNTIME@ mris_register 2.0298 hours 1 threads
- PIDs (4753 4756) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Sun Oct 8 01:45:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Sun Oct 8 01:45:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 11481 of (11481 11484) to complete...
- Waiting for PID 11484 of (11481 11484) 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 (11481 11484) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Sun Oct 8 01:45:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 01:45:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 11530 of (11530 11533) to complete...
- Waiting for PID 11533 of (11530 11533) 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 (11530 11533) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Sun Oct 8 01:45:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051473 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 01:45:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051473 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 11575 of (11575 11578) to complete...
- Waiting for PID 11578 of (11575 11578) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051473 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...
- 1606 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3812 changed, 166125 examined...
- 001: 936 changed, 15949 examined...
- 002: 255 changed, 5123 examined...
- 003: 82 changed, 1509 examined...
- 004: 30 changed, 490 examined...
- 005: 16 changed, 186 examined...
- 006: 9 changed, 82 examined...
- 007: 7 changed, 47 examined...
- 008: 2 changed, 37 examined...
- 009: 0 changed, 18 examined...
- 257 labels changed using aseg
- 000: 143 total segments, 101 labels (605 vertices) changed
- 001: 44 total segments, 3 labels (14 vertices) changed
- 002: 41 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 5 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 2050 vertices marked for relabeling...
- 2050 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 23 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051473 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...
- 1936 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3368 changed, 163844 examined...
- 001: 768 changed, 14207 examined...
- 002: 182 changed, 4275 examined...
- 003: 47 changed, 1064 examined...
- 004: 24 changed, 303 examined...
- 005: 3 changed, 135 examined...
- 006: 0 changed, 18 examined...
- 158 labels changed using aseg
- 000: 127 total segments, 90 labels (487 vertices) changed
- 001: 41 total segments, 4 labels (5 vertices) changed
- 002: 37 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 3 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1876 vertices marked for relabeling...
- 1876 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 21 seconds.
- PIDs (11575 11578) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Sun Oct 8 01:45:42 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051473 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Sun Oct 8 01:45:42 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051473 rh
- Waiting for PID 11631 of (11631 11634) to complete...
- Waiting for PID 11634 of (11631 11634) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051473 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-6.0.0/0051473/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- 33643 bright wm thresholded.
- 4088 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.orig...
- computing class statistics...
- border white: 336363 voxels (2.00%)
- border gray 353810 voxels (2.11%)
- WM (105.0): 104.0 +- 5.7 [70.0 --> 110.0]
- GM (87.0) : 86.1 +- 10.2 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 75.8 (was 70)
- setting MAX_BORDER_WHITE to 112.7 (was 105)
- setting MIN_BORDER_WHITE to 86.0 (was 85)
- setting MAX_CSF to 65.6 (was 40)
- setting MAX_GRAY to 101.3 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 75.8 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 55.4 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=107+-3.5, GM=86+-6.1
- mean inside = 101.2, mean outside = 89.5
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.88 +- 0.27 (0.05-->7.06) (max @ vno 60598 --> 63205)
- face area 0.32 +- 0.16 (0.00-->5.85)
- mean absolute distance = 0.74 +- 0.94
- 4030 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 36 points - only 0.00% unknown
- deleting segment 1 with 25 points - only 0.00% unknown
- deleting segment 2 with 17 points - only 0.00% unknown
- deleting segment 3 with 176 points - only 0.00% unknown
- deleting segment 6 with 95 points - only 0.00% unknown
- deleting segment 8 with 179 points - only 0.00% unknown
- deleting segment 9 with 10 points - only 0.00% unknown
- deleting segment 10 with 58 points - only 0.00% unknown
- deleting segment 11 with 84 points - only 0.00% unknown
- deleting segment 12 with 175 points - only 0.00% unknown
- deleting segment 13 with 144 points - only 0.00% unknown
- deleting segment 14 with 26 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 15 with 3 points - only 0.00% unknown
- deleting segment 16 with 53 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 17 with 3 points - only 0.00% unknown
- deleting segment 18 with 9 points - only 0.00% unknown
- deleting segment 19 with 14 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 20 with 4 points - only 0.00% unknown
- deleting segment 21 with 110 points - only 0.00% unknown
- mean border=92.6, 206 (194) missing vertices, mean dist 0.4 [1.1 (%14.2)->0.7 (%85.8))]
- %64 local maxima, %33 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.90 +- 0.27 (0.08-->7.33) (max @ vno 63205 --> 60598)
- face area 0.32 +- 0.17 (0.00-->5.94)
- mean absolute distance = 0.42 +- 0.65
- 5486 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1664449.6, rms=5.235
- 001: dt: 0.5000, sse=1117810.9, rms=3.210 (38.685%)
- 002: dt: 0.5000, sse=947930.6, rms=2.279 (29.002%)
- 003: dt: 0.5000, sse=898469.4, rms=1.968 (13.656%)
- 004: dt: 0.5000, sse=884620.7, rms=1.816 (7.726%)
- rms = 1.77, time step reduction 1 of 3 to 0.250...
- 005: dt: 0.5000, sse=874591.1, rms=1.767 (2.684%)
- 006: dt: 0.2500, sse=853288.8, rms=1.501 (15.059%)
- 007: dt: 0.2500, sse=850122.9, rms=1.449 (3.474%)
- rms = 1.43, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=855235.8, rms=1.428 (1.432%)
- rms = 1.41, time step reduction 3 of 3 to 0.062...
- 009: dt: 0.1250, sse=845573.0, rms=1.411 (1.191%)
- positioning took 1.3 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 23 points - only 0.00% unknown
- deleting segment 1 with 26 points - only 0.00% unknown
- deleting segment 2 with 18 points - only 0.00% unknown
- deleting segment 3 with 183 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 4 with 4 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 6 with 79 points - only 0.00% unknown
- deleting segment 7 with 22 points - only 0.00% unknown
- deleting segment 8 with 73 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 9 with 4 points - only 0.00% unknown
- deleting segment 10 with 101 points - only 0.00% unknown
- deleting segment 11 with 16 points - only 0.00% unknown
- deleting segment 12 with 37 points - only 0.00% unknown
- deleting segment 13 with 161 points - only 0.00% unknown
- deleting segment 14 with 153 points - only 0.00% unknown
- deleting segment 15 with 28 points - only 0.00% unknown
- deleting segment 16 with 58 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 17 with 2 points - only 0.00% unknown
- deleting segment 18 with 7 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 19 with 3 points - only 0.00% unknown
- deleting segment 20 with 116 points - only 0.00% unknown
- mean border=94.5, 116 (34) missing vertices, mean dist -0.3 [0.5 (%69.1)->0.3 (%30.9))]
- %79 local maxima, %17 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.88 +- 0.26 (0.04-->7.56) (max @ vno 63205 --> 60598)
- face area 0.34 +- 0.18 (0.00-->7.35)
- mean absolute distance = 0.32 +- 0.45
- 6282 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1114897.4, rms=2.985
- 010: dt: 0.5000, sse=943530.4, rms=1.864 (37.552%)
- 011: dt: 0.5000, sse=901574.0, rms=1.517 (18.628%)
- 012: dt: 0.5000, sse=897203.8, rms=1.450 (4.415%)
- rms = 1.44, time step reduction 1 of 3 to 0.250...
- 013: dt: 0.5000, sse=893328.1, rms=1.438 (0.835%)
- 014: dt: 0.2500, sse=881459.9, rms=1.199 (16.634%)
- rms = 1.18, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=878549.7, rms=1.175 (1.947%)
- rms = 1.17, time step reduction 3 of 3 to 0.062...
- 016: dt: 0.1250, sse=873233.3, rms=1.167 (0.686%)
- positioning took 0.9 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 23 points - only 0.00% unknown
- deleting segment 1 with 28 points - only 0.00% unknown
- deleting segment 2 with 18 points - only 0.00% unknown
- deleting segment 3 with 193 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 4 with 4 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 6 with 82 points - only 0.00% unknown
- deleting segment 7 with 136 points - only 0.00% unknown
- deleting segment 8 with 8 points - only 0.00% unknown
- deleting segment 9 with 17 points - only 0.00% unknown
- deleting segment 10 with 61 points - only 0.00% unknown
- deleting segment 11 with 26 points - only 0.00% unknown
- deleting segment 12 with 158 points - only 0.00% unknown
- deleting segment 13 with 150 points - only 0.00% unknown
- deleting segment 14 with 38 points - only 0.00% unknown
- deleting segment 15 with 58 points - only 0.00% unknown
- deleting segment 16 with 9 points - only 0.00% unknown
- deleting segment 17 with 7 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 18 with 3 points - only 0.00% unknown
- deleting segment 19 with 123 points - only 0.00% unknown
- mean border=96.1, 126 (18) missing vertices, mean dist -0.2 [0.4 (%70.1)->0.2 (%29.9))]
- %88 local maxima, % 8 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.88 +- 0.26 (0.05-->7.65) (max @ vno 63205 --> 60598)
- face area 0.33 +- 0.17 (0.00-->7.36)
- mean absolute distance = 0.25 +- 0.36
- 4678 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=972584.4, rms=2.331
- 017: dt: 0.5000, sse=875624.6, rms=1.459 (37.416%)
- 018: dt: 0.5000, sse=858956.9, rms=1.308 (10.377%)
- rms = 1.34, time step reduction 1 of 3 to 0.250...
- 019: dt: 0.2500, sse=848834.5, rms=1.167 (10.757%)
- 020: dt: 0.2500, sse=851977.9, rms=1.102 (5.556%)
- rms = 1.09, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=849571.4, rms=1.092 (0.886%)
- rms = 1.08, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=842027.4, rms=1.084 (0.781%)
- positioning took 0.9 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 23 points - only 0.00% unknown
- deleting segment 1 with 28 points - only 0.00% unknown
- deleting segment 2 with 9 points - only 0.00% unknown
- deleting segment 3 with 196 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 4 with 4 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 6 with 83 points - only 0.00% unknown
- deleting segment 7 with 152 points - only 0.00% unknown
- deleting segment 8 with 12 points - only 0.00% unknown
- deleting segment 9 with 18 points - only 0.00% unknown
- deleting segment 10 with 61 points - only 0.00% unknown
- deleting segment 11 with 26 points - only 0.00% unknown
- deleting segment 13 with 159 points - only 0.00% unknown
- deleting segment 14 with 156 points - only 0.00% unknown
- deleting segment 15 with 34 points - only 0.00% unknown
- deleting segment 16 with 59 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 17 with 3 points - only 0.00% unknown
- deleting segment 18 with 9 points - only 0.00% unknown
- deleting segment 19 with 7 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 20 with 3 points - only 0.00% unknown
- deleting segment 21 with 120 points - only 0.00% unknown
- mean border=96.6, 153 (10) missing vertices, mean dist -0.1 [0.3 (%57.0)->0.2 (%43.0))]
- %91 local maxima, % 6 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=847213.2, rms=1.319
- 023: dt: 0.5000, sse=824694.1, rms=0.920 (30.263%)
- rms = 1.15, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=811878.7, rms=0.868 (5.599%)
- rms = 0.90, time step reduction 2 of 3 to 0.125...
- rms = 0.86, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=810491.9, rms=0.865 (0.432%)
- positioning took 0.6 minutes
- generating cortex label...
- 21 non-cortical segments detected
- only using segment with 7129 vertices
- erasing segment 0 (vno[0] = 37928)
- erasing segment 1 (vno[0] = 53733)
- erasing segment 3 (vno[0] = 60073)
- erasing segment 4 (vno[0] = 64480)
- erasing segment 5 (vno[0] = 67109)
- erasing segment 6 (vno[0] = 80405)
- erasing segment 7 (vno[0] = 104768)
- erasing segment 8 (vno[0] = 107694)
- erasing segment 9 (vno[0] = 109725)
- erasing segment 10 (vno[0] = 112660)
- erasing segment 11 (vno[0] = 115222)
- erasing segment 12 (vno[0] = 116330)
- erasing segment 13 (vno[0] = 117180)
- erasing segment 14 (vno[0] = 117489)
- erasing segment 15 (vno[0] = 117548)
- erasing segment 16 (vno[0] = 119872)
- erasing segment 17 (vno[0] = 119905)
- erasing segment 18 (vno[0] = 120536)
- erasing segment 19 (vno[0] = 125115)
- erasing segment 20 (vno[0] = 138080)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.area
- vertex spacing 0.88 +- 0.27 (0.05-->7.78) (max @ vno 60598 --> 63205)
- face area 0.32 +- 0.17 (0.00-->7.52)
- 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 15 points - only 0.00% unknown
- deleting segment 1 with 17 points - only 0.00% unknown
- deleting segment 2 with 87 points - only 0.00% unknown
- deleting segment 3 with 21 points - only 0.00% unknown
- deleting segment 4 with 11 points - only 0.00% unknown
- deleting segment 5 with 227 points - only 0.00% unknown
- deleting segment 6 with 151 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 8 with 4 points - only 0.00% unknown
- deleting segment 9 with 26 points - only 0.00% unknown
- deleting segment 10 with 10 points - only 0.00% unknown
- deleting segment 11 with 195 points - only 0.00% unknown
- deleting segment 12 with 125 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 14 with 2 points - only 0.00% unknown
- deleting segment 15 with 9 points - only 0.00% unknown
- deleting segment 16 with 97 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 17 with 2 points - only 0.00% unknown
- deleting segment 18 with 286 points - only 0.00% unknown
- deleting segment 19 with 60 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 20 with 2 points - only 0.00% unknown
- deleting segment 21 with 15 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 22 with 4 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 23 with 2 points - only 0.00% unknown
- deleting segment 24 with 24 points - only 0.00% unknown
- deleting segment 25 with 28 points - only 0.00% unknown
- deleting segment 26 with 77 points - only 0.00% unknown
- deleting segment 27 with 361 points - only 0.00% unknown
- deleting segment 28 with 130 points - only 0.00% unknown
- deleting segment 29 with 33 points - only 0.00% unknown
- deleting segment 30 with 153 points - only 0.00% unknown
- deleting segment 31 with 7 points - only 0.00% unknown
- deleting segment 32 with 6 points - only 0.00% unknown
- deleting segment 33 with 28 points - only 0.00% unknown
- deleting segment 34 with 131 points - only 0.00% unknown
- deleting segment 35 with 160 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 36 with 2 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 37 with 1 points - only 0.00% unknown
- deleting segment 38 with 17 points - only 0.00% unknown
- deleting segment 39 with 19 points - only 0.00% unknown
- deleting segment 40 with 24 points - only 0.00% unknown
- deleting segment 41 with 8 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=74.0, 205 (205) missing vertices, mean dist 1.5 [1.2 (%0.1)->3.2 (%99.9))]
- %14 local maxima, %32 large gradients and %50 min vals, 480 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=18521906.0, rms=23.551
- 001: dt: 0.0500, sse=16876836.0, rms=22.433 (4.748%)
- 002: dt: 0.0500, sse=15695909.0, rms=21.594 (3.738%)
- 003: dt: 0.0500, sse=14789567.0, rms=20.928 (3.087%)
- 004: dt: 0.0500, sse=14056598.0, rms=20.373 (2.652%)
- 005: dt: 0.0500, sse=13439435.0, rms=19.893 (2.354%)
- 006: dt: 0.0500, sse=12905905.0, rms=19.469 (2.132%)
- 007: dt: 0.0500, sse=12434002.0, rms=19.086 (1.967%)
- 008: dt: 0.0500, sse=12009866.0, rms=18.735 (1.839%)
- 009: dt: 0.0500, sse=11623662.0, rms=18.410 (1.737%)
- 010: dt: 0.0500, sse=11268491.0, rms=18.105 (1.654%)
- positioning took 1.2 minutes
- mean border=73.8, 185 (126) missing vertices, mean dist 1.3 [0.5 (%0.1)->2.7 (%99.9))]
- %15 local maxima, %32 large gradients and %49 min vals, 409 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=12255376.0, rms=18.941
- 011: dt: 0.0500, sse=11923688.0, rms=18.665 (1.458%)
- 012: dt: 0.0500, sse=11614770.0, rms=18.404 (1.398%)
- 013: dt: 0.0500, sse=11325994.0, rms=18.156 (1.344%)
- 014: dt: 0.0500, sse=11054969.0, rms=17.921 (1.296%)
- 015: dt: 0.0500, sse=10800225.0, rms=17.697 (1.251%)
- 016: dt: 0.0500, sse=10560162.0, rms=17.483 (1.209%)
- 017: dt: 0.0500, sse=10333234.0, rms=17.278 (1.171%)
- 018: dt: 0.0500, sse=10118291.0, rms=17.082 (1.136%)
- 019: dt: 0.0500, sse=9913785.0, rms=16.893 (1.106%)
- 020: dt: 0.0500, sse=9719064.0, rms=16.711 (1.077%)
- positioning took 1.2 minutes
- mean border=73.7, 198 (98) missing vertices, mean dist 1.2 [0.2 (%0.5)->2.3 (%99.5))]
- %16 local maxima, %33 large gradients and %48 min vals, 387 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=9863930.0, rms=16.852
- 021: dt: 0.0500, sse=9674651.0, rms=16.674 (1.052%)
- 022: dt: 0.0500, sse=9493419.0, rms=16.503 (1.029%)
- 023: dt: 0.0500, sse=9318839.0, rms=16.336 (1.012%)
- 024: dt: 0.0500, sse=9150581.0, rms=16.173 (0.996%)
- 025: dt: 0.0500, sse=8987889.0, rms=16.014 (0.983%)
- 026: dt: 0.0500, sse=8830339.0, rms=15.858 (0.971%)
- 027: dt: 0.0500, sse=8677103.0, rms=15.705 (0.964%)
- 028: dt: 0.0500, sse=8527391.0, rms=15.555 (0.960%)
- 029: dt: 0.0500, sse=8380357.5, rms=15.405 (0.962%)
- 030: dt: 0.0500, sse=8235742.0, rms=15.256 (0.965%)
- positioning took 1.2 minutes
- mean border=73.6, 260 (83) missing vertices, mean dist 1.0 [0.1 (%2.9)->2.0 (%97.1))]
- %16 local maxima, %33 large gradients and %47 min vals, 386 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=8311746.5, rms=15.335
- 031: dt: 0.5000, sse=7195954.5, rms=14.142 (7.779%)
- 032: dt: 0.5000, sse=6242212.5, rms=13.032 (7.848%)
- 033: dt: 0.5000, sse=5396731.0, rms=11.964 (8.201%)
- 034: dt: 0.5000, sse=4616926.0, rms=10.884 (9.025%)
- 035: dt: 0.5000, sse=3939029.2, rms=9.850 (9.497%)
- 036: dt: 0.5000, sse=3311752.5, rms=8.786 (10.802%)
- 037: dt: 0.5000, sse=2790994.2, rms=7.795 (11.279%)
- 038: dt: 0.5000, sse=2373236.8, rms=6.896 (11.542%)
- 039: dt: 0.5000, sse=2084405.1, rms=6.200 (10.084%)
- 040: dt: 0.5000, sse=1874649.5, rms=5.639 (9.054%)
- 041: dt: 0.5000, sse=1748924.8, rms=5.275 (6.450%)
- 042: dt: 0.5000, sse=1666615.5, rms=5.020 (4.834%)
- 043: dt: 0.5000, sse=1624568.9, rms=4.885 (2.692%)
- 044: dt: 0.5000, sse=1587222.0, rms=4.760 (2.551%)
- rms = 4.71, time step reduction 1 of 3 to 0.250...
- 045: dt: 0.5000, sse=1572892.8, rms=4.712 (1.018%)
- 046: dt: 0.2500, sse=1416979.8, rms=4.108 (12.817%)
- 047: dt: 0.2500, sse=1376638.8, rms=3.950 (3.845%)
- rms = 3.98, time step reduction 2 of 3 to 0.125...
- 048: dt: 0.1250, sse=1356043.5, rms=3.863 (2.198%)
- 049: dt: 0.1250, sse=1329990.5, rms=3.749 (2.956%)
- rms = 3.72, time step reduction 3 of 3 to 0.062...
- 050: dt: 0.1250, sse=1323118.1, rms=3.718 (0.816%)
- positioning took 3.6 minutes
- mean border=72.9, 3866 (31) missing vertices, mean dist 0.1 [0.2 (%45.6)->0.5 (%54.4))]
- %28 local maxima, %23 large gradients and %43 min vals, 203 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=1601086.4, rms=4.054
- rms = 4.32, time step reduction 1 of 3 to 0.250...
- 051: dt: 0.2500, sse=1493306.0, rms=3.593 (11.372%)
- 052: dt: 0.2500, sse=1431345.8, rms=3.301 (8.123%)
- rms = 3.30, time step reduction 2 of 3 to 0.125...
- 053: dt: 0.1250, sse=1409816.8, rms=3.191 (3.333%)
- 054: dt: 0.1250, sse=1377187.0, rms=3.020 (5.356%)
- 055: dt: 0.1250, sse=1361199.0, rms=2.936 (2.777%)
- rms = 2.89, time step reduction 3 of 3 to 0.062...
- 056: dt: 0.1250, sse=1352066.4, rms=2.890 (1.582%)
- positioning took 1.6 minutes
- mean border=72.6, 4216 (25) missing vertices, mean dist 0.1 [0.1 (%45.3)->0.4 (%54.7))]
- %36 local maxima, %15 large gradients and %43 min vals, 247 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=1366776.4, rms=3.017
- rms = 3.34, time step reduction 1 of 3 to 0.250...
- 057: dt: 0.2500, sse=1343401.8, rms=2.890 (4.207%)
- rms = 2.84, time step reduction 2 of 3 to 0.125...
- 058: dt: 0.2500, sse=1332008.1, rms=2.841 (1.717%)
- 059: dt: 0.1250, sse=1320621.9, rms=2.771 (2.432%)
- rms = 2.74, time step reduction 3 of 3 to 0.062...
- 060: dt: 0.1250, sse=1313630.6, rms=2.735 (1.313%)
- positioning took 1.1 minutes
- mean border=72.3, 8450 (23) missing vertices, mean dist 0.0 [0.1 (%46.9)->0.3 (%53.1))]
- %38 local maxima, %13 large gradients and %41 min vals, 226 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-6.0.0/0051473/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1325186.6, rms=2.779
- rms = 3.09, time step reduction 1 of 3 to 0.250...
- 061: dt: 0.2500, sse=1310079.6, rms=2.692 (3.124%)
- rms = 2.65, time step reduction 2 of 3 to 0.125...
- 062: dt: 0.2500, sse=1298650.5, rms=2.646 (1.721%)
- 063: dt: 0.1250, sse=1289228.1, rms=2.584 (2.327%)
- rms = 2.55, time step reduction 3 of 3 to 0.062...
- 064: dt: 0.1250, sse=1282382.0, rms=2.547 (1.423%)
- positioning took 1.1 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.area.pial
- vertex spacing 0.98 +- 0.44 (0.07-->8.43) (max @ vno 63205 --> 60598)
- face area 0.38 +- 0.32 (0.00-->7.54)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 166125 vertices processed
- 25000 of 166125 vertices processed
- 50000 of 166125 vertices processed
- 75000 of 166125 vertices processed
- 100000 of 166125 vertices processed
- 125000 of 166125 vertices processed
- 150000 of 166125 vertices processed
- 0 of 166125 vertices processed
- 25000 of 166125 vertices processed
- 50000 of 166125 vertices processed
- 75000 of 166125 vertices processed
- 100000 of 166125 vertices processed
- 125000 of 166125 vertices processed
- 150000 of 166125 vertices processed
- thickness calculation complete, 580:1195 truncations.
- 36363 vertices at 0 distance
- 114403 vertices at 1 distance
- 99538 vertices at 2 distance
- 45757 vertices at 3 distance
- 16062 vertices at 4 distance
- 5178 vertices at 5 distance
- 1676 vertices at 6 distance
- 547 vertices at 7 distance
- 250 vertices at 8 distance
- 112 vertices at 9 distance
- 97 vertices at 10 distance
- 61 vertices at 11 distance
- 31 vertices at 12 distance
- 28 vertices at 13 distance
- 32 vertices at 14 distance
- 25 vertices at 15 distance
- 14 vertices at 16 distance
- 17 vertices at 17 distance
- 21 vertices at 18 distance
- 9 vertices at 19 distance
- 13 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.thickness
- positioning took 19.9 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051473 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-6.0.0/0051473/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- 33643 bright wm thresholded.
- 4088 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.orig...
- computing class statistics...
- border white: 336363 voxels (2.00%)
- border gray 353810 voxels (2.11%)
- WM (105.0): 104.0 +- 5.7 [70.0 --> 110.0]
- GM (87.0) : 86.1 +- 10.2 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 73.8 (was 70)
- setting MAX_BORDER_WHITE to 112.7 (was 105)
- setting MIN_BORDER_WHITE to 84.0 (was 85)
- setting MAX_CSF to 63.6 (was 40)
- setting MAX_GRAY to 101.3 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 73.8 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 53.4 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=107+-4.3, GM=84+-7.0
- mean inside = 101.0, mean outside = 89.0
- 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 0.88 +- 0.26 (0.03-->4.16) (max @ vno 141643 --> 142409)
- face area 0.33 +- 0.16 (0.00-->3.76)
- mean absolute distance = 0.74 +- 0.92
- 3865 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 1 vertex label from ripped group
- deleting segment 3 with 50 points - only 0.00% unknown
- deleting segment 5 with 200 points - only 0.00% unknown
- deleting segment 6 with 12 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 7 with 2 points - only 0.00% unknown
- deleting segment 8 with 101 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 9 with 4 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 10 with 1 points - only 0.00% unknown
- deleting segment 11 with 146 points - only 0.00% unknown
- deleting segment 12 with 150 points - only 0.00% unknown
- deleting segment 13 with 80 points - only 0.00% unknown
- deleting segment 14 with 17 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 15 with 4 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 16 with 1 points - only 0.00% unknown
- deleting segment 17 with 226 points - only 0.00% unknown
- deleting segment 18 with 119 points - only 0.00% unknown
- deleting segment 19 with 62 points - only 0.00% unknown
- mean border=91.5, 279 (256) missing vertices, mean dist 0.5 [1.0 (%14.1)->0.7 (%85.9))]
- %66 local maxima, %30 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.91 +- 0.27 (0.05-->4.23) (max @ vno 141643 --> 142409)
- face area 0.33 +- 0.17 (0.00-->3.41)
- mean absolute distance = 0.43 +- 0.63
- 4997 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1779004.2, rms=5.597
- 001: dt: 0.5000, sse=1170230.0, rms=3.401 (39.243%)
- 002: dt: 0.5000, sse=972249.7, rms=2.388 (29.787%)
- 003: dt: 0.5000, sse=918586.1, rms=2.045 (14.366%)
- 004: dt: 0.5000, sse=896724.7, rms=1.906 (6.784%)
- rms = 1.86, time step reduction 1 of 3 to 0.250...
- 005: dt: 0.5000, sse=890288.2, rms=1.863 (2.261%)
- 006: dt: 0.2500, sse=866697.2, rms=1.584 (14.984%)
- 007: dt: 0.2500, sse=859948.9, rms=1.527 (3.555%)
- rms = 1.50, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=864399.9, rms=1.501 (1.764%)
- rms = 1.48, time step reduction 3 of 3 to 0.062...
- 009: dt: 0.1250, sse=855443.2, rms=1.482 (1.254%)
- positioning took 1.3 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 8 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- deleting segment 3 with 54 points - only 0.00% unknown
- deleting segment 4 with 116 points - only 0.00% unknown
- deleting segment 5 with 12 points - only 0.00% unknown
- deleting segment 6 with 72 points - only 0.00% unknown
- deleting segment 7 with 14 points - only 0.00% unknown
- deleting segment 8 with 10 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 9 with 4 points - only 0.00% unknown
- deleting segment 10 with 139 points - only 0.00% unknown
- deleting segment 11 with 18 points - only 0.00% unknown
- deleting segment 12 with 69 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 13 with 1 points - only 0.00% unknown
- deleting segment 14 with 46 points - only 0.00% unknown
- deleting segment 15 with 6 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 16 with 4 points - only 0.00% unknown
- deleting segment 17 with 18 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 18 with 4 points - only 0.00% unknown
- deleting segment 19 with 11 points - only 0.00% unknown
- deleting segment 20 with 70 points - only 0.00% unknown
- deleting segment 21 with 197 points - only 0.00% unknown
- deleting segment 22 with 60 points - only 0.00% unknown
- mean border=93.7, 211 (66) missing vertices, mean dist -0.3 [0.5 (%71.6)->0.3 (%28.4))]
- %81 local maxima, %15 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.89 +- 0.26 (0.05-->4.16) (max @ vno 122358 --> 163385)
- face area 0.35 +- 0.18 (0.00-->3.87)
- mean absolute distance = 0.31 +- 0.44
- 5981 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1168972.9, rms=3.230
- 010: dt: 0.5000, sse=970825.2, rms=2.009 (37.790%)
- 011: dt: 0.5000, sse=929092.1, rms=1.637 (18.505%)
- 012: dt: 0.5000, sse=924892.6, rms=1.543 (5.783%)
- rms = 1.54, time step reduction 1 of 3 to 0.250...
- 013: dt: 0.5000, sse=918093.7, rms=1.538 (0.337%)
- 014: dt: 0.2500, sse=888316.3, rms=1.250 (18.689%)
- rms = 1.21, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=887092.5, rms=1.214 (2.923%)
- rms = 1.20, time step reduction 3 of 3 to 0.062...
- 016: dt: 0.1250, sse=889217.9, rms=1.205 (0.722%)
- positioning took 1.0 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- deleting segment 1 with 56 points - only 0.00% unknown
- deleting segment 2 with 161 points - only 0.00% unknown
- deleting segment 3 with 14 points - only 0.00% unknown
- deleting segment 4 with 103 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 6 with 138 points - only 0.00% unknown
- deleting segment 7 with 40 points - only 0.00% unknown
- deleting segment 8 with 68 points - only 0.00% unknown
- deleting segment 9 with 48 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 10 with 1 points - only 0.00% unknown
- deleting segment 11 with 6 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 12 with 4 points - only 0.00% unknown
- deleting segment 13 with 19 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 14 with 4 points - only 0.00% unknown
- deleting segment 15 with 81 points - only 0.00% unknown
- deleting segment 16 with 213 points - only 0.00% unknown
- deleting segment 17 with 55 points - only 0.00% unknown
- mean border=95.3, 269 (42) missing vertices, mean dist -0.2 [0.3 (%71.6)->0.3 (%28.4))]
- %89 local maxima, % 7 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 0.88 +- 0.26 (0.03-->4.21) (max @ vno 122358 --> 163385)
- face area 0.33 +- 0.17 (0.00-->3.77)
- mean absolute distance = 0.25 +- 0.36
- 4743 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=993376.9, rms=2.407
- 017: dt: 0.5000, sse=892415.5, rms=1.524 (36.706%)
- 018: dt: 0.5000, sse=884122.9, rms=1.380 (9.403%)
- rms = 1.41, time step reduction 1 of 3 to 0.250...
- 019: dt: 0.2500, sse=855770.8, rms=1.218 (11.798%)
- 020: dt: 0.2500, sse=855463.1, rms=1.141 (6.260%)
- rms = 1.13, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=854373.3, rms=1.132 (0.844%)
- rms = 1.12, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=849917.4, rms=1.123 (0.757%)
- positioning took 1.0 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- deleting segment 1 with 41 points - only 0.00% unknown
- deleting segment 2 with 169 points - only 0.00% unknown
- deleting segment 3 with 16 points - only 0.00% unknown
- deleting segment 4 with 106 points - only 0.00% unknown
- deleting segment 5 with 5 points - only 0.00% unknown
- deleting segment 6 with 127 points - only 0.00% unknown
- deleting segment 7 with 60 points - only 0.00% unknown
- deleting segment 8 with 64 points - only 0.00% unknown
- deleting segment 9 with 53 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 10 with 1 points - only 0.00% unknown
- deleting segment 11 with 6 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 12 with 4 points - only 0.00% unknown
- deleting segment 13 with 13 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 14 with 4 points - only 0.00% unknown
- deleting segment 15 with 67 points - only 0.00% unknown
- deleting segment 16 with 216 points - only 0.00% unknown
- deleting segment 17 with 54 points - only 0.00% unknown
- mean border=95.8, 297 (30) missing vertices, mean dist -0.1 [0.3 (%58.0)->0.2 (%42.0))]
- %92 local maxima, % 5 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-6.0.0/0051473/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=853661.8, rms=1.360
- 023: dt: 0.5000, sse=833630.1, rms=0.981 (27.899%)
- rms = 1.21, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=820172.8, rms=0.919 (6.270%)
- rms = 0.95, time step reduction 2 of 3 to 0.125...
- rms = 0.91, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=822922.2, rms=0.914 (0.588%)
- positioning took 0.6 minutes
- generating cortex label...
- 19 non-cortical segments detected
- only using segment with 7578 vertices
- erasing segment 0 (vno[0] = 38357)
- erasing segment 2 (vno[0] = 98249)
- erasing segment 3 (vno[0] = 99214)
- erasing segment 4 (vno[0] = 103973)
- erasing segment 5 (vno[0] = 109162)
- erasing segment 6 (vno[0] = 111474)
- erasing segment 7 (vno[0] = 112191)
- erasing segment 8 (vno[0] = 118374)
- erasing segment 9 (vno[0] = 119758)
- erasing segment 10 (vno[0] = 121115)
- erasing segment 11 (vno[0] = 124770)
- erasing segment 12 (vno[0] = 126688)
- erasing segment 13 (vno[0] = 128363)
- erasing segment 14 (vno[0] = 131727)
- erasing segment 15 (vno[0] = 133913)
- erasing segment 16 (vno[0] = 138047)
- erasing segment 17 (vno[0] = 139697)
- erasing segment 18 (vno[0] = 142824)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.area
- vertex spacing 0.88 +- 0.27 (0.03-->4.27) (max @ vno 122358 --> 163385)
- face area 0.33 +- 0.17 (0.00-->3.70)
- 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 9 points - only 0.00% unknown
- deleting segment 1 with 18 points - only 0.00% unknown
- deleting segment 2 with 121 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 3 with 2 points - only 0.00% unknown
- deleting segment 4 with 14 points - only 0.00% unknown
- deleting segment 5 with 55 points - only 0.00% unknown
- deleting segment 6 with 232 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 7 with 2 points - only 0.00% unknown
- deleting segment 8 with 35 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 9 with 2 points - only 0.00% unknown
- deleting segment 10 with 40 points - only 0.00% unknown
- deleting segment 11 with 63 points - only 0.00% unknown
- deleting segment 13 with 5 points - only 0.00% unknown
- deleting segment 14 with 29 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 15 with 2 points - only 0.00% unknown
- deleting segment 16 with 8 points - only 0.00% unknown
- deleting segment 17 with 32 points - only 0.00% unknown
- deleting segment 18 with 27 points - only 0.00% unknown
- deleting segment 19 with 133 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 20 with 4 points - only 0.00% unknown
- deleting segment 21 with 82 points - only 0.00% unknown
- deleting segment 22 with 115 points - only 0.00% unknown
- deleting segment 23 with 390 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 24 with 1 points - only 0.00% unknown
- deleting segment 25 with 12 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- deleting segment 27 with 2 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 28 with 2 points - only 0.00% unknown
- deleting segment 29 with 8 points - only 0.00% unknown
- deleting segment 30 with 113 points - only 0.00% unknown
- deleting segment 31 with 7 points - only 0.00% unknown
- deleting segment 32 with 13 points - only 0.00% unknown
- deleting segment 33 with 14 points - only 0.00% unknown
- deleting segment 34 with 103 points - only 0.00% unknown
- deleting segment 35 with 23 points - only 0.00% unknown
- deleting segment 36 with 35 points - only 0.00% unknown
- deleting segment 37 with 46 points - only 0.00% unknown
- deleting segment 38 with 10 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 39 with 4 points - only 0.00% unknown
- deleting segment 40 with 6 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=72.4, 272 (272) missing vertices, mean dist 1.5 [1.3 (%0.0)->3.2 (%100.0))]
- %13 local maxima, %31 large gradients and %51 min vals, 282 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=19493334.0, rms=24.382
- 001: dt: 0.0500, sse=17765710.0, rms=23.229 (4.728%)
- 002: dt: 0.0500, sse=16519633.0, rms=22.361 (3.739%)
- 003: dt: 0.0500, sse=15562179.0, rms=21.669 (3.091%)
- 004: dt: 0.0500, sse=14787672.0, rms=21.094 (2.657%)
- 005: dt: 0.0500, sse=14136792.0, rms=20.597 (2.353%)
- 006: dt: 0.0500, sse=13573382.0, rms=20.158 (2.134%)
- 007: dt: 0.0500, sse=13075124.0, rms=19.761 (1.970%)
- 008: dt: 0.0500, sse=12626921.0, rms=19.396 (1.843%)
- 009: dt: 0.0500, sse=12218857.0, rms=19.059 (1.741%)
- 010: dt: 0.0500, sse=11844847.0, rms=18.744 (1.652%)
- positioning took 1.3 minutes
- mean border=72.3, 231 (158) missing vertices, mean dist 1.3 [0.4 (%0.0)->2.7 (%100.0))]
- %14 local maxima, %32 large gradients and %50 min vals, 244 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=12865616.0, rms=19.589
- 011: dt: 0.0500, sse=12517216.0, rms=19.304 (1.455%)
- 012: dt: 0.0500, sse=12192991.0, rms=19.035 (1.394%)
- 013: dt: 0.0500, sse=11890737.0, rms=18.781 (1.336%)
- 014: dt: 0.0500, sse=11607322.0, rms=18.539 (1.287%)
- 015: dt: 0.0500, sse=11341368.0, rms=18.309 (1.240%)
- 016: dt: 0.0500, sse=11089896.0, rms=18.089 (1.202%)
- 017: dt: 0.0500, sse=10852720.0, rms=17.879 (1.162%)
- 018: dt: 0.0500, sse=10627707.0, rms=17.677 (1.128%)
- 019: dt: 0.0500, sse=10414923.0, rms=17.484 (1.092%)
- 020: dt: 0.0500, sse=10212249.0, rms=17.298 (1.063%)
- positioning took 1.3 minutes
- mean border=72.1, 252 (128) missing vertices, mean dist 1.1 [0.1 (%0.4)->2.4 (%99.6))]
- %15 local maxima, %32 large gradients and %50 min vals, 240 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=10364279.0, rms=17.443
- 021: dt: 0.0500, sse=10167127.0, rms=17.261 (1.039%)
- 022: dt: 0.0500, sse=9978844.0, rms=17.086 (1.014%)
- 023: dt: 0.0500, sse=9797524.0, rms=16.916 (0.997%)
- 024: dt: 0.0500, sse=9623213.0, rms=16.751 (0.978%)
- 025: dt: 0.0500, sse=9454661.0, rms=16.589 (0.965%)
- 026: dt: 0.0500, sse=9290864.0, rms=16.430 (0.956%)
- 027: dt: 0.0500, sse=9131771.0, rms=16.275 (0.947%)
- 028: dt: 0.0500, sse=8975933.0, rms=16.121 (0.946%)
- 029: dt: 0.0500, sse=8823500.0, rms=15.969 (0.944%)
- 030: dt: 0.0500, sse=8673249.0, rms=15.817 (0.948%)
- positioning took 1.3 minutes
- mean border=72.0, 282 (111) missing vertices, mean dist 1.0 [0.1 (%2.4)->2.1 (%97.6))]
- %15 local maxima, %32 large gradients and %49 min vals, 260 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=8768631.0, rms=15.914
- 031: dt: 0.5000, sse=7617978.5, rms=14.711 (7.564%)
- 032: dt: 0.5000, sse=6624336.5, rms=13.582 (7.675%)
- 033: dt: 0.5000, sse=5728397.0, rms=12.477 (8.130%)
- 034: dt: 0.5000, sse=4884865.0, rms=11.339 (9.123%)
- 035: dt: 0.5000, sse=4144133.8, rms=10.237 (9.721%)
- 036: dt: 0.5000, sse=3451919.8, rms=9.086 (11.238%)
- 037: dt: 0.5000, sse=2878111.8, rms=8.012 (11.821%)
- 038: dt: 0.5000, sse=2416872.0, rms=7.028 (12.285%)
- 039: dt: 0.5000, sse=2112037.8, rms=6.296 (10.410%)
- 040: dt: 0.5000, sse=1906904.8, rms=5.748 (8.706%)
- 041: dt: 0.5000, sse=1793352.2, rms=5.423 (5.654%)
- 042: dt: 0.5000, sse=1707227.2, rms=5.159 (4.874%)
- 043: dt: 0.5000, sse=1668331.2, rms=5.036 (2.377%)
- 044: dt: 0.5000, sse=1624094.9, rms=4.891 (2.890%)
- rms = 4.86, time step reduction 1 of 3 to 0.250...
- 045: dt: 0.5000, sse=1614490.0, rms=4.861 (0.613%)
- 046: dt: 0.2500, sse=1451935.4, rms=4.239 (12.789%)
- 047: dt: 0.2500, sse=1408437.6, rms=4.072 (3.950%)
- rms = 4.09, time step reduction 2 of 3 to 0.125...
- 048: dt: 0.1250, sse=1386941.9, rms=3.982 (2.195%)
- 049: dt: 0.1250, sse=1358153.2, rms=3.858 (3.111%)
- rms = 3.83, time step reduction 3 of 3 to 0.062...
- 050: dt: 0.1250, sse=1350766.2, rms=3.826 (0.836%)
- positioning took 3.8 minutes
- mean border=71.3, 3824 (46) missing vertices, mean dist 0.1 [0.2 (%45.8)->0.5 (%54.2))]
- %26 local maxima, %23 large gradients and %45 min vals, 122 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=1645249.4, rms=4.209
- rms = 4.49, time step reduction 1 of 3 to 0.250...
- 051: dt: 0.2500, sse=1537700.5, rms=3.761 (10.633%)
- 052: dt: 0.2500, sse=1475090.4, rms=3.478 (7.536%)
- rms = 3.47, time step reduction 2 of 3 to 0.125...
- 053: dt: 0.2500, sse=1471180.2, rms=3.467 (0.320%)
- 054: dt: 0.1250, sse=1401066.9, rms=3.113 (10.210%)
- 055: dt: 0.1250, sse=1386441.4, rms=3.039 (2.364%)
- rms = 3.01, time step reduction 3 of 3 to 0.062...
- 056: dt: 0.1250, sse=1379884.5, rms=3.007 (1.069%)
- positioning took 1.5 minutes
- mean border=71.0, 4228 (43) missing vertices, mean dist 0.1 [0.1 (%45.7)->0.4 (%54.3))]
- %35 local maxima, %15 large gradients and %44 min vals, 135 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=1393972.4, rms=3.105
- rms = 3.50, time step reduction 1 of 3 to 0.250...
- 057: dt: 0.2500, sse=1373690.9, rms=2.997 (3.486%)
- rms = 2.97, time step reduction 2 of 3 to 0.125...
- 058: dt: 0.2500, sse=1366406.8, rms=2.971 (0.875%)
- 059: dt: 0.1250, sse=1355862.6, rms=2.909 (2.089%)
- rms = 2.88, time step reduction 3 of 3 to 0.062...
- 060: dt: 0.1250, sse=1349448.5, rms=2.877 (1.112%)
- positioning took 1.2 minutes
- mean border=70.7, 8496 (39) missing vertices, mean dist 0.0 [0.1 (%46.4)->0.3 (%53.6))]
- %36 local maxima, %13 large gradients and %42 min vals, 138 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-6.0.0/0051473/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1358431.6, rms=2.906
- rms = 3.26, time step reduction 1 of 3 to 0.250...
- 061: dt: 0.2500, sse=1344275.8, rms=2.827 (2.716%)
- rms = 2.79, time step reduction 2 of 3 to 0.125...
- 062: dt: 0.2500, sse=1335105.5, rms=2.795 (1.133%)
- 063: dt: 0.1250, sse=1325545.9, rms=2.734 (2.160%)
- rms = 2.70, time step reduction 3 of 3 to 0.062...
- 064: dt: 0.1250, sse=1318706.6, rms=2.699 (1.274%)
- positioning took 1.2 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.area.pial
- vertex spacing 0.99 +- 0.45 (0.03-->7.19) (max @ vno 104310 --> 104293)
- face area 0.39 +- 0.33 (0.00-->7.17)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 163844 vertices processed
- 25000 of 163844 vertices processed
- 50000 of 163844 vertices processed
- 75000 of 163844 vertices processed
- 100000 of 163844 vertices processed
- 125000 of 163844 vertices processed
- 150000 of 163844 vertices processed
- 0 of 163844 vertices processed
- 25000 of 163844 vertices processed
- 50000 of 163844 vertices processed
- 75000 of 163844 vertices processed
- 100000 of 163844 vertices processed
- 125000 of 163844 vertices processed
- 150000 of 163844 vertices processed
- thickness calculation complete, 520:1221 truncations.
- 36884 vertices at 0 distance
- 111031 vertices at 1 distance
- 98686 vertices at 2 distance
- 44269 vertices at 3 distance
- 15620 vertices at 4 distance
- 5320 vertices at 5 distance
- 1850 vertices at 6 distance
- 760 vertices at 7 distance
- 344 vertices at 8 distance
- 150 vertices at 9 distance
- 79 vertices at 10 distance
- 71 vertices at 11 distance
- 54 vertices at 12 distance
- 39 vertices at 13 distance
- 29 vertices at 14 distance
- 23 vertices at 15 distance
- 16 vertices at 16 distance
- 17 vertices at 17 distance
- 21 vertices at 18 distance
- 16 vertices at 19 distance
- 11 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.thickness
- positioning took 20.7 minutes
- PIDs (11631 11634) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Sun Oct 8 02:06:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0051473 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/label/lh.cortex.label
- Total face volume 303099
- Total vertex volume 299947 (mask=0)
- #@# 0051473 lh 299947
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Sun Oct 8 02:06:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0051473 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/label/rh.cortex.label
- Total face volume 304898
- Total vertex volume 300686 (mask=0)
- #@# 0051473 rh 300686
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Sun Oct 8 02:06:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0051473
- 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 = 44
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/ribbon.mgz
- mris_volmask took 29.66 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Sun Oct 8 02:36:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0051473 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 0051473 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Sun Oct 8 02:36:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0051473 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 0051473 rh pial
- Waiting for PID 15478 of (15478 15481 15484 15487) to complete...
- Waiting for PID 15481 of (15478 15481 15484 15487) to complete...
- Waiting for PID 15484 of (15478 15481 15484 15487) to complete...
- Waiting for PID 15487 of (15478 15481 15484 15487) 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 0051473 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 303099
- Total vertex volume 299947 (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) = 1703595 mm^3 (det: 1.143526 )
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 1360 961 2637 2.706 0.609 0.105 0.018 11 0.9 bankssts
- 945 609 1329 2.268 0.680 0.114 0.016 14 0.6 caudalanteriorcingulate
- 3746 2365 6827 2.807 0.466 0.115 0.038 43 5.6 caudalmiddlefrontal
- 2670 1666 3364 1.924 0.546 0.148 0.038 41 4.1 cuneus
- 889 612 2797 3.261 0.888 0.123 0.032 12 1.1 entorhinal
- 5357 3629 11206 2.754 0.603 0.140 0.040 90 9.0 fusiform
- 7333 4669 12595 2.551 0.475 0.125 0.030 96 8.4 inferiorparietal
- 6490 4238 15206 2.924 0.785 0.130 0.039 105 10.6 inferiortemporal
- 1958 1274 3080 2.095 0.785 0.129 0.034 33 2.5 isthmuscingulate
- 9076 5698 12406 2.042 0.644 0.140 0.041 129 15.0 lateraloccipital
- 4669 3241 11108 3.119 0.701 0.139 0.033 76 6.5 lateralorbitofrontal
- 5299 3383 7144 2.023 0.624 0.142 0.043 75 9.0 lingual
- 2829 1962 6435 2.820 0.672 0.117 0.030 40 2.8 medialorbitofrontal
- 5204 3579 12291 2.852 0.632 0.131 0.031 83 6.3 middletemporal
- 1270 812 2666 2.878 0.763 0.113 0.028 15 1.5 parahippocampal
- 2736 1577 4318 2.591 0.545 0.119 0.036 30 4.3 paracentral
- 2999 2020 6522 2.881 0.490 0.118 0.028 38 3.7 parsopercularis
- 1514 1008 3459 2.899 0.606 0.126 0.039 24 2.5 parsorbitalis
- 2725 1813 5824 2.838 0.510 0.128 0.025 33 3.0 parstriangularis
- 2358 1497 2230 1.622 0.430 0.142 0.037 30 3.7 pericalcarine
- 9734 5705 13375 2.149 0.644 0.112 0.035 120 15.7 postcentral
- 1634 1100 3015 2.514 0.682 0.144 0.032 27 2.1 posteriorcingulate
- 9783 5774 15159 2.476 0.711 0.119 0.038 122 16.5 precentral
- 6407 4268 11363 2.481 0.440 0.131 0.029 85 7.9 precuneus
- 1883 1219 4067 2.821 0.565 0.127 0.029 40 2.3 rostralanteriorcingulate
- 11194 7376 24223 2.867 0.529 0.128 0.030 147 13.4 rostralmiddlefrontal
- 14571 9531 33064 3.000 0.613 0.128 0.036 180 21.3 superiorfrontal
- 10151 6189 15507 2.328 0.447 0.125 0.034 137 12.9 superiorparietal
- 6998 4809 16526 2.941 0.711 0.119 0.025 91 7.3 superiortemporal
- 8498 5288 15430 2.651 0.504 0.127 0.040 135 13.3 supramarginal
- 508 282 1364 3.274 0.644 0.135 0.034 10 0.6 frontalpole
- 691 520 3212 3.971 0.687 0.133 0.029 10 0.9 temporalpole
- 1166 729 1948 2.396 0.441 0.110 0.033 13 1.3 transversetemporal
- 3836 2536 8225 3.150 0.828 0.117 0.033 41 4.7 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 0051473 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 303099
- Total vertex volume 299947 (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) = 1703595 mm^3 (det: 1.143526 )
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 1360 936 2637 2.706 0.609 0.122 0.025 18 1.6 bankssts
- 945 691 1329 2.268 0.680 0.143 0.050 23 2.2 caudalanteriorcingulate
- 3746 2469 6827 2.807 0.466 0.110 0.027 60 4.1 caudalmiddlefrontal
- 2670 1839 3364 1.924 0.546 0.129 0.034 37 3.8 cuneus
- 889 1022 2797 3.261 0.888 0.170 0.038 20 1.6 entorhinal
- 5357 4287 11206 2.754 0.603 0.148 0.038 84 9.3 fusiform
- 7333 5131 12595 2.551 0.475 0.121 0.029 90 9.0 inferiorparietal
- 6490 5727 15206 2.924 0.785 0.144 0.034 99 10.9 inferiortemporal
- 1958 1618 3080 2.095 0.785 0.146 0.036 36 2.9 isthmuscingulate
- 9076 6490 12406 2.042 0.644 0.116 0.028 117 11.0 lateraloccipital
- 4669 3843 11108 3.119 0.701 0.145 0.035 72 7.2 lateralorbitofrontal
- 5299 3855 7144 2.023 0.624 0.134 0.036 65 8.3 lingual
- 2829 2589 6435 2.820 0.672 0.149 0.034 40 4.2 medialorbitofrontal
- 5204 4722 12291 2.852 0.632 0.140 0.027 66 6.8 middletemporal
- 1270 1043 2666 2.878 0.763 0.117 0.029 12 1.5 parahippocampal
- 2736 1797 4318 2.591 0.545 0.106 0.025 40 2.9 paracentral
- 2999 2460 6522 2.881 0.490 0.126 0.034 40 4.8 parsopercularis
- 1514 1352 3459 2.899 0.606 0.135 0.024 17 1.6 parsorbitalis
- 2725 2264 5824 2.838 0.510 0.130 0.030 35 3.7 parstriangularis
- 2358 1357 2230 1.622 0.430 0.116 0.030 32 3.2 pericalcarine
- 9734 6739 13375 2.149 0.644 0.118 0.104 2188 72.5 postcentral
- 1634 1313 3015 2.514 0.682 0.156 0.036 35 2.6 posteriorcingulate
- 9783 6227 15159 2.476 0.711 0.095 0.029 108 14.9 precentral
- 6407 4780 11363 2.481 0.440 0.136 0.031 103 8.6 precuneus
- 1883 1699 4067 2.821 0.565 0.159 0.037 31 2.9 rostralanteriorcingulate
- 11194 9169 24223 2.867 0.529 0.134 0.029 164 15.0 rostralmiddlefrontal
- 14571 11708 33064 3.000 0.613 0.133 0.033 204 20.2 superiorfrontal
- 10151 6966 15507 2.328 0.447 0.121 0.027 148 11.8 superiorparietal
- 6998 6136 16526 2.941 0.711 0.138 0.030 79 9.3 superiortemporal
- 8498 6146 15430 2.651 0.504 0.129 0.036 207 14.2 supramarginal
- 508 530 1364 3.274 0.644 0.175 0.043 7 0.9 frontalpole
- 691 1003 3212 3.971 0.687 0.205 0.036 8 1.1 temporalpole
- 1166 940 1948 2.396 0.441 0.126 0.029 9 1.5 transversetemporal
- 3836 2495 8225 3.150 0.828 0.136 0.038 65 6.3 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 0051473 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 304898
- Total vertex volume 300686 (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) = 1703595 mm^3 (det: 1.143526 )
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 1700 1196 3165 2.782 0.477 0.126 0.021 18 1.6 bankssts
- 2020 1376 3977 2.802 0.746 0.129 0.024 33 1.9 caudalanteriorcingulate
- 4624 2985 8895 2.763 0.484 0.125 0.037 62 7.1 caudalmiddlefrontal
- 2192 1399 2912 1.950 0.535 0.152 0.040 35 3.6 cuneus
- 800 564 3276 3.762 0.707 0.137 0.040 12 1.6 entorhinal
- 4767 3328 10108 2.707 0.540 0.131 0.033 74 6.8 fusiform
- 9301 6119 16965 2.549 0.480 0.129 0.034 131 12.0 inferiorparietal
- 5824 3995 14438 2.970 0.713 0.128 0.038 96 9.4 inferiortemporal
- 1543 1003 2506 2.179 0.823 0.129 0.031 25 1.9 isthmuscingulate
- 8225 5255 12134 2.159 0.738 0.141 0.038 116 12.6 lateraloccipital
- 4898 3366 11059 3.079 0.594 0.134 0.032 65 6.8 lateralorbitofrontal
- 4667 3141 6559 2.017 0.681 0.142 0.037 70 6.9 lingual
- 2513 1784 5860 2.858 0.663 0.125 0.027 35 3.2 medialorbitofrontal
- 5876 4112 15390 2.992 0.730 0.138 0.035 96 8.4 middletemporal
- 1075 686 2104 2.740 0.689 0.112 0.032 12 1.3 parahippocampal
- 3012 1901 4974 2.484 0.507 0.120 0.030 33 3.7 paracentral
- 2422 1690 5428 2.883 0.394 0.123 0.025 31 2.5 parsopercularis
- 1775 1178 4461 3.131 0.653 0.138 0.035 29 2.4 parsorbitalis
- 3085 2104 6269 2.727 0.524 0.140 0.039 49 4.4 parstriangularis
- 2402 1496 2528 1.775 0.528 0.123 0.033 29 3.3 pericalcarine
- 7866 4812 10980 2.114 0.637 0.112 0.029 78 9.9 postcentral
- 1826 1251 3363 2.476 0.665 0.139 0.032 29 2.3 posteriorcingulate
- 9759 6054 15966 2.464 0.654 0.121 0.040 114 17.6 precentral
- 6291 4233 11548 2.534 0.502 0.131 0.032 94 8.0 precuneus
- 1440 938 3380 3.071 0.555 0.138 0.033 27 2.0 rostralanteriorcingulate
- 10879 7122 22567 2.747 0.558 0.136 0.038 167 17.9 rostralmiddlefrontal
- 14197 9099 29373 2.886 0.636 0.129 0.045 202 26.1 superiorfrontal
- 10185 6323 15937 2.297 0.478 0.129 0.034 147 13.3 superiorparietal
- 6389 4344 13613 2.735 0.633 0.113 0.023 73 6.3 superiortemporal
- 8467 5613 16770 2.754 0.491 0.133 0.032 121 10.5 supramarginal
- 539 352 1636 3.084 0.680 0.168 0.061 13 1.3 frontalpole
- 695 510 2917 3.775 0.721 0.130 0.031 11 0.9 temporalpole
- 750 465 1183 2.143 0.338 0.108 0.033 11 0.8 transversetemporal
- 3702 2454 8347 3.257 0.866 0.112 0.032 42 4.6 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.pial.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 0051473 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 304898
- Total vertex volume 300686 (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) = 1703595 mm^3 (det: 1.143526 )
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 1700 1095 3165 2.782 0.477 0.186 0.483 2106 63.1 bankssts
- 2020 1639 3977 2.802 0.746 0.148 0.040 73 3.1 caudalanteriorcingulate
- 4624 3408 8895 2.763 0.484 0.121 0.027 72 5.4 caudalmiddlefrontal
- 2192 1655 2912 1.950 0.535 0.138 0.031 33 3.0 cuneus
- 800 1121 3276 3.762 0.707 0.201 0.043 10 1.7 entorhinal
- 4767 3865 10108 2.707 0.540 0.144 0.036 98 7.9 fusiform
- 9301 7085 16965 2.549 0.480 0.129 0.027 118 11.7 inferiorparietal
- 5824 5576 14438 2.970 0.713 0.152 0.042 85 13.0 inferiortemporal
- 1543 1217 2506 2.179 0.823 0.138 0.037 22 2.3 isthmuscingulate
- 8225 5937 12134 2.159 0.738 0.117 0.029 135 9.9 lateraloccipital
- 4898 3830 11059 3.079 0.594 0.142 0.035 80 8.3 lateralorbitofrontal
- 4667 3593 6559 2.017 0.681 0.131 0.033 98 6.7 lingual
- 2513 2290 5860 2.858 0.663 0.148 0.032 43 3.6 medialorbitofrontal
- 5876 5934 15390 2.992 0.730 0.158 0.032 88 8.8 middletemporal
- 1075 854 2104 2.740 0.689 0.138 0.034 17 1.8 parahippocampal
- 3012 2062 4974 2.484 0.507 0.115 0.024 35 3.1 paracentral
- 2422 2090 5428 2.883 0.394 0.134 0.026 24 2.7 parsopercularis
- 1775 1664 4461 3.131 0.653 0.134 0.025 17 1.8 parsorbitalis
- 3085 2435 6269 2.727 0.524 0.137 0.028 39 3.8 parstriangularis
- 2402 1428 2528 1.775 0.528 0.104 0.026 30 2.6 pericalcarine
- 7866 5593 10980 2.114 0.637 0.111 0.023 69 8.3 postcentral
- 1826 1467 3363 2.476 0.665 0.161 0.041 42 3.3 posteriorcingulate
- 9759 6599 15966 2.464 0.654 0.100 0.025 108 9.7 precentral
- 6291 4770 11548 2.534 0.502 0.136 0.033 100 9.1 precuneus
- 1440 1324 3380 3.071 0.555 0.165 0.045 38 2.9 rostralanteriorcingulate
- 10879 8952 22567 2.747 0.558 0.143 0.034 189 16.8 rostralmiddlefrontal
- 14197 10587 29373 2.886 0.636 0.126 0.035 220 23.8 superiorfrontal
- 10185 7315 15937 2.297 0.478 0.126 0.028 125 12.1 superiorparietal
- 6389 5423 13613 2.735 0.633 0.135 0.028 83 8.2 superiortemporal
- 8467 6428 16770 2.754 0.491 0.131 0.030 117 11.1 supramarginal
- 539 674 1636 3.084 0.680 0.203 0.039 5 1.2 frontalpole
- 695 978 2917 3.775 0.721 0.199 0.041 6 1.2 temporalpole
- 750 616 1183 2.143 0.338 0.114 0.032 6 0.8 transversetemporal
- 3702 2389 8347 3.257 0.866 0.132 0.032 75 5.2 insula
- PIDs (15478 15481 15484 15487) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Sun Oct 8 02:38:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051473 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 02:38:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051473 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 15585 of (15585 15588) to complete...
- Waiting for PID 15588 of (15585 15588) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051473 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...
- 32 labels changed using aseg
- relabeling using gibbs priors...
- 000: 10998 changed, 166125 examined...
- 001: 2725 changed, 42708 examined...
- 002: 774 changed, 14078 examined...
- 003: 334 changed, 4400 examined...
- 004: 165 changed, 1920 examined...
- 005: 94 changed, 920 examined...
- 006: 43 changed, 512 examined...
- 007: 17 changed, 238 examined...
- 008: 13 changed, 107 examined...
- 009: 7 changed, 76 examined...
- 010: 4 changed, 43 examined...
- 011: 0 changed, 13 examined...
- 0 labels changed using aseg
- 000: 343 total segments, 256 labels (3296 vertices) changed
- 001: 102 total segments, 17 labels (212 vertices) changed
- 002: 85 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 56 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1257 vertices marked for relabeling...
- 1257 labels changed in reclassification.
- writing output to ../label/lh.aparc.a2009s.annot...
- classification took 0 minutes and 27 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051473 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: 10435 changed, 163844 examined...
- 001: 2427 changed, 40970 examined...
- 002: 729 changed, 12535 examined...
- 003: 257 changed, 3996 examined...
- 004: 116 changed, 1396 examined...
- 005: 59 changed, 664 examined...
- 006: 34 changed, 356 examined...
- 007: 15 changed, 187 examined...
- 008: 9 changed, 93 examined...
- 009: 6 changed, 59 examined...
- 010: 3 changed, 36 examined...
- 011: 2 changed, 16 examined...
- 012: 1 changed, 13 examined...
- 013: 1 changed, 10 examined...
- 014: 0 changed, 7 examined...
- 0 labels changed using aseg
- 000: 324 total segments, 239 labels (2324 vertices) changed
- 001: 99 total segments, 14 labels (41 vertices) changed
- 002: 85 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 41 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1291 vertices marked for relabeling...
- 1291 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 26 seconds.
- PIDs (15585 15588) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Sun Oct 8 02:38:27 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0051473 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Sun Oct 8 02:38:27 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0051473 rh white
- Waiting for PID 15639 of (15639 15642) to complete...
- Waiting for PID 15642 of (15639 15642) 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 0051473 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 303099
- Total vertex volume 299947 (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) = 1703595 mm^3 (det: 1.143526 )
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 1628 1074 3191 2.657 0.561 0.135 0.035 25 2.4 G&S_frontomargin
- 1820 1183 3597 2.584 0.644 0.132 0.032 23 2.3 G&S_occipital_inf
- 1882 1044 2508 2.194 0.598 0.125 0.037 19 3.1 G&S_paracentral
- 2059 1310 4502 2.915 0.452 0.130 0.032 28 2.6 G&S_subcentral
- 1108 662 2775 3.121 0.513 0.153 0.043 21 2.0 G&S_transv_frontopol
- 3131 2150 6855 2.772 0.550 0.118 0.027 46 3.4 G&S_cingul-Ant
- 1452 1043 2432 2.514 0.549 0.113 0.018 11 1.2 G&S_cingul-Mid-Ant
- 1221 857 2370 2.737 0.502 0.133 0.032 13 1.6 G&S_cingul-Mid-Post
- 790 532 1859 2.684 0.579 0.177 0.055 20 1.8 G_cingul-Post-dorsal
- 351 228 745 2.528 0.868 0.143 0.039 7 0.4 G_cingul-Post-ventral
- 2589 1556 3269 1.853 0.554 0.148 0.042 43 4.3 G_cuneus
- 1661 1097 4442 3.129 0.433 0.127 0.035 29 2.3 G_front_inf-Opercular
- 689 459 1581 2.798 0.436 0.135 0.029 12 0.8 G_front_inf-Orbital
- 1389 881 3552 3.038 0.525 0.134 0.029 21 1.7 G_front_inf-Triangul
- 5704 3513 14806 3.099 0.520 0.138 0.041 101 9.4 G_front_middle
- 10205 6389 24700 3.113 0.629 0.135 0.043 154 17.8 G_front_sup
- 601 389 1363 3.214 0.769 0.137 0.045 10 0.9 G_Ins_lg&S_cent_ins
- 967 574 2844 3.611 0.839 0.124 0.042 16 1.4 G_insular_short
- 2674 1590 4704 2.395 0.539 0.147 0.046 49 4.9 G_occipital_middle
- 1744 1018 2324 1.998 0.614 0.143 0.045 29 3.1 G_occipital_sup
- 2180 1452 4673 2.701 0.588 0.149 0.047 46 4.4 G_oc-temp_lat-fusifor
- 3610 2183 4582 1.858 0.620 0.151 0.052 60 7.4 G_oc-temp_med-Lingual
- 1845 1191 5270 3.150 0.867 0.128 0.037 31 2.8 G_oc-temp_med-Parahip
- 3140 2131 8476 3.072 0.734 0.149 0.043 72 5.7 G_orbital
- 3452 2003 6422 2.598 0.513 0.135 0.046 66 6.0 G_pariet_inf-Angular
- 4068 2545 8975 2.824 0.500 0.140 0.043 85 6.2 G_pariet_inf-Supramar
- 4483 2542 7762 2.455 0.430 0.121 0.035 72 5.7 G_parietal_sup
- 4162 2112 5263 2.120 0.577 0.106 0.039 55 7.3 G_postcentral
- 4229 2181 6797 2.488 0.834 0.115 0.045 54 8.8 G_precentral
- 3301 2139 7145 2.615 0.450 0.142 0.035 63 4.6 G_precuneus
- 935 611 3077 3.277 0.666 0.149 0.040 24 1.6 G_rectus
- 845 582 1825 2.815 0.674 0.104 0.038 8 0.7 G_subcallosal
- 877 575 1765 2.436 0.493 0.115 0.037 14 0.9 G_temp_sup-G_T_transv
- 2270 1631 6633 3.094 0.723 0.149 0.033 49 3.2 G_temp_sup-Lateral
- 1118 794 3424 3.580 0.822 0.098 0.020 9 1.0 G_temp_sup-Plan_polar
- 1248 826 2435 2.868 0.490 0.107 0.022 10 1.1 G_temp_sup-Plan_tempo
- 3492 2224 9370 2.962 0.878 0.140 0.049 78 7.3 G_temporal_inf
- 2944 1967 8047 2.984 0.613 0.142 0.037 63 4.0 G_temporal_middle
- 333 237 682 2.885 0.447 0.121 0.018 3 0.2 Lat_Fis-ant-Horizont
- 567 388 841 2.470 0.471 0.084 0.014 2 0.3 Lat_Fis-ant-Vertical
- 1539 997 2131 2.629 0.463 0.108 0.030 12 2.4 Lat_Fis-post
- 2604 1598 2651 1.629 0.480 0.140 0.039 39 4.2 Pole_occipital
- 1675 1164 6204 3.545 0.769 0.140 0.040 32 2.8 Pole_temporal
- 2580 1745 2843 1.832 0.546 0.127 0.029 24 3.2 S_calcarine
- 3766 2424 3747 1.828 0.540 0.122 0.041 54 7.5 S_central
- 1053 710 1505 2.358 0.344 0.095 0.014 6 0.6 S_cingul-Marginalis
- 618 418 1040 2.929 0.414 0.084 0.013 2 0.3 S_circular_insula_ant
- 1353 948 2345 2.894 0.831 0.104 0.023 8 1.4 S_circular_insula_inf
- 2065 1392 3158 2.749 0.456 0.098 0.017 10 1.5 S_circular_insula_sup
- 1250 839 2206 2.815 0.685 0.103 0.021 7 1.2 S_collat_transv_ant
- 758 503 978 2.148 0.520 0.133 0.032 8 0.9 S_collat_transv_post
- 2928 2025 4659 2.619 0.435 0.122 0.024 27 3.3 S_front_inf
- 1965 1336 3311 2.692 0.387 0.111 0.021 14 1.5 S_front_middle
- 4224 2851 7662 2.779 0.397 0.104 0.024 30 4.0 S_front_sup
- 675 445 899 2.232 0.431 0.110 0.024 6 0.7 S_interm_prim-Jensen
- 3278 2137 4381 2.278 0.374 0.119 0.024 35 3.0 S_intrapariet&P_trans
- 1229 840 1490 2.086 0.494 0.134 0.032 11 1.7 S_oc_middle&Lunatus
- 1289 858 1640 2.148 0.429 0.118 0.022 10 1.2 S_oc_sup&transversal
- 732 478 939 2.154 0.453 0.121 0.033 7 0.9 S_occipital_ant
- 995 689 1570 2.763 0.395 0.122 0.028 8 1.2 S_oc-temp_lat
- 2941 2025 5157 2.576 0.544 0.137 0.034 35 4.0 S_oc-temp_med&Lingual
- 574 399 942 2.649 0.437 0.115 0.022 5 0.5 S_orbital_lateral
- 565 429 1119 2.855 0.553 0.137 0.028 6 0.6 S_orbital_med-olfact
- 1760 1229 3873 3.194 0.714 0.129 0.029 17 2.1 S_orbital-H_Shaped
- 2177 1429 3040 2.340 0.416 0.122 0.024 20 2.3 S_parieto_occipital
- 1525 884 1256 1.820 0.760 0.122 0.021 26 1.0 S_pericallosal
- 4849 3215 6705 2.310 0.464 0.121 0.031 49 6.5 S_postcentral
- 1622 1035 2537 2.687 0.468 0.115 0.029 19 2.2 S_precentral-inf-part
- 1968 1351 3259 2.656 0.452 0.111 0.023 15 1.6 S_precentral-sup-part
- 907 624 1381 2.487 0.520 0.106 0.016 9 0.6 S_suborbital
- 1452 1017 2032 2.274 0.386 0.131 0.029 15 2.0 S_subparietal
- 2085 1455 3039 2.527 0.492 0.120 0.022 15 2.0 S_temporal_inf
- 5838 4010 11239 2.703 0.579 0.111 0.022 51 5.2 S_temporal_sup
- 858 561 1126 2.314 0.361 0.088 0.012 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 0051473 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 304898
- Total vertex volume 300686 (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) = 1703595 mm^3 (det: 1.143526 )
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 1078 727 2372 2.666 0.626 0.143 0.042 16 1.8 G&S_frontomargin
- 1122 731 2854 3.158 0.503 0.146 0.040 15 1.8 G&S_occipital_inf
- 1935 1079 2694 2.145 0.547 0.120 0.036 24 2.9 G&S_paracentral
- 1876 1274 3765 2.654 0.597 0.134 0.033 27 2.3 G&S_subcentral
- 1174 781 2835 2.860 0.709 0.160 0.055 24 3.0 G&S_transv_frontopol
- 3414 2300 6748 2.773 0.483 0.112 0.022 34 3.1 G&S_cingul-Ant
- 1892 1389 4209 3.007 0.472 0.127 0.027 18 2.0 G&S_cingul-Mid-Ant
- 1935 1342 3594 2.700 0.420 0.123 0.023 18 2.0 G&S_cingul-Mid-Post
- 602 398 1641 2.878 0.522 0.167 0.050 16 1.3 G_cingul-Post-dorsal
- 338 236 809 2.634 0.651 0.172 0.052 9 0.6 G_cingul-Post-ventral
- 2151 1376 2760 1.847 0.514 0.152 0.040 35 3.4 G_cuneus
- 1622 1107 4496 3.016 0.402 0.134 0.031 32 2.1 G_front_inf-Opercular
- 664 439 1519 2.680 0.657 0.154 0.040 15 1.0 G_front_inf-Orbital
- 1240 809 3141 2.883 0.518 0.150 0.051 25 2.3 G_front_inf-Triangul
- 6134 3719 15087 2.868 0.564 0.141 0.047 121 11.6 G_front_middle
- 9084 5519 20773 2.936 0.704 0.139 0.057 174 20.7 G_front_sup
- 690 477 1850 3.574 0.872 0.126 0.033 8 0.8 G_Ins_lg&S_cent_ins
- 699 449 2630 3.989 0.625 0.133 0.037 13 1.1 G_insular_short
- 3074 1988 6377 2.601 0.564 0.153 0.038 55 4.7 G_occipital_middle
- 2155 1229 3081 2.075 0.535 0.133 0.040 36 3.2 G_occipital_sup
- 1710 1164 4237 2.808 0.558 0.143 0.039 36 2.6 G_oc-temp_lat-fusifor
- 3063 2053 4427 1.981 0.745 0.154 0.045 57 5.6 G_oc-temp_med-Lingual
- 1640 1110 5563 3.431 0.781 0.124 0.037 20 2.6 G_oc-temp_med-Parahip
- 3806 2483 9811 3.088 0.730 0.144 0.042 71 6.9 G_orbital
- 3605 2245 7843 2.607 0.562 0.141 0.048 80 6.4 G_pariet_inf-Angular
- 3952 2643 9650 2.951 0.521 0.144 0.037 68 5.6 G_pariet_inf-Supramar
- 3374 1994 6311 2.507 0.492 0.136 0.043 63 5.8 G_parietal_sup
- 3017 1599 4304 2.193 0.602 0.120 0.038 37 5.3 G_postcentral
- 4118 2341 7688 2.569 0.743 0.125 0.054 63 10.0 G_precentral
- 2963 1982 6520 2.623 0.494 0.152 0.045 67 5.1 G_precuneus
- 532 393 2006 3.286 0.480 0.153 0.029 11 0.7 G_rectus
- 313 227 843 3.687 0.689 0.126 0.035 5 0.4 G_subcallosal
- 588 358 1042 2.194 0.371 0.109 0.034 9 0.7 G_temp_sup-G_T_transv
- 2192 1501 6280 2.971 0.699 0.146 0.035 43 3.3 G_temp_sup-Lateral
- 1422 942 3170 3.102 0.856 0.083 0.032 14 1.7 G_temp_sup-Plan_polar
- 1152 783 2275 2.693 0.476 0.116 0.024 14 1.2 G_temp_sup-Plan_tempo
- 3475 2321 9325 3.028 0.773 0.142 0.046 77 7.0 G_temporal_inf
- 3376 2360 10847 3.210 0.746 0.154 0.046 74 6.2 G_temporal_middle
- 525 372 856 2.578 0.501 0.116 0.023 5 0.4 Lat_Fis-ant-Horizont
- 393 273 752 2.848 0.364 0.127 0.030 5 0.4 Lat_Fis-ant-Vertical
- 1680 1135 2373 2.541 0.423 0.114 0.023 13 1.6 Lat_Fis-post
- 3654 2260 4121 1.718 0.597 0.145 0.043 58 6.6 Pole_occipital
- 1732 1219 6192 3.381 0.733 0.147 0.048 34 3.3 Pole_temporal
- 2344 1552 2644 1.935 0.583 0.121 0.032 24 3.0 S_calcarine
- 3423 2281 3424 1.786 0.531 0.114 0.026 23 3.9 S_central
- 1505 1047 2422 2.482 0.451 0.121 0.025 15 1.5 S_cingul-Marginalis
- 812 544 1315 3.096 0.373 0.100 0.019 4 0.6 S_circular_insula_ant
- 1163 763 1778 2.884 0.715 0.080 0.011 4 0.6 S_circular_insula_inf
- 1466 992 2313 2.685 0.428 0.092 0.016 6 1.0 S_circular_insula_sup
- 1645 1141 3021 2.783 0.477 0.107 0.026 17 2.2 S_collat_transv_ant
- 604 395 707 2.103 0.416 0.119 0.028 6 0.6 S_collat_transv_post
- 2296 1584 3532 2.573 0.397 0.122 0.028 25 2.6 S_front_inf
- 3040 2009 5085 2.677 0.474 0.123 0.030 35 4.2 S_front_middle
- 4280 2974 7373 2.755 0.401 0.109 0.024 30 4.4 S_front_sup
- 658 455 958 2.428 0.329 0.122 0.017 5 0.5 S_interm_prim-Jensen
- 4143 2745 5733 2.307 0.381 0.132 0.027 49 4.5 S_intrapariet&P_trans
- 1112 747 1208 1.984 0.461 0.121 0.028 8 1.4 S_oc_middle&Lunatus
- 1376 925 1784 2.148 0.408 0.119 0.022 12 1.2 S_oc_sup&transversal
- 713 481 998 2.244 0.392 0.112 0.019 6 0.5 S_occipital_ant
- 1286 944 2563 2.710 0.580 0.133 0.032 15 1.7 S_oc-temp_lat
- 1841 1285 2859 2.490 0.471 0.106 0.018 12 1.2 S_oc-temp_med&Lingual
- 584 537 1136 2.763 0.454 0.179 0.055 5 1.9 S_orbital_lateral
- 610 439 1159 2.647 0.645 0.118 0.020 4 0.5 S_orbital_med-olfact
- 1891 1326 4034 3.156 0.559 0.134 0.028 21 2.4 S_orbital-H_Shaped
- 2289 1537 3263 2.368 0.437 0.116 0.022 19 2.1 S_parieto_occipital
- 2385 1487 2707 2.251 1.004 0.130 0.027 46 2.3 S_pericallosal
- 3991 2606 5321 2.249 0.421 0.111 0.023 38 3.7 S_postcentral
- 1883 1258 3144 2.742 0.355 0.100 0.019 11 1.4 S_precentral-inf-part
- 2159 1432 2991 2.460 0.491 0.110 0.030 18 3.1 S_precentral-sup-part
- 247 181 421 2.961 0.418 0.140 0.022 2 0.3 S_suborbital
- 1298 879 2029 2.472 0.478 0.106 0.018 8 0.9 S_subparietal
- 1613 1116 2372 2.460 0.424 0.107 0.016 10 1.1 S_temporal_inf
- 7421 5154 12218 2.626 0.420 0.111 0.020 57 6.1 S_temporal_sup
- 488 327 502 1.959 0.287 0.116 0.016 4 0.3 S_temporal_transverse
- PIDs (15639 15642) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Sun Oct 8 02:39:33 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051473 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 02:39:33 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051473 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 15714 of (15714 15717) to complete...
- Waiting for PID 15717 of (15714 15717) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051473 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...
- 1576 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2348 changed, 166125 examined...
- 001: 572 changed, 10878 examined...
- 002: 162 changed, 3175 examined...
- 003: 69 changed, 930 examined...
- 004: 25 changed, 402 examined...
- 005: 17 changed, 154 examined...
- 006: 7 changed, 83 examined...
- 007: 4 changed, 44 examined...
- 008: 6 changed, 24 examined...
- 009: 4 changed, 30 examined...
- 010: 5 changed, 26 examined...
- 011: 4 changed, 19 examined...
- 012: 0 changed, 16 examined...
- 226 labels changed using aseg
- 000: 69 total segments, 36 labels (523 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 9 filter iterations complete (10 requested, 0 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 811 vertices marked for relabeling...
- 811 labels changed in reclassification.
- writing output to ../label/lh.aparc.DKTatlas.annot...
- classification took 0 minutes and 20 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051473 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...
- 1502 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2395 changed, 163844 examined...
- 001: 569 changed, 11055 examined...
- 002: 144 changed, 3171 examined...
- 003: 56 changed, 856 examined...
- 004: 16 changed, 325 examined...
- 005: 14 changed, 94 examined...
- 006: 5 changed, 79 examined...
- 007: 4 changed, 34 examined...
- 008: 1 changed, 28 examined...
- 009: 0 changed, 7 examined...
- 99 labels changed using aseg
- 000: 72 total segments, 39 labels (435 vertices) changed
- 001: 34 total segments, 1 labels (2 vertices) changed
- 002: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 13 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1233 vertices marked for relabeling...
- 1233 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 20 seconds.
- PIDs (15714 15717) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Sun Oct 8 02:39:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0051473 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Sun Oct 8 02:39:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0051473 rh white
- Waiting for PID 15772 of (15772 15775) to complete...
- Waiting for PID 15775 of (15772 15775) 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 0051473 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 303099
- Total vertex volume 299947 (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) = 1703595 mm^3 (det: 1.143526 )
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 2008 1375 4149 2.616 0.763 0.123 0.023 27 1.8 caudalanteriorcingulate
- 3860 2467 7112 2.821 0.479 0.115 0.037 43 5.7 caudalmiddlefrontal
- 3469 2147 4559 2.021 0.552 0.141 0.037 51 5.0 cuneus
- 804 556 2563 3.266 0.872 0.123 0.030 11 1.0 entorhinal
- 5284 3568 10955 2.724 0.604 0.143 0.041 90 8.6 fusiform
- 7511 4765 12979 2.545 0.464 0.126 0.031 103 9.2 inferiorparietal
- 6368 4169 15033 2.948 0.766 0.129 0.040 104 10.9 inferiortemporal
- 1873 1223 2965 2.115 0.762 0.131 0.035 31 2.6 isthmuscingulate
- 9037 5654 12240 2.027 0.640 0.140 0.040 128 14.2 lateraloccipital
- 5048 3509 12351 3.073 0.748 0.146 0.037 89 7.8 lateralorbitofrontal
- 5229 3338 6780 1.981 0.607 0.141 0.043 71 9.1 lingual
- 2205 1502 5437 2.941 0.709 0.123 0.030 34 2.5 medialorbitofrontal
- 6676 4592 15199 2.803 0.658 0.128 0.029 97 7.5 middletemporal
- 1342 865 2821 2.869 0.763 0.112 0.028 16 1.6 parahippocampal
- 3210 1885 5065 2.599 0.528 0.116 0.035 32 4.9 paracentral
- 2804 1868 6007 2.838 0.522 0.118 0.029 38 3.6 parsopercularis
- 1511 997 3230 2.899 0.487 0.108 0.024 17 1.4 parsorbitalis
- 3295 2223 6804 2.818 0.510 0.127 0.026 39 3.5 parstriangularis
- 2320 1467 2164 1.619 0.429 0.141 0.037 29 3.7 pericalcarine
- 10776 6392 14692 2.166 0.630 0.115 0.036 132 17.3 postcentral
- 1872 1273 3357 2.492 0.679 0.143 0.031 30 2.4 posteriorcingulate
- 9754 5732 14991 2.478 0.709 0.118 0.038 120 16.4 precentral
- 6309 4196 11401 2.483 0.443 0.132 0.030 86 7.8 precuneus
- 2490 1649 5541 2.814 0.583 0.123 0.028 46 2.8 rostralanteriorcingulate
- 8040 5227 17225 2.885 0.545 0.124 0.029 101 9.5 rostralmiddlefrontal
- 15954 10354 35963 2.988 0.594 0.130 0.037 212 23.5 superiorfrontal
- 8382 5107 13095 2.359 0.433 0.124 0.032 113 10.3 superiorparietal
- 8888 6159 22066 2.999 0.758 0.120 0.025 112 9.4 superiortemporal
- 7753 4813 14097 2.666 0.514 0.127 0.041 125 12.5 supramarginal
- 1157 722 1942 2.401 0.448 0.110 0.033 13 1.3 transversetemporal
- 3232 2131 7166 3.271 0.774 0.114 0.031 34 3.7 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.DKTatlas.stats -b -a ../label/rh.aparc.DKTatlas.annot -c ../label/aparc.annot.DKTatlas.ctab 0051473 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 304898
- Total vertex volume 300686 (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) = 1703595 mm^3 (det: 1.143526 )
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 2204 1522 4452 2.794 0.779 0.129 0.025 35 2.1 caudalanteriorcingulate
- 5054 3236 9512 2.763 0.490 0.126 0.036 68 7.8 caudalmiddlefrontal
- 2737 1764 3654 1.966 0.516 0.147 0.038 41 4.1 cuneus
- 747 527 3081 3.759 0.706 0.134 0.039 10 1.4 entorhinal
- 4316 3020 8980 2.688 0.541 0.128 0.032 64 5.9 fusiform
- 9345 6130 17121 2.550 0.482 0.130 0.035 135 12.4 inferiorparietal
- 6276 4312 15591 2.962 0.692 0.131 0.039 106 10.5 inferiortemporal
- 1539 1002 2513 2.180 0.812 0.129 0.031 25 1.8 isthmuscingulate
- 8358 5336 12257 2.140 0.733 0.142 0.038 120 13.0 lateraloccipital
- 5379 3651 12706 3.038 0.696 0.139 0.038 86 8.9 lateralorbitofrontal
- 4574 3085 6430 2.019 0.684 0.141 0.037 68 6.8 lingual
- 1825 1322 5016 3.027 0.661 0.139 0.035 31 2.8 medialorbitofrontal
- 7136 4984 17660 2.952 0.707 0.136 0.032 109 9.6 middletemporal
- 1112 717 2194 2.765 0.688 0.112 0.030 12 1.3 parahippocampal
- 3234 2031 5272 2.475 0.502 0.121 0.031 35 4.0 paracentral
- 2981 2059 6685 2.858 0.388 0.123 0.028 41 3.3 parsopercularis
- 1647 1112 4006 3.193 0.610 0.139 0.033 24 2.3 parsorbitalis
- 2744 1906 5311 2.674 0.556 0.147 0.044 45 4.7 parstriangularis
- 2386 1472 2502 1.784 0.531 0.123 0.033 29 3.3 pericalcarine
- 8993 5475 12361 2.134 0.629 0.113 0.030 94 11.8 postcentral
- 2139 1449 4065 2.549 0.643 0.139 0.033 34 2.7 posteriorcingulate
- 9229 5719 15484 2.485 0.651 0.120 0.041 109 16.8 precentral
- 6390 4311 11894 2.534 0.504 0.132 0.033 97 8.3 precuneus
- 1727 1139 3872 3.006 0.587 0.136 0.032 31 2.2 rostralanteriorcingulate
- 7762 5029 15602 2.711 0.539 0.132 0.037 117 12.3 rostralmiddlefrontal
- 17240 11127 35497 2.856 0.628 0.129 0.042 243 30.2 superiorfrontal
- 8587 5339 13691 2.333 0.477 0.131 0.033 125 11.2 superiorparietal
- 8133 5601 18738 2.859 0.711 0.115 0.024 92 8.1 superiortemporal
- 7873 5237 15758 2.755 0.490 0.131 0.030 111 9.4 supramarginal
- 750 463 1196 2.152 0.342 0.104 0.031 10 0.8 transversetemporal
- 3310 2196 7587 3.303 0.793 0.109 0.026 30 3.3 insula
- PIDs (15772 15775) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Sun Oct 8 02:40:58 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- pctsurfcon --s 0051473 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Sun Oct 8 02:40:58 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts
- pctsurfcon --s 0051473 --rh-only
- Waiting for PID 15877 of (15877 15884) to complete...
- Waiting for PID 15884 of (15877 15884) to complete...
- pctsurfcon --s 0051473 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts/pctsurfcon.log
- Sun Oct 8 02:40:58 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-6.0.0/0051473/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-910 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-6.0.0/0051473/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/tmp.pctsurfcon.15877/lh.wm.mgh --regheader 0051473 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/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-6.0.0/0051473/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 = 87093
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/tmp.pctsurfcon.15877/lh.wm.mgh
- Dim: 166125 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/tmp.pctsurfcon.15877/lh.gm.mgh --projfrac 0.3 --regheader 0051473 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/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-6.0.0/0051473/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 = 106294
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/tmp.pctsurfcon.15877/lh.gm.mgh
- Dim: 166125 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/tmp.pctsurfcon.15877/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/tmp.pctsurfcon.15877/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.w-g.pct.mgh --annot 0051473 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/surf/lh.w-g.pct.mgh --annot 0051473 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-910
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/surf/lh.w-g.pct.mgh
- Vertex Area is 0.644532 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 0051473 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/scripts/pctsurfcon.log
- Sun Oct 8 02:40:58 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-6.0.0/0051473/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-910 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-6.0.0/0051473/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/tmp.pctsurfcon.15884/rh.wm.mgh --regheader 0051473 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/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-6.0.0/0051473/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 = 87187
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/tmp.pctsurfcon.15884/rh.wm.mgh
- Dim: 163844 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/tmp.pctsurfcon.15884/rh.gm.mgh --projfrac 0.3 --regheader 0051473 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/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-6.0.0/0051473/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 = 105853
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/tmp.pctsurfcon.15884/rh.gm.mgh
- Dim: 163844 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/tmp.pctsurfcon.15884/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/tmp.pctsurfcon.15884/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.w-g.pct.mgh --annot 0051473 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/surf/rh.w-g.pct.mgh --annot 0051473 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-910
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/surf/rh.w-g.pct.mgh
- Vertex Area is 0.655912 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 (15877 15884) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Sun Oct 8 02:41:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 5414 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 5132 voxels changed to hypointensity...
- 10582 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Sun Oct 8 02:41:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473
- mri_aparc2aseg --s 0051473 --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 02:41:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473
- mri_aparc2aseg --s 0051473 --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 02:41:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473
- mri_aparc2aseg --s 0051473 --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 16055 of (16055 16058 16061) to complete...
- Waiting for PID 16058 of (16055 16058 16061) to complete...
- Waiting for PID 16061 of (16055 16058 16061) to complete...
- mri_aparc2aseg --s 0051473 --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 0051473
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/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-6.0.0/0051473/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 7.98
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 103
- rescaling Left_Cerebral_Cortex from 61 --> 81
- rescaling Left_Lateral_Ventricle from 13 --> 33
- rescaling Left_Inf_Lat_Vent from 34 --> 34
- rescaling Left_Cerebellum_White_Matter from 86 --> 89
- rescaling Left_Cerebellum_Cortex from 60 --> 75
- rescaling Left_Thalamus from 94 --> 101
- rescaling Left_Thalamus_Proper from 84 --> 91
- rescaling Left_Caudate from 75 --> 73
- rescaling Left_Putamen from 80 --> 89
- rescaling Left_Pallidum from 98 --> 95
- rescaling Third_Ventricle from 25 --> 50
- rescaling Fourth_Ventricle from 22 --> 33
- rescaling Brain_Stem from 81 --> 83
- rescaling Left_Hippocampus from 57 --> 72
- rescaling Left_Amygdala from 56 --> 76
- rescaling CSF from 32 --> 72
- rescaling Left_Accumbens_area from 62 --> 67
- rescaling Left_VentralDC from 87 --> 89
- rescaling Right_Cerebral_White_Matter from 105 --> 102
- rescaling Right_Cerebral_Cortex from 58 --> 79
- rescaling Right_Lateral_Ventricle from 13 --> 28
- rescaling Right_Inf_Lat_Vent from 25 --> 29
- rescaling Right_Cerebellum_White_Matter from 87 --> 90
- rescaling Right_Cerebellum_Cortex from 59 --> 74
- rescaling Right_Thalamus_Proper from 85 --> 86
- rescaling Right_Caudate from 62 --> 81
- rescaling Right_Putamen from 80 --> 81
- rescaling Right_Pallidum from 97 --> 92
- rescaling Right_Hippocampus from 53 --> 70
- rescaling Right_Amygdala from 55 --> 72
- rescaling Right_Accumbens_area from 65 --> 80
- rescaling Right_VentralDC from 86 --> 87
- rescaling Fifth_Ventricle from 40 --> 60
- rescaling WM_hypointensities from 78 --> 76
- rescaling non_WM_hypointensities from 40 --> 54
- 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 = 594744
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 158 changed.
- pass 2: 11 changed.
- pass 3: 6 changed.
- pass 4: 3 changed.
- pass 5: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0051473 --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 0051473
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/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-6.0.0/0051473/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 7.98
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 103
- rescaling Left_Cerebral_Cortex from 61 --> 81
- rescaling Left_Lateral_Ventricle from 13 --> 33
- rescaling Left_Inf_Lat_Vent from 34 --> 34
- rescaling Left_Cerebellum_White_Matter from 86 --> 89
- rescaling Left_Cerebellum_Cortex from 60 --> 75
- rescaling Left_Thalamus from 94 --> 101
- rescaling Left_Thalamus_Proper from 84 --> 91
- rescaling Left_Caudate from 75 --> 73
- rescaling Left_Putamen from 80 --> 89
- rescaling Left_Pallidum from 98 --> 95
- rescaling Third_Ventricle from 25 --> 50
- rescaling Fourth_Ventricle from 22 --> 33
- rescaling Brain_Stem from 81 --> 83
- rescaling Left_Hippocampus from 57 --> 72
- rescaling Left_Amygdala from 56 --> 76
- rescaling CSF from 32 --> 72
- rescaling Left_Accumbens_area from 62 --> 67
- rescaling Left_VentralDC from 87 --> 89
- rescaling Right_Cerebral_White_Matter from 105 --> 102
- rescaling Right_Cerebral_Cortex from 58 --> 79
- rescaling Right_Lateral_Ventricle from 13 --> 28
- rescaling Right_Inf_Lat_Vent from 25 --> 29
- rescaling Right_Cerebellum_White_Matter from 87 --> 90
- rescaling Right_Cerebellum_Cortex from 59 --> 74
- rescaling Right_Thalamus_Proper from 85 --> 86
- rescaling Right_Caudate from 62 --> 81
- rescaling Right_Putamen from 80 --> 81
- rescaling Right_Pallidum from 97 --> 92
- rescaling Right_Hippocampus from 53 --> 70
- rescaling Right_Amygdala from 55 --> 72
- rescaling Right_Accumbens_area from 65 --> 80
- rescaling Right_VentralDC from 86 --> 87
- rescaling Fifth_Ventricle from 40 --> 60
- rescaling WM_hypointensities from 78 --> 76
- rescaling non_WM_hypointensities from 40 --> 54
- 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 = 594787
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 158 changed.
- pass 2: 11 changed.
- pass 3: 6 changed.
- pass 4: 3 changed.
- pass 5: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0051473 --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 0051473
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/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-6.0.0/0051473/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 7.98
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 103
- rescaling Left_Cerebral_Cortex from 61 --> 81
- rescaling Left_Lateral_Ventricle from 13 --> 33
- rescaling Left_Inf_Lat_Vent from 34 --> 34
- rescaling Left_Cerebellum_White_Matter from 86 --> 89
- rescaling Left_Cerebellum_Cortex from 60 --> 75
- rescaling Left_Thalamus from 94 --> 101
- rescaling Left_Thalamus_Proper from 84 --> 91
- rescaling Left_Caudate from 75 --> 73
- rescaling Left_Putamen from 80 --> 89
- rescaling Left_Pallidum from 98 --> 95
- rescaling Third_Ventricle from 25 --> 50
- rescaling Fourth_Ventricle from 22 --> 33
- rescaling Brain_Stem from 81 --> 83
- rescaling Left_Hippocampus from 57 --> 72
- rescaling Left_Amygdala from 56 --> 76
- rescaling CSF from 32 --> 72
- rescaling Left_Accumbens_area from 62 --> 67
- rescaling Left_VentralDC from 87 --> 89
- rescaling Right_Cerebral_White_Matter from 105 --> 102
- rescaling Right_Cerebral_Cortex from 58 --> 79
- rescaling Right_Lateral_Ventricle from 13 --> 28
- rescaling Right_Inf_Lat_Vent from 25 --> 29
- rescaling Right_Cerebellum_White_Matter from 87 --> 90
- rescaling Right_Cerebellum_Cortex from 59 --> 74
- rescaling Right_Thalamus_Proper from 85 --> 86
- rescaling Right_Caudate from 62 --> 81
- rescaling Right_Putamen from 80 --> 81
- rescaling Right_Pallidum from 97 --> 92
- rescaling Right_Hippocampus from 53 --> 70
- rescaling Right_Amygdala from 55 --> 72
- rescaling Right_Accumbens_area from 65 --> 80
- rescaling Right_VentralDC from 86 --> 87
- rescaling Fifth_Ventricle from 40 --> 60
- rescaling WM_hypointensities from 78 --> 76
- rescaling non_WM_hypointensities from 40 --> 54
- 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 = 594787
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 158 changed.
- pass 2: 11 changed.
- pass 3: 6 changed.
- pass 4: 3 changed.
- pass 5: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (16055 16058 16061) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Sun Oct 8 02:51:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Sun Oct 8 02:51:06 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-6.0.0/0051473/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-910 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-6.0.0/0051473/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-910
- 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 02:51:06 CEST 2017
- Ended at Sun Oct 8 02:51:13 CEST 2017
- Apas2aseg-Run-Time-Sec 7
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Sun Oct 8 02:51:13 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473
- 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 0051473
- $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 0051473
- sysname Linux
- hostname tars-910
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1703595 mm^3 (det: 1.143526 )
- Computing euler number
- orig.nofix lheno = -176, rheno = -200
- orig.nofix lhholes = 89, rhholes = 101
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 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 02:53:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473
- mri_aparc2aseg --s 0051473 --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 0051473
- 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-6.0.0/0051473/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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-6.0.0/0051473/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 7644 vertices from left hemi
- Ripped 8138 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-6.0.0/0051473/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 = 1083729
- Used brute-force search on 2 voxels
- Fixing Parahip LH WM
- Found 12 clusters
- 0 k 2.000000
- 1 k 1.000000
- 2 k 1.000000
- 3 k 1.000000
- 4 k 1572.000000
- 5 k 1.000000
- 6 k 1.000000
- 7 k 1.000000
- 8 k 1.000000
- 9 k 4.000000
- 10 k 1.000000
- 11 k 4.000000
- Fixing Parahip RH WM
- Found 11 clusters
- 0 k 1.000000
- 1 k 1.000000
- 2 k 1.000000
- 3 k 1.000000
- 4 k 1.000000
- 5 k 2.000000
- 6 k 2.000000
- 7 k 1.000000
- 8 k 1466.000000
- 9 k 37.000000
- 10 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 0051473 --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 0051473 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-910
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1703595 mm^3 (det: 1.143526 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 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-6.0.0/0051473/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Sun Oct 8 03:05:32 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 0051473 --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 0051473 --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 0051473 --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 0051473 --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 0051473 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 17238 of (17238 17244 17248 17255 17261) to complete...
- Waiting for PID 17244 of (17238 17244 17248 17255 17261) to complete...
- Waiting for PID 17248 of (17238 17244 17248 17255 17261) to complete...
- Waiting for PID 17255 of (17238 17244 17248 17255 17261) to complete...
- Waiting for PID 17261 of (17238 17244 17248 17255 17261) 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 1449
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 5578
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 2956
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 10865
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 326
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4403
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 1073
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 7056
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 1373
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 7157
- mri_label2label: Done
- PIDs (17238 17244 17248 17255 17261) 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 0051473 --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 0051473 --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 0051473 --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 0051473 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 17318 of (17318 17324 17329 17334) to complete...
- Waiting for PID 17324 of (17318 17324 17329 17334) to complete...
- Waiting for PID 17329 of (17318 17324 17329 17334) to complete...
- Waiting for PID 17334 of (17318 17324 17329 17334) 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 522
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4592
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 3953
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 17542
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 723
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 4904
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 1513
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 4935
- mri_label2label: Done
- PIDs (17318 17324 17329 17334) 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 0051473 --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 0051473 --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 0051473 --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 0051473 --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 0051473 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 17384 of (17384 17390 17396 17401 17407) to complete...
- Waiting for PID 17390 of (17384 17390 17396 17401 17407) to complete...
- Waiting for PID 17396 of (17384 17390 17396 17401 17407) to complete...
- Waiting for PID 17401 of (17384 17390 17396 17401 17407) to complete...
- Waiting for PID 17407 of (17384 17390 17396 17401 17407) 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 2149
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 6790
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 4177
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 12291
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 634
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 2652
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 348
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1638
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 360
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1559
- mri_label2label: Done
- PIDs (17384 17390 17396 17401 17407) 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 0051473 --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 0051473 --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 0051473 --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 0051473 --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 0051473 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 17468 of (17468 17474 17480 17484 17491) to complete...
- Waiting for PID 17474 of (17468 17474 17480 17484 17491) to complete...
- Waiting for PID 17480 of (17468 17474 17480 17484 17491) to complete...
- Waiting for PID 17484 of (17468 17474 17480 17484 17491) to complete...
- Waiting for PID 17491 of (17468 17474 17480 17484 17491) 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 494
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.thresh.label 1508
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 1172
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 3264
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 93
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1597
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 201
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2197
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 464
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 2783
- mri_label2label: Done
- PIDs (17468 17474 17480 17484 17491) 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 0051473 --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 0051473 --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 0051473 --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 0051473 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 17556 of (17556 17562 17568 17573) to complete...
- Waiting for PID 17562 of (17556 17562 17568 17573) to complete...
- Waiting for PID 17568 of (17556 17562 17568 17573) to complete...
- Waiting for PID 17573 of (17556 17562 17568 17573) 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 188
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1737
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 2075
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 9110
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 299
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 2211
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 673
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1824
- mri_label2label: Done
- PIDs (17556 17562 17568 17573) 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 0051473 --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 0051473 --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 0051473 --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 0051473 --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 0051473 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 17619 of (17619 17626 17632 17638 17643) to complete...
- Waiting for PID 17626 of (17619 17626 17632 17638 17643) to complete...
- Waiting for PID 17632 of (17619 17626 17632 17638 17643) to complete...
- Waiting for PID 17638 of (17619 17626 17632 17638 17643) to complete...
- Waiting for PID 17643 of (17619 17626 17632 17638 17643) 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 1506
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 4911
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 1947
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 5281
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 97
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 610
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 170
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 640
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 166125
- Number of reverse mapping hits = 170
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 620
- mri_label2label: Done
- PIDs (17619 17626 17632 17638 17643) completed and logs appended.
- mris_label2annot --s 0051473 --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-6.0.0/0051473/label
- cmdline mris_label2annot --s 0051473 --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-910
- machine x86_64
- user ntraut
- subject 0051473
- 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-6.0.0/0051473/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 110563 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/label/lh.BA_exvivo.annot
- mris_label2annot --s 0051473 --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-6.0.0/0051473/label
- cmdline mris_label2annot --s 0051473 --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-910
- machine x86_64
- user ntraut
- subject 0051473
- 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-6.0.0/0051473/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 133115 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0051473 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 303099
- Total vertex volume 299947 (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) = 1703595 mm^3 (det: 1.143526 )
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 1855 932 2483 2.156 0.614 0.105 0.033 19 2.5 BA1_exvivo
- 7004 4259 10037 2.333 0.489 0.114 0.035 87 10.7 BA2_exvivo
- 1173 750 979 1.728 0.402 0.146 0.040 13 1.9 BA3a_exvivo
- 3119 1913 3883 1.952 0.708 0.122 0.041 42 6.2 BA3b_exvivo
- 2261 1302 3377 2.497 0.678 0.125 0.043 27 4.6 BA4a_exvivo
- 1624 1019 1825 2.021 0.649 0.120 0.039 24 2.9 BA4p_exvivo
- 13493 8032 26157 2.830 0.624 0.119 0.039 160 21.9 BA6_exvivo
- 2720 1782 5831 2.883 0.530 0.124 0.035 43 4.1 BA44_exvivo
- 4152 2805 8652 2.772 0.530 0.128 0.026 51 4.8 BA45_exvivo
- 4273 2709 4275 1.611 0.466 0.138 0.038 57 6.9 V1_exvivo
- 9738 6074 11842 1.878 0.559 0.145 0.043 143 16.6 V2_exvivo
- 2344 1428 4079 2.449 0.633 0.136 0.043 36 3.9 MT_exvivo
- 853 555 2211 3.033 0.928 0.104 0.030 9 1.1 perirhinal_exvivo
- 953 666 3129 3.393 0.680 0.146 0.037 19 1.4 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 0051473 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 303099
- Total vertex volume 299947 (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) = 1703595 mm^3 (det: 1.143526 )
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 1355 607 1643 2.151 0.591 0.103 0.034 15 1.8 BA1_exvivo
- 3128 1811 4093 2.186 0.423 0.104 0.037 40 5.2 BA2_exvivo
- 998 639 797 1.675 0.412 0.147 0.039 11 1.6 BA3a_exvivo
- 1684 1091 1637 1.501 0.342 0.115 0.040 24 4.0 BA3b_exvivo
- 2192 1269 3041 2.381 0.700 0.117 0.036 22 3.7 BA4a_exvivo
- 1300 840 1456 2.009 0.637 0.123 0.042 21 2.6 BA4p_exvivo
- 7788 4350 13526 2.731 0.638 0.118 0.045 96 15.0 BA6_exvivo
- 1736 1159 3927 2.899 0.505 0.131 0.038 31 2.7 BA44_exvivo
- 1768 1139 4285 3.021 0.529 0.141 0.031 26 2.3 BA45_exvivo
- 4520 2886 4644 1.617 0.469 0.137 0.037 58 7.1 V1_exvivo
- 4985 3083 5218 1.694 0.492 0.153 0.047 81 9.2 V2_exvivo
- 524 353 806 2.329 0.502 0.148 0.039 8 0.7 MT_exvivo
- 473 295 1034 2.769 1.003 0.095 0.027 4 0.5 perirhinal_exvivo
- 559 390 1842 3.371 0.704 0.150 0.042 13 1.0 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Sun Oct 8 03:09:28 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 0051473 --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 0051473 --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 0051473 --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 0051473 --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 0051473 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 17764 of (17764 17770 17776 17781 17788) to complete...
- Waiting for PID 17770 of (17764 17770 17776 17781 17788) to complete...
- Waiting for PID 17776 of (17764 17770 17776 17781 17788) to complete...
- Waiting for PID 17781 of (17764 17770 17776 17781 17788) to complete...
- Waiting for PID 17788 of (17764 17770 17776 17781 17788) 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 751
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 4713
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 1270
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 7957
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 201
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4181
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 444
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 4966
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 1047
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 6794
- mri_label2label: Done
- PIDs (17764 17770 17776 17781 17788) 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 0051473 --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 0051473 --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 0051473 --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 0051473 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 17885 of (17885 17891 17898 17903) to complete...
- Waiting for PID 17891 of (17885 17891 17898 17903) to complete...
- Waiting for PID 17898 of (17885 17891 17898 17903) to complete...
- Waiting for PID 17903 of (17885 17891 17898 17903) 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 407
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 4880
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 3732
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 15988
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 1337
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 8249
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 1922
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 7277
- mri_label2label: Done
- PIDs (17885 17891 17898 17903) 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 0051473 --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 0051473 --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 0051473 --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 0051473 --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 0051473 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 18029 of (18029 18035 18041 18048 18052) to complete...
- Waiting for PID 18035 of (18029 18035 18041 18048 18052) to complete...
- Waiting for PID 18041 of (18029 18035 18041 18048 18052) to complete...
- Waiting for PID 18048 of (18029 18035 18041 18048 18052) to complete...
- Waiting for PID 18052 of (18029 18035 18041 18048 18052) 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 1830
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 6557
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 3009
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 11025
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 615
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.label 2547
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 243
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1281
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 156
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 908
- mri_label2label: Done
- PIDs (18029 18035 18041 18048 18052) 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 0051473 --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 0051473 --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 0051473 --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 0051473 --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 0051473 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 18117 of (18117 18123 18129 18135 18140) to complete...
- Waiting for PID 18123 of (18117 18123 18129 18135 18140) to complete...
- Waiting for PID 18129 of (18117 18123 18129 18135 18140) to complete...
- Waiting for PID 18135 of (18117 18123 18129 18135 18140) to complete...
- Waiting for PID 18140 of (18117 18123 18129 18135 18140) 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 199
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 1075
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 484
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 3172
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 59
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1757
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 179
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2362
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 151
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1539
- mri_label2label: Done
- PIDs (18117 18123 18129 18135 18140) 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 0051473 --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 0051473 --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 0051473 --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 0051473 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 18183 of (18183 18189 18195 18200) to complete...
- Waiting for PID 18189 of (18183 18189 18195 18200) to complete...
- Waiting for PID 18195 of (18183 18189 18195 18200) to complete...
- Waiting for PID 18200 of (18183 18189 18195 18200) 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 104
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1593
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 2227
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 9186
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 245
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1257
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 431
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1609
- mri_label2label: Done
- PIDs (18183 18189 18195 18200) 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 0051473 --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 0051473 --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 0051473 --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 0051473 --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 0051473 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 18247 of (18247 18253 18259 18265 18269) to complete...
- Waiting for PID 18253 of (18247 18253 18259 18265 18269) to complete...
- Waiting for PID 18259 of (18247 18253 18259 18265 18269) to complete...
- Waiting for PID 18265 of (18247 18253 18259 18265 18269) to complete...
- Waiting for PID 18269 of (18247 18253 18259 18265 18269) 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 1274
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 4506
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 1408
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 4845
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 97
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 365
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 172
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.thresh.label 866
- 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 0051473 --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 = 0051473
- 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-6.0.0/0051473/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 163844
- Number of reverse mapping hits = 99
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 390
- mri_label2label: Done
- PIDs (18247 18253 18259 18265 18269) completed and logs appended.
- mris_label2annot --s 0051473 --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-6.0.0/0051473/label
- cmdline mris_label2annot --s 0051473 --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-910
- machine x86_64
- user ntraut
- subject 0051473
- 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-6.0.0/0051473/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 113073 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/label/rh.BA_exvivo.annot
- mris_label2annot --s 0051473 --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-6.0.0/0051473/label
- cmdline mris_label2annot --s 0051473 --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-910
- machine x86_64
- user ntraut
- subject 0051473
- 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-6.0.0/0051473/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 135351 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/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 0051473 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 304898
- Total vertex volume 300686 (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) = 1703595 mm^3 (det: 1.143526 )
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 1261 653 1810 2.216 0.611 0.125 0.042 16 2.5 BA1_exvivo
- 4792 2883 6684 2.280 0.460 0.114 0.029 51 5.7 BA2_exvivo
- 1188 777 979 1.703 0.464 0.133 0.038 11 1.7 BA3a_exvivo
- 2282 1438 2610 1.670 0.545 0.115 0.031 23 3.0 BA3b_exvivo
- 2000 1228 3279 2.389 0.634 0.122 0.036 20 3.3 BA4a_exvivo
- 1417 937 1780 2.082 0.491 0.127 0.033 11 2.1 BA4p_exvivo
- 12207 7526 22302 2.675 0.650 0.126 0.049 171 26.2 BA6_exvivo
- 4103 2829 8990 2.873 0.419 0.119 0.024 49 4.0 BA44_exvivo
- 5442 3772 11581 2.801 0.574 0.146 0.041 88 9.1 BA45_exvivo
- 4220 2681 4691 1.701 0.527 0.122 0.031 47 5.5 V1_exvivo
- 8346 5420 10599 1.903 0.607 0.150 0.043 139 14.3 V2_exvivo
- 2298 1478 3688 2.423 0.463 0.125 0.029 25 2.5 MT_exvivo
- 749 526 2634 3.596 0.666 0.138 0.041 12 1.5 perirhinal_exvivo
- 466 327 1550 3.292 0.739 0.136 0.039 7 0.8 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 0051473 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051473/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 304898
- Total vertex volume 300686 (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) = 1703595 mm^3 (det: 1.143526 )
- lhCtxGM: 297687.827 296979.000 diff= 708.8 pctdiff= 0.238
- rhCtxGM: 298429.418 298054.000 diff= 375.4 pctdiff= 0.126
- lhCtxWM: 245319.068 246814.000 diff=-1494.9 pctdiff=-0.609
- rhCtxWM: 244814.980 246134.000 diff=-1319.0 pctdiff=-0.539
- SubCortGMVol 61206.000
- SupraTentVol 1162461.292 (1159004.000) diff=3457.292 pctdiff=0.297
- SupraTentVolNotVent 1152661.292 (1149204.000) diff=3457.292 pctdiff=0.300
- BrainSegVol 1314567.000 (1311539.000) diff=3028.000 pctdiff=0.230
- BrainSegVolNotVent 1300592.000 (1298793.292) diff=1798.708 pctdiff=0.138
- BrainSegVolNotVent 1300592.000
- CerebellumVol 151319.000
- VentChorVol 9800.000
- 3rd4th5thCSF 4175.000
- CSFVol 1147.000, OptChiasmVol 69.000
- MaskVol 1835269.000
- 902 454 1096 1.975 0.526 0.131 0.043 13 1.8 BA1_exvivo
- 2581 1478 3718 2.359 0.455 0.096 0.025 20 2.9 BA2_exvivo
- 1077 677 804 1.714 0.443 0.134 0.037 11 1.5 BA3a_exvivo
- 1708 1132 1666 1.495 0.399 0.106 0.025 13 1.9 BA3b_exvivo
- 1067 667 1802 2.355 0.681 0.138 0.046 14 2.2 BA4a_exvivo
- 1139 796 1468 2.069 0.503 0.127 0.030 8 1.7 BA4p_exvivo
- 7878 4757 13660 2.580 0.654 0.122 0.051 110 17.8 BA6_exvivo
- 1101 799 2755 2.888 0.409 0.120 0.026 16 1.1 BA44_exvivo
- 1466 975 3484 2.836 0.551 0.153 0.052 30 2.7 BA45_exvivo
- 4059 2555 4349 1.690 0.531 0.120 0.031 45 5.2 V1_exvivo
- 4363 2889 5246 1.732 0.550 0.160 0.047 81 8.7 V2_exvivo
- 342 210 512 2.173 0.605 0.124 0.030 4 0.4 MT_exvivo
- 454 317 1447 3.526 0.649 0.107 0.023 4 0.4 perirhinal_exvivo
- 356 247 1432 3.645 0.714 0.166 0.052 9 1.0 entorhinal_exvivo
- Started at Sat Oct 7 16:18:50 CEST 2017
- Ended at Sun Oct 8 03:13:22 CEST 2017
- #@#%# recon-all-run-time-hours 10.909
- recon-all -s 0051473 finished without error at Sun Oct 8 03:13:22 CEST 2017
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