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|
- Sat Oct 7 16:52:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0051364 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/MaxMun_a/0051364/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0051364
- 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-929 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 51714448 14360360 1738044 0 48845756
- -/+ buffers/cache: 2868692 63206116
- 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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: 2017/10/07-14:52:35-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-929 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-6.0.0/0051364
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/MaxMun_a/0051364/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/MaxMun_a/0051364/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/orig/001.mgz
- $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
- reading from /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/MaxMun_a/0051364/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-6.0.0/0051364/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Sat Oct 7 16:52:38 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/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-6.0.0/0051364/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Sat Oct 7 16:52:47 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/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-929 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 16:52:47 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.15643
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.15643/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.15643/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.15643/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:52:50 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.15643/nu0.mnc ./tmp.mri_nu_correct.mni.15643/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.15643/0/ -iterations 1000 -distance 50
- [ntraut@tars-929:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/] [2017-10-07 16:52:50] 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.15643/0/ ./tmp.mri_nu_correct.mni.15643/nu0.mnc ./tmp.mri_nu_correct.mni.15643/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
- Number of iterations: 42
- CV of field change: 0.000987217
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.15643/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.15643/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.15643/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 16:54:00 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 16:54:00 CEST 2017
- Ended at Sat Oct 7 16:54:38 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Sat Oct 7 16:54:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.6933, pval=0.4932 >= threshold=0.0050)
- awk -f /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/extract_talairach_avi_QA.awk /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/transforms/talairach_avi.log
- TalAviQA: 0.98322
- z-score: 1
- #--------------------------------------------
- #@# Nu Intensity Correction Sat Oct 7 16:54:40 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-6.0.0/0051364/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-929 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 16:54:40 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.16458
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.16458/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.16458/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.16458/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:54:42 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.16458/nu0.mnc ./tmp.mri_nu_correct.mni.16458/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.16458/0/
- [ntraut@tars-929:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/] [2017-10-07 16:54:42] 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.16458/0/ ./tmp.mri_nu_correct.mni.16458/nu0.mnc ./tmp.mri_nu_correct.mni.16458/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 49
- CV of field change: 0.000987299
-
-
- --------------------------------------------------------
- Iteration 2 Sat Oct 7 16:55:36 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.16458/nu1.mnc ./tmp.mri_nu_correct.mni.16458/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.16458/1/
- [ntraut@tars-929:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/] [2017-10-07 16:55:36] 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.16458/1/ ./tmp.mri_nu_correct.mni.16458/nu1.mnc ./tmp.mri_nu_correct.mni.16458/nu2.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 14
- CV of field change: 0.000992468
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.16458/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.16458/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-6.0.0/0051364/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.16458/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.16458/ones.mgz
- sysname Linux
- hostname tars-929
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.16458/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.16458/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.16458/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.16458/sum.junk --avgwf ./tmp.mri_nu_correct.mni.16458/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.16458/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.16458/sum.junk --avgwf ./tmp.mri_nu_correct.mni.16458/input.mean.dat
- sysname Linux
- hostname tars-929
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.16458/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.16458/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.16458/ones.mgz --i ./tmp.mri_nu_correct.mni.16458/nu2.mnc --sum ./tmp.mri_nu_correct.mni.16458/sum.junk --avgwf ./tmp.mri_nu_correct.mni.16458/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.16458/ones.mgz --i ./tmp.mri_nu_correct.mni.16458/nu2.mnc --sum ./tmp.mri_nu_correct.mni.16458/sum.junk --avgwf ./tmp.mri_nu_correct.mni.16458/output.mean.dat
- sysname Linux
- hostname tars-929
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.16458/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.16458/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.16458/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.16458/nu2.mnc ./tmp.mri_nu_correct.mni.16458/nu2.mnc mul 1.01998721647347418245
- Saving result to './tmp.mri_nu_correct.mni.16458/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.16458/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.16458/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.16458/nu2.mnc...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-1, 0, 0)
- j_ras = (0, 0, -1)
- k_ras = (0, 1, 0)
- INFO: transform src into the like-volume: orig.mgz
- writing to nu.mgz...
- mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz
- type change took 0 minutes and 9 seconds.
- mapping (15, 144) to ( 3, 110)
-
-
- Sat Oct 7 16:56:53 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Sat Oct 7 16:56:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri
- mri_normalize -g 1 -mprage nu.mgz T1.mgz
- using max gradient = 1.000
- assuming input volume is MGH (Van der Kouwe) MP-RAGE
- reading from nu.mgz...
- normalizing image...
- talairach transform
- 1.08727 -0.04622 -0.06210 0.65031;
- 0.07639 0.97322 0.22797 -7.63709;
- 0.03301 -0.23087 1.00755 -2.12683;
- 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 = 16
- Starting OpenSpline(): npoints = 16
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Iterating 2 times
- ---------------------------------
- 3d normalization pass 1 of 2
- white matter peak found at 110
- white matter peak found at 104
- gm peak at 65 (65), valley at 31 (31)
- csf peak at 33, setting threshold to 54
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- ---------------------------------
- 3d normalization pass 2 of 2
- white matter peak found at 110
- white matter peak found at 110
- gm peak at 66 (66), valley at 29 (29)
- csf peak at 33, setting threshold to 55
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to T1.mgz
- 3D bias adjustment took 2 minutes and 12 seconds.
- #--------------------------------------------
- #@# Skull Stripping Sat Oct 7 16:59:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mri_em_register.skull.dat -skull nu.mgz /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta
- aligning to atlas containing skull, setting unknown_nbr_spacing = 5
- == Number of threads available to mri_em_register for OpenMP = 2 ==
- reading 1 input volumes...
- logging results to talairach_with_skull.log
- reading '/pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca'...
- average std = 22.9 using min determinant for regularization = 52.6
- 0 singular and 9002 ill-conditioned covariance matrices regularized
- reading 'nu.mgz'...
- freeing gibbs priors...done.
- accounting for voxel sizes in initial transform
- bounding unknown intensity as < 8.7 or > 569.1
- total sample mean = 77.6 (1399 zeros)
- ************************************************
- spacing=8, using 3243 sample points, tol=1.00e-05...
- ************************************************
- register_mri: find_optimal_transform
- find_optimal_transform: nsamples 3243, passno 0, spacing 8
- resetting wm mean[0]: 100 --> 108
- resetting gm mean[0]: 61 --> 61
- input volume #1 is the most T1-like
- using real data threshold=6.0
- skull bounding box = (49, 24, 12) --> (207, 185, 221)
- using (102, 78, 117) as brain centroid...
- mean wm in atlas = 108, using box (83,58,91) --> (121, 97,142) to find MRI wm
- before smoothing, mri peak at 104
- robust fit to distribution - 104 +- 7.8
- after smoothing, mri peak at 104, scaling input intensities by 1.038
- scaling channel 0 by 1.03846
- initial log_p = -4.405
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.287573 @ (-9.091, 9.091, -9.091)
- max log p = -4.218483 @ (4.545, 4.545, 4.545)
- max log p = -4.186959 @ (-2.273, -6.818, -2.273)
- max log p = -4.186959 @ (0.000, 0.000, 0.000)
- max log p = -4.186959 @ (0.000, 0.000, 0.000)
- max log p = -4.186959 @ (0.000, 0.000, 0.000)
- Found translation: (-6.8, 6.8, -6.8): log p = -4.187
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-4.012, old_max_log_p =-4.187 (thresh=-4.2)
- 1.15000 0.00000 0.00000 -26.57220;
- 0.00000 1.11081 0.29764 -28.22601;
- 0.00000 -0.25882 0.96593 32.22648;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-4.012, old_max_log_p =-4.012 (thresh=-4.0)
- 1.15000 0.00000 0.00000 -26.57220;
- 0.00000 1.11081 0.29764 -28.22601;
- 0.00000 -0.25882 0.96593 32.22648;
- 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=-3.858, old_max_log_p =-4.012 (thresh=-4.0)
- 1.10391 -0.04712 0.05450 -18.95650;
- 0.03682 1.10249 0.23122 -28.14983;
- -0.07521 -0.18522 0.98122 31.34740;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.858, old_max_log_p =-3.858 (thresh=-3.9)
- 1.10391 -0.04712 0.05450 -18.95650;
- 0.03682 1.10249 0.23122 -28.14983;
- -0.07521 -0.18522 0.98122 31.34740;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 4 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.848, old_max_log_p =-3.858 (thresh=-3.9)
- 1.10289 -0.03804 0.05626 -20.16958;
- 0.02840 1.10432 0.22271 -25.84046;
- -0.07509 -0.17662 0.98538 29.30137;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.840, old_max_log_p =-3.848 (thresh=-3.8)
- 1.10289 -0.03804 0.05626 -20.16958;
- 0.02847 1.10691 0.22324 -26.23425;
- -0.07482 -0.17600 0.98192 29.58810;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.840, old_max_log_p =-3.840 (thresh=-3.8)
- 1.10289 -0.03804 0.05626 -20.16958;
- 0.02847 1.10691 0.22324 -26.23425;
- -0.07482 -0.17600 0.98192 29.58810;
- 0.00000 0.00000 0.00000 1.00000;
- min search scale 0.025000 reached
- ***********************************************
- Computing MAP estimate using 3243 samples...
- ***********************************************
- dt = 5.00e-06, momentum=0.80, tol=1.00e-05
- l_intensity = 1.0000
- Aligning input volume to GCA...
- Transform matrix
- 1.10289 -0.03804 0.05626 -20.16958;
- 0.02847 1.10691 0.22324 -26.23425;
- -0.07482 -0.17600 0.98192 29.58810;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 1.10289 -0.03804 0.05626 -20.16958;
- 0.02847 1.10691 0.22324 -26.23425;
- -0.07482 -0.17600 0.98192 29.58810;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 009: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.10289 -0.03804 0.05626 -20.16958;
- 0.02847 1.10691 0.22324 -26.23425;
- -0.07482 -0.17600 0.98192 29.58810;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.840 (old=-4.405)
- transform before final EM align:
- 1.10289 -0.03804 0.05626 -20.16958;
- 0.02847 1.10691 0.22324 -26.23425;
- -0.07482 -0.17600 0.98192 29.58810;
- 0.00000 0.00000 0.00000 1.00000;
- **************************************************
- EM alignment process ...
- Computing final MAP estimate using 364799 samples.
- **************************************************
- dt = 5.00e-06, momentum=0.80, tol=1.00e-07
- l_intensity = 1.0000
- Aligning input volume to GCA...
- Transform matrix
- 1.10289 -0.03804 0.05626 -20.16958;
- 0.02847 1.10691 0.22324 -26.23425;
- -0.07482 -0.17600 0.98192 29.58810;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 1.10289 -0.03804 0.05626 -20.16958;
- 0.02847 1.10691 0.22324 -26.23425;
- -0.07482 -0.17600 0.98192 29.58810;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 011: -log(p) = 4.3 tol 0.000000
- final transform:
- 1.10289 -0.03804 0.05626 -20.16958;
- 0.02847 1.10691 0.22324 -26.23425;
- -0.07482 -0.17600 0.98192 29.58810;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 1316.921797
- mri_em_register stimesec 1.982698
- 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 157570
- mri_em_register ru_majflt 0
- mri_em_register ru_nswap 0
- mri_em_register ru_inblock 0
- mri_em_register ru_oublock 32
- mri_em_register ru_msgsnd 0
- mri_em_register ru_msgrcv 0
- mri_em_register ru_nsignals 0
- mri_em_register ru_nvcsw 157
- mri_em_register ru_nivcsw 7822
- registration took 11 minutes and 29 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mri_watershed.dat -T1 -brain_atlas /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz
- Mode: T1 normalized volume
- Mode: Use the information of atlas (default parms, --help for details)
- *********************************************************
- The input file is T1.mgz
- The output file is brainmask.auto.mgz
- Weighting the input with atlas information before watershed
- *************************WATERSHED**************************
- Sorting...
- first estimation of the COG coord: x=128 y=95 z=110 r=72
- first estimation of the main basin volume: 1617873 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 18 found in the rest of the brain
- global maximum in x=108, y=93, z=78, Imax=255
- CSF=17, WM_intensity=110, WM_VARIANCE=5
- WM_MIN=110, WM_HALF_MIN=110, WM_HALF_MAX=110, WM_MAX=110
- preflooding height equal to 10 percent
- done.
- Analyze...
- main basin size=9256908959 voxels, voxel volume =1.000
- = 9256908959 mmm3 = 9256908.800 cm3
- done.
- PostAnalyze...Basin Prior
- 97 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=130,y=107, z=108, r=10360 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=1, CSF_intensity=2, CSF_MAX=44 , nb = 44973
- RIGHT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=41 , nb = -1033550635
- LEFT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=30 , nb = -1046559373
- RIGHT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=43 , nb = -1077215831
- LEFT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=45 , nb = 1064772688
- OTHER CSF_MIN=1, CSF_intensity=9, CSF_MAX=51 , nb = 1079191228
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 44, 37, 34, 58
- after analyzing : 28, 37, 37, 42
- RIGHT_CER
- before analyzing : 41, 51, 59, 88
- after analyzing : 41, 56, 59, 64
- LEFT_CER
- before analyzing : 30, 32, 34, 58
- after analyzing : 30, 33, 34, 39
- RIGHT_BRAIN
- before analyzing : 43, 37, 33, 62
- after analyzing : 27, 37, 37, 43
- LEFT_BRAIN
- before analyzing : 45, 37, 34, 58
- after analyzing : 28, 37, 37, 42
- OTHER
- before analyzing : 51, 40, 34, 58
- after analyzing : 32, 40, 40, 44
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...75 iterations
- *********************VALIDATION*********************
- curvature mean = -0.012, std = 0.011
- curvature mean = 71.054, std = 7.647
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 1.77, sigma = 2.88
- after rotation: sse = 1.77, sigma = 2.88
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 1.90, its var is 3.42
- before Erosion-Dilatation 0.32% 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...50 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1749100 voxels, voxel volume = 1.000 mm3
- = 1749100 mmm3 = 1749.100 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 28.223709
- mri_watershed stimesec 0.404938
- mri_watershed ru_maxrss 823888
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 213302
- mri_watershed ru_majflt 0
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 0
- mri_watershed ru_oublock 3040
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 3947
- mri_watershed ru_nivcsw 301
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Sat Oct 7 17:11:02 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 = (64, 41, 28) --> (195, 177, 201)
- using (108, 86, 115) as brain centroid...
- mean wm in atlas = 107, using box (92,69,94) --> (124, 102,136) to find MRI wm
- before smoothing, mri peak at 104
- robust fit to distribution - 105 +- 7.4
- after smoothing, mri peak at 105, scaling input intensities by 1.019
- scaling channel 0 by 1.01905
- initial log_p = -4.233
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -3.995165 @ (-9.091, 9.091, -9.091)
- max log p = -3.777503 @ (4.545, 4.545, 4.545)
- max log p = -3.777503 @ (0.000, 0.000, 0.000)
- max log p = -3.744760 @ (1.136, 1.136, -3.409)
- max log p = -3.744760 @ (0.000, 0.000, 0.000)
- max log p = -3.744760 @ (0.000, 0.000, 0.000)
- Found translation: (-3.4, 14.8, -8.0): log p = -3.745
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.625, old_max_log_p =-3.745 (thresh=-3.7)
- 1.07500 0.00000 0.00000 -13.17007;
- 0.00000 1.03837 0.27823 -20.78866;
- 0.00000 -0.25882 0.96593 30.46049;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.614, old_max_log_p =-3.625 (thresh=-3.6)
- 1.07500 0.00000 0.00000 -13.17007;
- 0.00000 1.03837 0.27823 -20.78866;
- 0.00000 -0.23941 0.89348 36.08428;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 2 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.614, old_max_log_p =-3.614 (thresh=-3.6)
- 1.07500 0.00000 0.00000 -13.17007;
- 0.00000 1.03837 0.27823 -20.78866;
- 0.00000 -0.23941 0.89348 36.08428;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.2500
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.469, old_max_log_p =-3.614 (thresh=-3.6)
- 1.05145 -0.07245 0.01274 -3.74450;
- 0.06884 1.02916 0.21845 -22.42099;
- -0.03920 -0.17944 0.94277 27.69353;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 4 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.457, old_max_log_p =-3.469 (thresh=-3.5)
- 1.06936 -0.07863 0.04462 -10.73965;
- 0.07009 1.03448 0.18748 -19.80118;
- -0.07131 -0.14322 0.94849 27.41183;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.457, old_max_log_p =-3.457 (thresh=-3.5)
- 1.06936 -0.07863 0.04462 -10.73965;
- 0.07009 1.03448 0.18748 -19.80118;
- -0.07131 -0.14322 0.94849 27.41183;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.427, old_max_log_p =-3.457 (thresh=-3.5)
- 1.07114 -0.07028 0.04633 -12.04305;
- 0.06028 1.03502 0.20308 -20.25352;
- -0.07270 -0.16069 0.94862 29.43154;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 7 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.427, old_max_log_p =-3.427 (thresh=-3.4)
- 1.07114 -0.07028 0.04633 -12.04305;
- 0.06028 1.03502 0.20308 -20.25352;
- -0.07270 -0.16069 0.94862 29.43154;
- 0.00000 0.00000 0.00000 1.00000;
- min search scale 0.025000 reached
- ***********************************************
- Computing MAP estimate using 2830 samples...
- ***********************************************
- dt = 5.00e-06, momentum=0.80, tol=1.00e-05
- l_intensity = 1.0000
- Aligning input volume to GCA...
- Transform matrix
- 1.07114 -0.07028 0.04633 -12.04305;
- 0.06028 1.03502 0.20308 -20.25352;
- -0.07270 -0.16069 0.94862 29.43154;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 1.07114 -0.07028 0.04633 -12.04305;
- 0.06028 1.03502 0.20308 -20.25352;
- -0.07270 -0.16069 0.94862 29.43154;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.07114 -0.07028 0.04633 -12.04305;
- 0.06028 1.03502 0.20308 -20.25352;
- -0.07270 -0.16069 0.94862 29.43154;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.427 (old=-4.233)
- transform before final EM align:
- 1.07114 -0.07028 0.04633 -12.04305;
- 0.06028 1.03502 0.20308 -20.25352;
- -0.07270 -0.16069 0.94862 29.43154;
- 0.00000 0.00000 0.00000 1.00000;
- **************************************************
- EM alignment process ...
- Computing final MAP estimate using 315557 samples.
- **************************************************
- dt = 5.00e-06, momentum=0.80, tol=1.00e-07
- l_intensity = 1.0000
- Aligning input volume to GCA...
- Transform matrix
- 1.07114 -0.07028 0.04633 -12.04305;
- 0.06028 1.03502 0.20308 -20.25352;
- -0.07270 -0.16069 0.94862 29.43154;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 1.07114 -0.07028 0.04633 -12.04305;
- 0.06028 1.03502 0.20308 -20.25352;
- -0.07270 -0.16069 0.94862 29.43154;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 012: -log(p) = 3.9 tol 0.000000
- final transform:
- 1.07114 -0.07028 0.04633 -12.04305;
- 0.06028 1.03502 0.20308 -20.25352;
- -0.07270 -0.16069 0.94862 29.43154;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 1279.957416
- mri_em_register stimesec 1.999696
- 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 158988
- 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 212
- mri_em_register ru_nivcsw 7841
- registration took 10 minutes and 59 seconds.
- #--------------------------------------
- #@# CA Normalize Sat Oct 7 17:22:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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=17.0
- skull bounding box = (64, 41, 28) --> (195, 177, 201)
- using (108, 86, 115) as brain centroid...
- mean wm in atlas = 107, using box (92,69,94) --> (124, 102,136) to find MRI wm
- before smoothing, mri peak at 104
- robust fit to distribution - 105 +- 7.4
- after smoothing, mri peak at 105, scaling input intensities by 1.019
- scaling channel 0 by 1.01905
- using 246344 sample points...
- INFO: compute sample coordinates transform
- 1.07114 -0.07028 0.04633 -12.04305;
- 0.06028 1.03502 0.20308 -20.25352;
- -0.07270 -0.16069 0.94862 29.43154;
- 0.00000 0.00000 0.00000 1.00000;
- INFO: transform used
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (130, 41, 29) --> (194, 151, 201)
- Left_Cerebral_White_Matter: limiting intensities to 98.0 --> 132.0
- 2 of 15 (13.3%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (71, 44, 26) --> (133, 154, 200)
- Right_Cerebral_White_Matter: limiting intensities to 112.0 --> 132.0
- 5 of 8 (62.5%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (136, 129, 58) --> (182, 168, 113)
- Left_Cerebellum_White_Matter: limiting intensities to 121.0 --> 132.0
- 5 of 6 (83.3%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (95, 130, 53) --> (136, 170, 112)
- Right_Cerebellum_White_Matter: limiting intensities to 103.0 --> 132.0
- 1 of 7 (14.3%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (118, 116, 93) --> (151, 184, 125)
- Brain_Stem: limiting intensities to 113.0 --> 132.0
- 17 of 18 (94.4%) samples deleted
- using 54 total control points for intensity normalization...
- bias field = 0.861 +- 0.100
- 0 of 24 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (130, 41, 29) --> (194, 151, 201)
- Left_Cerebral_White_Matter: limiting intensities to 93.0 --> 132.0
- 83 of 145 (57.2%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (71, 44, 26) --> (133, 154, 200)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 32 of 127 (25.2%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (136, 129, 58) --> (182, 168, 113)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 13 of 30 (43.3%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (95, 130, 53) --> (136, 170, 112)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 12 of 13 (92.3%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (118, 116, 93) --> (151, 184, 125)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 45 of 56 (80.4%) samples deleted
- using 371 total control points for intensity normalization...
- bias field = 1.050 +- 0.092
- 0 of 186 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (130, 41, 29) --> (194, 151, 201)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 13 of 221 (5.9%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (71, 44, 26) --> (133, 154, 200)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 3 of 221 (1.4%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (136, 129, 58) --> (182, 168, 113)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 30 of 36 (83.3%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (95, 130, 53) --> (136, 170, 112)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 16 of 22 (72.7%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (118, 116, 93) --> (151, 184, 125)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 96 of 107 (89.7%) samples deleted
- using 607 total control points for intensity normalization...
- bias field = 1.019 +- 0.071
- 0 of 445 control points discarded
- writing normalized volume to norm.mgz...
- writing control points to ctrl_pts.mgz
- freeing GCA...done.
- normalization took 1 minutes and 53 seconds.
- #--------------------------------------
- #@# CA Reg Sat Oct 7 17:23:55 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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) = 1.09 (predicted orig area = 7.3)
- label assignment complete, 0 changed (0.00%)
- freeing gibbs priors...done.
- average std[0] = 5.0
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.039
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.826, neg=0, invalid=762
- 0001: dt=158.322023, rms=0.754 (8.713%), neg=0, invalid=762
- 0002: dt=195.354839, rms=0.736 (2.480%), neg=0, invalid=762
- 0003: dt=164.495868, rms=0.728 (0.963%), neg=0, invalid=762
- 0004: dt=295.936000, rms=0.723 (0.784%), neg=0, invalid=762
- 0005: dt=129.472000, rms=0.718 (0.604%), neg=0, invalid=762
- 0006: dt=517.888000, rms=0.713 (0.710%), neg=0, invalid=762
- 0007: dt=129.472000, rms=0.710 (0.466%), neg=0, invalid=762
- 0008: dt=369.920000, rms=0.708 (0.296%), neg=0, invalid=762
- 0009: dt=129.472000, rms=0.706 (0.286%), neg=0, invalid=762
- 0010: dt=369.920000, rms=0.704 (0.273%), neg=0, invalid=762
- 0011: dt=129.472000, rms=0.702 (0.225%), neg=0, invalid=762
- 0012: dt=129.472000, rms=0.701 (0.134%), neg=0, invalid=762
- 0013: dt=129.472000, rms=0.700 (0.210%), neg=0, invalid=762
- 0014: dt=129.472000, rms=0.698 (0.283%), neg=0, invalid=762
- 0015: dt=129.472000, rms=0.696 (0.283%), neg=0, invalid=762
- 0016: dt=129.472000, rms=0.694 (0.292%), neg=0, invalid=762
- 0017: dt=129.472000, rms=0.692 (0.285%), neg=0, invalid=762
- 0018: dt=129.472000, rms=0.690 (0.221%), neg=0, invalid=762
- 0019: dt=129.472000, rms=0.689 (0.220%), neg=0, invalid=762
- 0020: dt=129.472000, rms=0.688 (0.189%), neg=0, invalid=762
- 0021: dt=129.472000, rms=0.686 (0.197%), neg=0, invalid=762
- 0022: dt=129.472000, rms=0.685 (0.180%), neg=0, invalid=762
- 0023: dt=129.472000, rms=0.684 (0.171%), neg=0, invalid=762
- 0024: dt=129.472000, rms=0.683 (0.173%), neg=0, invalid=762
- 0025: dt=129.472000, rms=0.682 (0.157%), neg=0, invalid=762
- 0026: dt=129.472000, rms=0.681 (0.147%), neg=0, invalid=762
- 0027: dt=129.472000, rms=0.680 (0.139%), neg=0, invalid=762
- 0028: dt=129.472000, rms=0.679 (0.128%), neg=0, invalid=762
- 0029: dt=129.472000, rms=0.678 (0.144%), neg=0, invalid=762
- 0030: dt=129.472000, rms=0.677 (0.114%), neg=0, invalid=762
- 0031: dt=129.472000, rms=0.676 (0.104%), neg=0, invalid=762
- 0032: dt=517.888000, rms=0.676 (0.052%), neg=0, invalid=762
- 0033: dt=517.888000, rms=0.676 (-0.232%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.676, neg=0, invalid=762
- 0034: dt=92.480000, rms=0.676 (0.107%), neg=0, invalid=762
- 0035: dt=129.472000, rms=0.676 (0.020%), neg=0, invalid=762
- 0036: dt=129.472000, rms=0.675 (0.030%), neg=0, invalid=762
- 0037: dt=129.472000, rms=0.675 (0.054%), neg=0, invalid=762
- 0038: dt=129.472000, rms=0.675 (0.065%), neg=0, invalid=762
- 0039: dt=129.472000, rms=0.674 (0.075%), neg=0, invalid=762
- 0040: dt=129.472000, rms=0.674 (0.086%), neg=0, invalid=762
- 0041: dt=129.472000, rms=0.673 (0.089%), neg=0, invalid=762
- 0042: dt=129.472000, rms=0.672 (0.068%), neg=0, invalid=762
- 0043: dt=129.472000, rms=0.672 (0.057%), neg=0, invalid=762
- setting smoothness coefficient to 0.154
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.678, neg=0, invalid=762
- 0044: dt=145.152000, rms=0.671 (0.996%), neg=0, invalid=762
- 0045: dt=497.664000, rms=0.658 (1.863%), neg=0, invalid=762
- 0046: dt=70.956522, rms=0.651 (1.177%), neg=0, invalid=762
- 0047: dt=124.416000, rms=0.649 (0.230%), neg=0, invalid=762
- 0048: dt=124.416000, rms=0.647 (0.339%), neg=0, invalid=762
- 0049: dt=124.416000, rms=0.643 (0.579%), neg=0, invalid=762
- 0050: dt=124.416000, rms=0.640 (0.490%), neg=0, invalid=762
- 0051: dt=124.416000, rms=0.635 (0.773%), neg=0, invalid=762
- 0052: dt=124.416000, rms=0.631 (0.673%), neg=0, invalid=762
- 0053: dt=124.416000, rms=0.628 (0.493%), neg=0, invalid=762
- 0054: dt=124.416000, rms=0.624 (0.655%), neg=0, invalid=762
- 0055: dt=124.416000, rms=0.621 (0.422%), neg=0, invalid=762
- 0056: dt=124.416000, rms=0.619 (0.300%), neg=0, invalid=762
- 0057: dt=124.416000, rms=0.617 (0.407%), neg=0, invalid=762
- 0058: dt=124.416000, rms=0.615 (0.189%), neg=0, invalid=762
- 0059: dt=124.416000, rms=0.614 (0.202%), neg=0, invalid=762
- 0060: dt=124.416000, rms=0.613 (0.222%), neg=0, invalid=762
- 0061: dt=124.416000, rms=0.612 (0.151%), neg=0, invalid=762
- 0062: dt=124.416000, rms=0.611 (0.139%), neg=0, invalid=762
- 0063: dt=124.416000, rms=0.610 (0.171%), neg=0, invalid=762
- 0064: dt=124.416000, rms=0.609 (0.160%), neg=0, invalid=762
- 0065: dt=124.416000, rms=0.608 (0.092%), neg=0, invalid=762
- 0066: dt=124.416000, rms=0.608 (0.093%), neg=0, invalid=762
- 0067: dt=124.416000, rms=0.607 (0.127%), neg=0, invalid=762
- 0068: dt=124.416000, rms=0.607 (0.071%), neg=0, invalid=762
- 0069: dt=124.416000, rms=0.606 (0.071%), neg=0, invalid=762
- 0070: dt=82.944000, rms=0.606 (0.049%), neg=0, invalid=762
- 0071: dt=82.944000, rms=0.606 (-0.016%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.607, neg=0, invalid=762
- 0072: dt=82.944000, rms=0.605 (0.227%), neg=0, invalid=762
- 0073: dt=145.152000, rms=0.604 (0.144%), neg=0, invalid=762
- 0074: dt=145.152000, rms=0.604 (-0.121%), neg=0, invalid=762
- setting smoothness coefficient to 0.588
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.631, neg=0, invalid=762
- 0075: dt=0.600000, rms=0.631 (0.114%), neg=0, invalid=762
- 0076: dt=0.043750, rms=0.631 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.631, neg=0, invalid=762
- 0077: dt=1.600000, rms=0.631 (0.116%), neg=0, invalid=762
- 0078: dt=0.100000, rms=0.631 (-0.002%), neg=0, invalid=762
- setting smoothness coefficient to 2.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.707, neg=0, invalid=762
- 0079: dt=5.602804, rms=0.681 (3.706%), neg=0, invalid=762
- 0080: dt=3.904762, rms=0.679 (0.252%), neg=0, invalid=762
- 0081: dt=2.000000, rms=0.679 (0.023%), neg=0, invalid=762
- 0082: dt=2.000000, rms=0.679 (-0.009%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.680, neg=0, invalid=762
- 0083: dt=0.000000, rms=0.679 (0.087%), neg=0, invalid=762
- 0084: dt=0.000000, rms=0.679 (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=0.735, neg=0, invalid=762
- 0085: dt=0.448000, rms=0.733 (0.197%), neg=0, invalid=762
- 0086: dt=1.024000, rms=0.732 (0.144%), neg=0, invalid=762
- 0087: dt=1.024000, rms=0.730 (0.298%), neg=0, invalid=762
- 0088: dt=1.024000, rms=0.729 (0.205%), neg=0, invalid=762
- 0089: dt=1.024000, rms=0.729 (-0.145%), neg=0, invalid=762
- 0090: dt=1.792000, rms=0.727 (0.161%), neg=0, invalid=762
- 0091: dt=4.096000, rms=0.724 (0.444%), neg=0, invalid=762
- 0092: dt=0.000000, rms=0.724 (0.003%), neg=0, invalid=762
- 0093: dt=0.100000, rms=0.724 (-0.008%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.725, neg=0, invalid=762
- 0094: dt=0.192000, rms=0.724 (0.090%), neg=0, invalid=762
- 0095: dt=0.096000, rms=0.724 (0.002%), neg=0, invalid=762
- 0096: dt=0.096000, rms=0.724 (-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=0.687, neg=0, invalid=762
- 0097: dt=0.867874, rms=0.668 (2.835%), neg=0, invalid=762
- 0098: dt=0.080000, rms=0.667 (0.148%), neg=0, invalid=762
- 0099: dt=0.080000, rms=0.667 (-0.082%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.668, neg=0, invalid=762
- 0100: dt=0.028000, rms=0.667 (0.108%), neg=0, invalid=762
- 0101: dt=0.007000, rms=0.667 (0.001%), neg=0, invalid=762
- 0102: dt=0.007000, rms=0.667 (-0.000%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.08421 (15)
- Left_Lateral_Ventricle (4): linear fit = 0.81 x + 0.0 (1391 voxels, overlap=0.692)
- Left_Lateral_Ventricle (4): linear fit = 0.81 x + 0.0 (1391 voxels, peak = 16), gca=16.3
- gca peak = 0.15565 (16)
- mri peak = 0.09126 (18)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (1215 voxels, overlap=0.923)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (1215 voxels, peak = 17), gca=16.6
- gca peak = 0.26829 (96)
- mri peak = 0.08441 (89)
- Right_Pallidum (52): linear fit = 0.93 x + 0.0 (701 voxels, overlap=0.986)
- Right_Pallidum (52): linear fit = 0.93 x + 0.0 (701 voxels, peak = 89), gca=88.8
- gca peak = 0.20183 (93)
- mri peak = 0.08588 (88)
- Left_Pallidum (13): linear fit = 0.94 x + 0.0 (534 voxels, overlap=0.928)
- Left_Pallidum (13): linear fit = 0.94 x + 0.0 (534 voxels, peak = 87), gca=87.0
- gca peak = 0.21683 (55)
- mri peak = 0.07244 (61)
- Right_Hippocampus (53): linear fit = 1.08 x + 0.0 (570 voxels, overlap=0.940)
- Right_Hippocampus (53): linear fit = 1.08 x + 0.0 (570 voxels, peak = 59), gca=59.1
- gca peak = 0.30730 (58)
- mri peak = 0.08197 (62)
- Left_Hippocampus (17): linear fit = 1.04 x + 0.0 (501 voxels, overlap=0.998)
- Left_Hippocampus (17): linear fit = 1.04 x + 0.0 (501 voxels, peak = 61), gca=60.6
- gca peak = 0.11430 (101)
- mri peak = 0.07368 (107)
- Right_Cerebral_White_Matter (41): linear fit = 1.04 x + 0.0 (47714 voxels, overlap=0.687)
- Right_Cerebral_White_Matter (41): linear fit = 1.04 x + 0.0 (47714 voxels, peak = 106), gca=105.5
- gca peak = 0.12076 (102)
- mri peak = 0.05929 (104)
- Left_Cerebral_White_Matter (2): linear fit = 1.05 x + 0.0 (43938 voxels, overlap=0.780)
- Left_Cerebral_White_Matter (2): linear fit = 1.05 x + 0.0 (43938 voxels, peak = 108), gca=107.6
- gca peak = 0.14995 (59)
- mri peak = 0.03903 (57)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (15297 voxels, overlap=0.997)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (15297 voxels, peak = 60), gca=60.5
- gca peak = 0.15082 (58)
- mri peak = 0.03711 (66)
- Right_Cerebral_Cortex (42): linear fit = 1.10 x + 0.0 (17471 voxels, overlap=0.919)
- Right_Cerebral_Cortex (42): linear fit = 1.10 x + 0.0 (17471 voxels, peak = 64), gca=63.5
- gca peak = 0.14161 (67)
- mri peak = 0.07154 (73)
- Right_Caudate (50): linear fit = 1.03 x + 0.0 (363 voxels, overlap=0.950)
- Right_Caudate (50): linear fit = 1.03 x + 0.0 (363 voxels, peak = 69), gca=69.3
- gca peak = 0.15243 (71)
- mri peak = 0.08010 (73)
- Left_Caudate (11): linear fit = 1.01 x + 0.0 (799 voxels, overlap=0.994)
- Left_Caudate (11): linear fit = 1.01 x + 0.0 (799 voxels, peak = 72), gca=72.1
- gca peak = 0.13336 (57)
- mri peak = 0.03845 (59)
- Left_Cerebellum_Cortex (8): linear fit = 0.99 x + 0.0 (15107 voxels, overlap=0.990)
- Left_Cerebellum_Cortex (8): linear fit = 0.99 x + 0.0 (15107 voxels, peak = 56), gca=56.1
- gca peak = 0.13252 (56)
- mri peak = 0.03954 (61)
- Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (15174 voxels, overlap=0.833)
- Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (15174 voxels, peak = 59), gca=58.5
- gca peak = 0.18181 (84)
- mri peak = 0.05422 (78)
- Left_Cerebellum_White_Matter (7): linear fit = 0.95 x + 0.0 (6063 voxels, overlap=0.922)
- Left_Cerebellum_White_Matter (7): linear fit = 0.95 x + 0.0 (6063 voxels, peak = 80), gca=80.2
- gca peak = 0.20573 (83)
- mri peak = 0.06119 (78)
- Right_Cerebellum_White_Matter (46): linear fit = 0.96 x + 0.0 (4847 voxels, overlap=0.990)
- Right_Cerebellum_White_Matter (46): linear fit = 0.96 x + 0.0 (4847 voxels, peak = 80), gca=80.1
- gca peak = 0.21969 (57)
- mri peak = 0.08577 (62)
- Left_Amygdala (18): linear fit = 1.04 x + 0.0 (297 voxels, overlap=0.999)
- Left_Amygdala (18): linear fit = 1.04 x + 0.0 (297 voxels, peak = 60), gca=59.6
- gca peak = 0.39313 (56)
- mri peak = 0.09827 (58)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (355 voxels, overlap=0.999)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (355 voxels, peak = 59), gca=58.5
- gca peak = 0.14181 (85)
- mri peak = 0.06161 (88)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (3942 voxels, overlap=0.893)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (3942 voxels, peak = 86), gca=86.3
- gca peak = 0.11978 (83)
- mri peak = 0.06661 (88)
- Right_Thalamus_Proper (49): linear fit = 1.03 x + 0.0 (3373 voxels, overlap=0.929)
- Right_Thalamus_Proper (49): linear fit = 1.03 x + 0.0 (3373 voxels, peak = 86), gca=85.9
- gca peak = 0.13399 (79)
- mri peak = 0.05618 (74)
- Left_Putamen (12): linear fit = 0.99 x + 0.0 (1735 voxels, overlap=1.000)
- Left_Putamen (12): linear fit = 0.99 x + 0.0 (1735 voxels, peak = 78), gca=77.8
- gca peak = 0.14159 (79)
- mri peak = 0.05926 (81)
- Right_Putamen (51): linear fit = 1.04 x + 0.0 (1895 voxels, overlap=1.000)
- Right_Putamen (51): linear fit = 1.04 x + 0.0 (1895 voxels, peak = 83), gca=82.6
- gca peak = 0.10025 (80)
- mri peak = 0.14966 (80)
- Brain_Stem (16): linear fit = 1.05 x + 0.0 (8647 voxels, overlap=0.401)
- Brain_Stem (16): linear fit = 1.05 x + 0.0 (8647 voxels, peak = 84), gca=84.4
- gca peak = 0.13281 (86)
- mri peak = 0.07354 (88)
- Right_VentralDC (60): linear fit = 1.04 x + 0.0 (892 voxels, overlap=0.727)
- Right_VentralDC (60): linear fit = 1.04 x + 0.0 (892 voxels, peak = 90), gca=89.9
- gca peak = 0.12801 (89)
- mri peak = 0.07295 (91)
- Left_VentralDC (28): linear fit = 1.01 x + 0.0 (1145 voxels, overlap=0.850)
- Left_VentralDC (28): linear fit = 1.01 x + 0.0 (1145 voxels, peak = 90), gca=90.3
- gca peak = 0.20494 (23)
- mri peak = 0.12778 (15)
- gca peak = 0.15061 (21)
- mri peak = 0.10690 (17)
- Fourth_Ventricle (15): linear fit = 0.75 x + 0.0 (274 voxels, overlap=0.749)
- Fourth_Ventricle (15): linear fit = 0.75 x + 0.0 (274 voxels, peak = 16), gca=15.6
- 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 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 1.05 x + 0.0
- estimating mean wm scale to be 1.05 x + 0.0
- estimating mean csf scale to be 0.86 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=0.685, neg=0, invalid=762
- 0103: dt=92.480000, rms=0.681 (0.596%), neg=0, invalid=762
- 0104: dt=129.472000, rms=0.680 (0.212%), neg=0, invalid=762
- 0105: dt=443.904000, rms=0.677 (0.427%), neg=0, invalid=762
- 0106: dt=295.936000, rms=0.675 (0.310%), neg=0, invalid=762
- 0107: dt=110.976000, rms=0.674 (0.182%), neg=0, invalid=762
- 0108: dt=129.472000, rms=0.673 (0.088%), neg=0, invalid=762
- 0109: dt=369.920000, rms=0.672 (0.122%), neg=0, invalid=762
- 0110: dt=92.480000, rms=0.671 (0.133%), neg=0, invalid=762
- 0111: dt=517.888000, rms=0.670 (0.136%), neg=0, invalid=762
- 0112: dt=92.480000, rms=0.670 (0.124%), neg=0, invalid=762
- 0113: dt=369.920000, rms=0.669 (0.078%), neg=0, invalid=762
- 0114: dt=92.480000, rms=0.669 (0.081%), neg=0, invalid=762
- 0115: dt=517.888000, rms=0.668 (0.090%), neg=0, invalid=762
- 0116: dt=92.480000, rms=0.667 (0.085%), neg=0, invalid=762
- 0117: dt=443.904000, rms=0.667 (0.064%), neg=0, invalid=762
- 0118: dt=92.480000, rms=0.667 (0.064%), neg=0, invalid=762
- 0119: dt=517.888000, rms=0.666 (0.067%), neg=0, invalid=762
- 0120: dt=92.480000, rms=0.666 (0.063%), neg=0, invalid=762
- 0121: dt=517.888000, rms=0.665 (0.067%), neg=0, invalid=762
- 0122: dt=92.480000, rms=0.665 (0.051%), neg=0, invalid=762
- 0123: dt=443.904000, rms=0.665 (0.052%), neg=0, invalid=762
- 0124: dt=92.480000, rms=0.664 (0.041%), neg=0, invalid=762
- 0125: dt=92.480000, rms=0.664 (0.019%), neg=0, invalid=762
- 0126: dt=92.480000, rms=0.664 (0.028%), neg=0, invalid=762
- 0127: dt=92.480000, rms=0.664 (0.039%), neg=0, invalid=762
- 0128: dt=92.480000, rms=0.663 (0.050%), neg=0, invalid=762
- 0129: dt=92.480000, rms=0.663 (0.055%), neg=0, invalid=762
- 0130: dt=92.480000, rms=0.663 (0.066%), neg=0, invalid=762
- 0131: dt=92.480000, rms=0.662 (0.067%), neg=0, invalid=762
- 0132: dt=92.480000, rms=0.662 (0.068%), neg=0, invalid=762
- 0133: dt=92.480000, rms=0.661 (0.065%), neg=0, invalid=762
- 0134: dt=92.480000, rms=0.661 (0.062%), neg=0, invalid=762
- 0135: dt=92.480000, rms=0.660 (0.059%), neg=0, invalid=762
- 0136: dt=92.480000, rms=0.660 (0.059%), neg=0, invalid=762
- 0137: dt=92.480000, rms=0.660 (0.060%), neg=0, invalid=762
- 0138: dt=92.480000, rms=0.659 (0.064%), neg=0, invalid=762
- 0139: dt=92.480000, rms=0.659 (0.064%), neg=0, invalid=762
- 0140: dt=92.480000, rms=0.658 (0.060%), neg=0, invalid=762
- 0141: dt=92.480000, rms=0.658 (0.058%), neg=0, invalid=762
- 0142: dt=92.480000, rms=0.658 (0.053%), neg=0, invalid=762
- 0143: dt=92.480000, rms=0.657 (0.050%), neg=0, invalid=762
- 0144: dt=92.480000, rms=0.657 (0.052%), neg=0, invalid=762
- 0145: dt=92.480000, rms=0.657 (0.053%), neg=0, invalid=762
- 0146: dt=92.480000, rms=0.656 (0.054%), neg=0, invalid=762
- 0147: dt=92.480000, rms=0.656 (0.052%), neg=0, invalid=762
- 0148: dt=92.480000, rms=0.656 (0.051%), neg=0, invalid=762
- 0149: dt=92.480000, rms=0.655 (0.049%), neg=0, invalid=762
- 0150: dt=92.480000, rms=0.655 (0.048%), neg=0, invalid=762
- 0151: dt=92.480000, rms=0.655 (0.049%), neg=0, invalid=762
- 0152: dt=92.480000, rms=0.654 (0.051%), neg=0, invalid=762
- 0153: dt=92.480000, rms=0.654 (0.052%), neg=0, invalid=762
- 0154: dt=92.480000, rms=0.654 (0.046%), neg=0, invalid=762
- 0155: dt=92.480000, rms=0.653 (0.044%), neg=0, invalid=762
- 0156: dt=92.480000, rms=0.653 (0.044%), neg=0, invalid=762
- 0157: dt=92.480000, rms=0.653 (0.042%), neg=0, invalid=762
- 0158: dt=92.480000, rms=0.653 (0.042%), neg=0, invalid=762
- 0159: dt=92.480000, rms=0.652 (0.039%), neg=0, invalid=762
- 0160: dt=92.480000, rms=0.652 (0.038%), neg=0, invalid=762
- 0161: dt=92.480000, rms=0.652 (0.035%), neg=0, invalid=762
- 0162: dt=92.480000, rms=0.652 (0.034%), neg=0, invalid=762
- 0163: dt=92.480000, rms=0.651 (0.035%), neg=0, invalid=762
- 0164: dt=92.480000, rms=0.651 (0.034%), neg=0, invalid=762
- 0165: dt=92.480000, rms=0.651 (0.033%), neg=0, invalid=762
- 0166: dt=92.480000, rms=0.651 (0.032%), neg=0, invalid=762
- 0167: dt=92.480000, rms=0.651 (0.031%), neg=0, invalid=762
- 0168: dt=92.480000, rms=0.650 (0.030%), neg=0, invalid=762
- 0169: dt=92.480000, rms=0.650 (0.029%), neg=0, invalid=762
- 0170: dt=92.480000, rms=0.650 (0.029%), neg=0, invalid=762
- 0171: dt=92.480000, rms=0.650 (0.029%), neg=0, invalid=762
- 0172: dt=92.480000, rms=0.650 (0.029%), neg=0, invalid=762
- 0173: dt=92.480000, rms=0.649 (0.031%), neg=0, invalid=762
- 0174: dt=92.480000, rms=0.649 (0.028%), neg=0, invalid=762
- 0175: dt=92.480000, rms=0.649 (0.027%), neg=0, invalid=762
- 0176: dt=92.480000, rms=0.649 (0.026%), neg=0, invalid=762
- 0177: dt=92.480000, rms=0.649 (0.025%), neg=0, invalid=762
- 0178: dt=92.480000, rms=0.649 (0.026%), neg=0, invalid=762
- 0179: dt=92.480000, rms=0.648 (0.025%), neg=0, invalid=762
- 0180: dt=92.480000, rms=0.648 (0.025%), neg=0, invalid=762
- 0181: dt=92.480000, rms=0.648 (0.026%), neg=0, invalid=762
- 0182: dt=92.480000, rms=0.648 (0.025%), neg=0, invalid=762
- 0183: dt=92.480000, rms=0.648 (0.023%), neg=0, invalid=762
- 0184: dt=2071.552000, rms=0.648 (0.026%), neg=0, invalid=762
- 0185: dt=129.472000, rms=0.647 (0.013%), neg=0, invalid=762
- 0186: dt=129.472000, rms=0.647 (0.012%), neg=0, invalid=762
- 0187: dt=129.472000, rms=0.647 (0.009%), neg=0, invalid=762
- 0188: dt=129.472000, rms=0.647 (0.008%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.648, neg=0, invalid=762
- 0189: dt=92.480000, rms=0.647 (0.142%), neg=0, invalid=762
- 0190: dt=295.936000, rms=0.647 (0.065%), neg=0, invalid=762
- 0191: dt=517.888000, rms=0.645 (0.174%), neg=0, invalid=762
- 0192: dt=13.872000, rms=0.646 (-0.006%), neg=0, invalid=762
- 0193: dt=13.872000, rms=0.646 (0.001%), neg=0, invalid=762
- 0194: dt=13.872000, rms=0.646 (-0.001%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.647, neg=0, invalid=762
- 0195: dt=145.152000, rms=0.642 (0.894%), neg=0, invalid=762
- 0196: dt=145.152000, rms=0.635 (0.981%), neg=0, invalid=762
- 0197: dt=2.268000, rms=0.635 (0.004%), neg=0, invalid=762
- 0198: dt=0.070875, rms=0.635 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.636, neg=0, invalid=762
- 0199: dt=124.416000, rms=0.632 (0.634%), neg=0, invalid=762
- 0200: dt=119.652174, rms=0.628 (0.674%), neg=0, invalid=762
- 0201: dt=66.580645, rms=0.626 (0.290%), neg=0, invalid=762
- 0202: dt=580.608000, rms=0.616 (1.567%), neg=0, invalid=762
- 0203: dt=36.288000, rms=0.615 (0.262%), neg=0, invalid=762
- 0204: dt=82.944000, rms=0.614 (0.147%), neg=0, invalid=762
- 0205: dt=145.152000, rms=0.611 (0.354%), neg=0, invalid=762
- 0206: dt=36.288000, rms=0.611 (0.084%), neg=0, invalid=762
- 0207: dt=331.776000, rms=0.609 (0.282%), neg=0, invalid=762
- 0208: dt=68.995122, rms=0.607 (0.412%), neg=0, invalid=762
- 0209: dt=103.680000, rms=0.606 (0.101%), neg=0, invalid=762
- 0210: dt=145.152000, rms=0.605 (0.235%), neg=0, invalid=762
- 0211: dt=36.288000, rms=0.604 (0.095%), neg=0, invalid=762
- 0212: dt=145.152000, rms=0.603 (0.126%), neg=0, invalid=762
- 0213: dt=124.416000, rms=0.602 (0.203%), neg=0, invalid=762
- 0214: dt=36.288000, rms=0.602 (0.070%), neg=0, invalid=762
- 0215: dt=248.832000, rms=0.601 (0.156%), neg=0, invalid=762
- 0216: dt=74.322581, rms=0.599 (0.221%), neg=0, invalid=762
- 0217: dt=82.944000, rms=0.599 (0.065%), neg=0, invalid=762
- 0218: dt=145.152000, rms=0.598 (0.175%), neg=0, invalid=762
- 0219: dt=62.208000, rms=0.598 (0.056%), neg=0, invalid=762
- 0220: dt=580.608000, rms=0.595 (0.376%), neg=0, invalid=762
- 0221: dt=36.288000, rms=0.594 (0.194%), neg=0, invalid=762
- 0222: dt=82.944000, rms=0.594 (0.069%), neg=0, invalid=762
- 0223: dt=145.152000, rms=0.593 (0.115%), neg=0, invalid=762
- 0224: dt=36.288000, rms=0.593 (0.050%), neg=0, invalid=762
- 0225: dt=331.776000, rms=0.592 (0.125%), neg=0, invalid=762
- 0226: dt=36.288000, rms=0.591 (0.140%), neg=0, invalid=762
- 0227: dt=145.152000, rms=0.591 (0.094%), neg=0, invalid=762
- 0228: dt=36.288000, rms=0.590 (0.047%), neg=0, invalid=762
- 0229: dt=36.288000, rms=0.590 (0.027%), neg=0, invalid=762
- 0230: dt=36.288000, rms=0.590 (0.044%), neg=0, invalid=762
- 0231: dt=36.288000, rms=0.590 (0.066%), neg=0, invalid=762
- 0232: dt=36.288000, rms=0.589 (0.093%), neg=0, invalid=762
- 0233: dt=36.288000, rms=0.588 (0.107%), neg=0, invalid=762
- 0234: dt=36.288000, rms=0.588 (0.114%), neg=0, invalid=762
- 0235: dt=36.288000, rms=0.587 (0.122%), neg=0, invalid=762
- 0236: dt=36.288000, rms=0.586 (0.126%), neg=0, invalid=762
- 0237: dt=36.288000, rms=0.586 (0.129%), neg=0, invalid=762
- 0238: dt=36.288000, rms=0.585 (0.135%), neg=0, invalid=762
- 0239: dt=36.288000, rms=0.584 (0.141%), neg=0, invalid=762
- 0240: dt=36.288000, rms=0.583 (0.137%), neg=0, invalid=762
- 0241: dt=36.288000, rms=0.582 (0.137%), neg=0, invalid=762
- 0242: dt=36.288000, rms=0.582 (0.136%), neg=0, invalid=762
- 0243: dt=36.288000, rms=0.581 (0.133%), neg=0, invalid=762
- 0244: dt=36.288000, rms=0.580 (0.131%), neg=0, invalid=762
- 0245: dt=36.288000, rms=0.579 (0.127%), neg=0, invalid=762
- 0246: dt=36.288000, rms=0.579 (0.012%), neg=0, invalid=762
- 0247: dt=36.288000, rms=0.579 (0.023%), neg=0, invalid=762
- 0248: dt=36.288000, rms=0.579 (0.034%), neg=0, invalid=762
- 0249: dt=36.288000, rms=0.579 (0.041%), neg=0, invalid=762
- 0250: dt=36.288000, rms=0.578 (0.046%), neg=0, invalid=762
- 0251: dt=36.288000, rms=0.578 (0.011%), neg=0, invalid=762
- 0252: dt=36.288000, rms=0.578 (0.011%), neg=0, invalid=762
- 0253: dt=9.072000, rms=0.578 (0.003%), neg=0, invalid=762
- 0254: dt=4.536000, rms=0.578 (0.001%), neg=0, invalid=762
- 0255: dt=0.567000, rms=0.578 (0.000%), neg=0, invalid=762
- 0256: dt=0.141750, rms=0.578 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.585, neg=0, invalid=762
- 0257: dt=0.002734, rms=0.584 (0.153%), neg=0, invalid=762
- 0258: dt=0.000000, rms=0.584 (0.000%), neg=0, invalid=762
- 0259: dt=0.000122, rms=0.584 (0.000%), neg=0, invalid=762
- 0260: dt=0.000015, rms=0.584 (0.000%), neg=0, invalid=762
- 0261: dt=0.000002, rms=0.584 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.585, neg=0, invalid=762
- 0262: dt=0.000000, rms=0.584 (0.153%), neg=0, invalid=762
- 0263: dt=0.000000, rms=0.584 (0.000%), neg=0, invalid=762
- 0264: dt=0.000001, rms=0.584 (-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=0.604, neg=0, invalid=762
- 0265: dt=0.000000, rms=0.604 (0.144%), neg=0, invalid=762
- 0266: dt=0.000000, rms=0.604 (0.000%), neg=0, invalid=762
- 0267: dt=0.000000, rms=0.604 (0.000%), neg=0, invalid=762
- 0268: dt=0.000000, rms=0.604 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.604, neg=0, invalid=762
- 0269: dt=0.000000, rms=0.604 (0.144%), neg=0, invalid=762
- 0270: dt=0.000000, rms=0.604 (0.000%), neg=0, invalid=762
- 0271: dt=0.000000, rms=0.604 (-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=0.643, neg=0, invalid=762
- 0272: dt=1.792000, rms=0.626 (2.651%), neg=0, invalid=762
- 0273: dt=1.792000, rms=0.618 (1.414%), neg=0, invalid=762
- 0274: dt=1.792000, rms=0.613 (0.792%), neg=0, invalid=762
- 0275: dt=1.792000, rms=0.610 (0.456%), neg=0, invalid=762
- 0276: dt=3.357143, rms=0.607 (0.459%), neg=0, invalid=762
- 0277: dt=1.792000, rms=0.607 (0.085%), neg=0, invalid=762
- 0278: dt=1.792000, rms=0.606 (0.061%), neg=0, invalid=762
- 0279: dt=5.120000, rms=0.606 (0.089%), neg=0, invalid=762
- 0280: dt=1.024000, rms=0.606 (0.003%), neg=0, invalid=762
- 0281: dt=1.024000, rms=0.606 (0.002%), neg=0, invalid=762
- 0282: dt=1.024000, rms=0.606 (-0.003%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.606, neg=0, invalid=762
- 0283: dt=6.220408, rms=0.601 (0.891%), neg=0, invalid=762
- 0284: dt=0.448000, rms=0.601 (0.001%), neg=0, invalid=762
- 0285: dt=0.448000, rms=0.601 (0.002%), neg=0, invalid=762
- 0286: dt=0.448000, rms=0.601 (-0.002%), 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=0.577, neg=0, invalid=762
- 0287: dt=0.448000, rms=0.559 (3.055%), neg=0, invalid=762
- 0288: dt=0.448000, rms=0.554 (0.958%), neg=0, invalid=762
- 0289: dt=0.448000, rms=0.550 (0.550%), neg=0, invalid=762
- 0290: dt=0.448000, rms=0.548 (0.367%), neg=0, invalid=762
- 0291: dt=0.448000, rms=0.547 (0.269%), neg=0, invalid=762
- 0292: dt=0.448000, rms=0.546 (0.214%), neg=0, invalid=762
- 0293: dt=0.448000, rms=0.545 (0.168%), neg=0, invalid=762
- 0294: dt=0.448000, rms=0.544 (0.139%), neg=0, invalid=762
- 0295: dt=0.448000, rms=0.544 (0.118%), neg=0, invalid=762
- 0296: dt=0.448000, rms=0.543 (0.099%), neg=0, invalid=762
- 0297: dt=0.448000, rms=0.542 (0.089%), neg=0, invalid=762
- 0298: dt=0.448000, rms=0.542 (0.073%), neg=0, invalid=762
- 0299: dt=0.448000, rms=0.542 (0.070%), neg=0, invalid=762
- 0300: dt=0.448000, rms=0.541 (0.057%), neg=0, invalid=762
- 0301: dt=0.448000, rms=0.541 (0.053%), neg=0, invalid=762
- 0302: dt=0.448000, rms=0.541 (0.045%), neg=0, invalid=762
- 0303: dt=0.448000, rms=0.541 (0.047%), neg=0, invalid=762
- 0304: dt=0.448000, rms=0.540 (0.071%), neg=0, invalid=762
- 0305: dt=0.448000, rms=0.540 (0.095%), neg=0, invalid=762
- 0306: dt=0.448000, rms=0.539 (0.108%), neg=0, invalid=762
- 0307: dt=0.448000, rms=0.539 (0.105%), neg=0, invalid=762
- 0308: dt=0.448000, rms=0.539 (-0.001%), neg=0, invalid=762
- 0309: dt=0.320000, rms=0.539 (0.002%), neg=0, invalid=762
- 0310: dt=0.448000, rms=0.539 (0.009%), neg=0, invalid=762
- 0311: dt=0.320000, rms=0.539 (0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.539, neg=0, invalid=762
- 0312: dt=0.448000, rms=0.533 (1.255%), neg=0, invalid=762
- 0313: dt=0.448000, rms=0.532 (0.076%), neg=0, invalid=762
- 0314: dt=0.448000, rms=0.532 (0.014%), neg=0, invalid=762
- 0315: dt=0.448000, rms=0.532 (-0.021%), 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=0.530, neg=0, invalid=762
- 0316: dt=2.023000, rms=0.529 (0.157%), neg=0, invalid=762
- 0317: dt=0.505750, rms=0.529 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.530, neg=0, invalid=762
- 0318: dt=92.480000, rms=0.529 (0.173%), neg=0, invalid=762
- 0319: dt=295.936000, rms=0.528 (0.080%), neg=0, invalid=762
- 0320: dt=295.936000, rms=0.528 (-0.986%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.529, neg=0, invalid=762
- 0321: dt=36.288000, rms=0.527 (0.345%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0322: dt=36.288000, rms=0.527 (0.108%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0323: dt=36.288000, rms=0.526 (0.071%), neg=0, invalid=762
- 0324: dt=36.288000, rms=0.526 (0.028%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0325: dt=36.288000, rms=0.526 (-0.087%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.527, neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 1 iterations, nbhd size=0, neg = 0
- 0326: dt=83.567816, rms=0.523 (0.700%), neg=0, invalid=762
- 0327: dt=64.407643, rms=0.522 (0.294%), neg=0, invalid=762
- 0328: dt=36.288000, rms=0.521 (0.076%), neg=0, invalid=762
- 0329: dt=36.288000, rms=0.521 (0.085%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0330: dt=36.288000, rms=0.520 (0.123%), neg=0, invalid=762
- 0331: dt=36.288000, rms=0.520 (0.135%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0332: dt=36.288000, rms=0.519 (0.138%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0333: dt=36.288000, rms=0.518 (0.151%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0334: dt=36.288000, rms=0.517 (0.139%), neg=0, invalid=762
- 0335: dt=36.288000, rms=0.517 (0.109%), neg=0, invalid=762
- 0336: dt=36.288000, rms=0.516 (0.100%), neg=0, invalid=762
- 0337: dt=124.416000, rms=0.516 (0.055%), neg=0, invalid=762
- 0338: dt=124.416000, rms=0.516 (-0.330%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.517, neg=0, invalid=762
- iter 0, gcam->neg = 22
- after 11 iterations, nbhd size=1, neg = 0
- 0339: dt=44.800000, rms=0.512 (1.034%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 8 iterations, nbhd size=1, neg = 0
- 0340: dt=52.607330, rms=0.508 (0.713%), neg=0, invalid=762
- iter 0, gcam->neg = 10
- after 10 iterations, nbhd size=1, neg = 0
- 0341: dt=32.000000, rms=0.506 (0.446%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 7 iterations, nbhd size=1, neg = 0
- 0342: dt=38.400000, rms=0.504 (0.325%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 2 iterations, nbhd size=0, neg = 0
- 0343: dt=32.000000, rms=0.503 (0.237%), neg=0, invalid=762
- 0344: dt=32.000000, rms=0.502 (0.216%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 0 iterations, nbhd size=0, neg = 0
- 0345: dt=32.000000, rms=0.500 (0.345%), neg=0, invalid=762
- iter 0, gcam->neg = 13
- after 8 iterations, nbhd size=1, neg = 0
- 0346: dt=32.000000, rms=0.499 (0.348%), neg=0, invalid=762
- iter 0, gcam->neg = 18
- after 11 iterations, nbhd size=1, neg = 0
- 0347: dt=32.000000, rms=0.496 (0.467%), neg=0, invalid=762
- iter 0, gcam->neg = 16
- after 9 iterations, nbhd size=1, neg = 0
- 0348: dt=32.000000, rms=0.495 (0.264%), neg=0, invalid=762
- iter 0, gcam->neg = 25
- after 13 iterations, nbhd size=1, neg = 0
- 0349: dt=32.000000, rms=0.493 (0.330%), neg=0, invalid=762
- iter 0, gcam->neg = 15
- after 11 iterations, nbhd size=1, neg = 0
- 0350: dt=32.000000, rms=0.492 (0.219%), neg=0, invalid=762
- iter 0, gcam->neg = 15
- after 13 iterations, nbhd size=1, neg = 0
- 0351: dt=32.000000, rms=0.491 (0.349%), neg=0, invalid=762
- iter 0, gcam->neg = 15
- after 8 iterations, nbhd size=0, neg = 0
- 0352: dt=32.000000, rms=0.490 (0.188%), neg=0, invalid=762
- iter 0, gcam->neg = 11
- after 10 iterations, nbhd size=1, neg = 0
- 0353: dt=32.000000, rms=0.489 (0.176%), neg=0, invalid=762
- iter 0, gcam->neg = 19
- after 13 iterations, nbhd size=1, neg = 0
- 0354: dt=32.000000, rms=0.488 (0.156%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 1 iterations, nbhd size=0, neg = 0
- 0355: dt=32.000000, rms=0.487 (0.202%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 2 iterations, nbhd size=0, neg = 0
- 0356: dt=32.000000, rms=0.486 (0.131%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 2 iterations, nbhd size=0, neg = 0
- 0357: dt=32.000000, rms=0.486 (0.123%), neg=0, invalid=762
- iter 0, gcam->neg = 11
- after 4 iterations, nbhd size=0, neg = 0
- 0358: dt=32.000000, rms=0.485 (0.137%), neg=0, invalid=762
- iter 0, gcam->neg = 21
- after 10 iterations, nbhd size=1, neg = 0
- 0359: dt=32.000000, rms=0.484 (0.181%), neg=0, invalid=762
- iter 0, gcam->neg = 24
- after 17 iterations, nbhd size=1, neg = 0
- 0360: dt=32.000000, rms=0.484 (0.027%), neg=0, invalid=762
- iter 0, gcam->neg = 27
- after 5 iterations, nbhd size=0, neg = 0
- 0361: dt=32.000000, rms=0.484 (0.046%), neg=0, invalid=762
- iter 0, gcam->neg = 18
- after 12 iterations, nbhd size=1, neg = 0
- 0362: dt=32.000000, rms=0.484 (0.017%), neg=0, invalid=762
- 0363: dt=19.200000, rms=0.483 (0.165%), neg=0, invalid=762
- 0364: dt=25.600000, rms=0.483 (0.044%), neg=0, invalid=762
- 0365: dt=25.600000, rms=0.483 (0.045%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0366: dt=25.600000, rms=0.482 (0.036%), neg=0, invalid=762
- 0367: dt=25.600000, rms=0.482 (0.022%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.483, neg=0, invalid=762
- 0368: dt=44.800000, rms=0.480 (0.787%), neg=0, invalid=762
- 0369: dt=25.600000, rms=0.479 (0.198%), neg=0, invalid=762
- 0370: dt=25.600000, rms=0.478 (0.194%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0371: dt=25.600000, rms=0.477 (0.120%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0372: dt=25.600000, rms=0.477 (0.108%), neg=0, invalid=762
- 0373: dt=11.200000, rms=0.476 (0.051%), neg=0, invalid=762
- 0374: dt=11.200000, rms=0.476 (0.018%), neg=0, invalid=762
- 0375: dt=11.200000, rms=0.476 (0.027%), neg=0, invalid=762
- 0376: dt=11.200000, rms=0.476 (0.039%), neg=0, invalid=762
- 0377: dt=11.200000, rms=0.476 (0.046%), neg=0, invalid=762
- 0378: dt=11.200000, rms=0.476 (0.043%), neg=0, invalid=762
- 0379: dt=11.200000, rms=0.475 (0.041%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.490, neg=0, invalid=762
- 0380: dt=0.000000, rms=0.489 (0.192%), neg=0, invalid=762
- 0381: dt=0.000000, rms=0.489 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.490, neg=0, invalid=762
- 0382: dt=2.100000, rms=0.489 (0.225%), neg=0, invalid=762
- 0383: dt=0.720000, rms=0.489 (0.000%), neg=0, invalid=762
- 0384: dt=0.720000, rms=0.489 (-0.003%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.514, neg=0, invalid=762
- 0385: dt=1.536000, rms=0.509 (0.872%), neg=0, invalid=762
- 0386: dt=0.448000, rms=0.509 (0.044%), neg=0, invalid=762
- 0387: dt=0.448000, rms=0.509 (0.010%), neg=0, invalid=762
- 0388: dt=0.448000, rms=0.509 (-0.068%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.510, neg=0, invalid=762
- 0389: dt=1.536000, rms=0.508 (0.401%), neg=0, invalid=762
- 0390: dt=0.768000, rms=0.507 (0.029%), neg=0, invalid=762
- 0391: dt=0.768000, rms=0.507 (-0.002%), 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=0.492, neg=0, invalid=762
- iter 0, gcam->neg = 970
- after 13 iterations, nbhd size=1, neg = 0
- 0392: dt=2.475429, rms=0.456 (7.307%), neg=0, invalid=762
- 0393: dt=0.112000, rms=0.455 (0.222%), neg=0, invalid=762
- 0394: dt=0.112000, rms=0.455 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.456, neg=0, invalid=762
- 0395: dt=0.112000, rms=0.455 (0.378%), neg=0, invalid=762
- 0396: dt=0.028000, rms=0.455 (0.014%), neg=0, invalid=762
- 0397: dt=0.028000, rms=0.455 (0.001%), neg=0, invalid=762
- 0398: dt=0.028000, rms=0.455 (-0.022%), 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=0.439, neg=0, invalid=762
- 0399: dt=0.000000, rms=0.439 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.439, neg=0, invalid=762
- 0400: dt=73.984000, rms=0.439 (0.026%), neg=0, invalid=762
- 0401: dt=129.472000, rms=0.439 (0.016%), neg=0, invalid=762
- 0402: dt=129.472000, rms=0.439 (0.002%), neg=0, invalid=762
- 0403: dt=129.472000, rms=0.439 (0.008%), neg=0, invalid=762
- 0404: dt=129.472000, rms=0.439 (0.006%), neg=0, invalid=762
- 0405: dt=129.472000, rms=0.439 (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=0.439, neg=0, invalid=762
- 0406: dt=0.567000, rms=0.439 (0.000%), neg=0, invalid=762
- 0407: dt=0.001582, rms=0.439 (0.000%), neg=0, invalid=762
- 0408: dt=0.001582, rms=0.439 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.439, neg=0, invalid=762
- 0409: dt=145.152000, rms=0.438 (0.136%), neg=0, invalid=762
- 0410: dt=124.416000, rms=0.438 (0.052%), neg=0, invalid=762
- 0411: dt=124.416000, rms=0.438 (0.033%), neg=0, invalid=762
- 0412: dt=124.416000, rms=0.438 (0.055%), neg=0, invalid=762
- 0413: dt=124.416000, rms=0.437 (0.060%), neg=0, invalid=762
- 0414: dt=124.416000, rms=0.437 (0.044%), neg=0, invalid=762
- 0415: dt=124.416000, rms=0.437 (0.005%), 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
- 0416: dt=11.200000, rms=0.437 (0.133%), neg=0, invalid=762
- 0417: dt=11.200000, rms=0.437 (0.053%), neg=0, invalid=762
- 0418: dt=11.200000, rms=0.437 (0.025%), neg=0, invalid=762
- 0419: dt=11.200000, rms=0.437 (-0.022%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.437, neg=0, invalid=762
- 0420: dt=77.252525, rms=0.433 (0.890%), neg=0, invalid=762
- 0421: dt=32.000000, rms=0.431 (0.437%), neg=0, invalid=762
- 0422: dt=44.800000, rms=0.430 (0.171%), neg=0, invalid=762
- 0423: dt=44.800000, rms=0.430 (0.189%), neg=0, invalid=762
- 0424: dt=44.800000, rms=0.428 (0.305%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 2 iterations, nbhd size=0, neg = 0
- 0425: dt=44.800000, rms=0.427 (0.237%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 2 iterations, nbhd size=0, neg = 0
- 0426: dt=44.800000, rms=0.426 (0.396%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 2 iterations, nbhd size=0, neg = 0
- 0427: dt=44.800000, rms=0.425 (0.247%), neg=0, invalid=762
- iter 0, gcam->neg = 9
- after 1 iterations, nbhd size=0, neg = 0
- 0428: dt=44.800000, rms=0.424 (0.212%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 1 iterations, nbhd size=0, neg = 0
- 0429: dt=44.800000, rms=0.423 (0.188%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 8 iterations, nbhd size=1, neg = 0
- 0430: dt=44.800000, rms=0.422 (0.184%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 8 iterations, nbhd size=1, neg = 0
- 0431: dt=44.800000, rms=0.422 (0.121%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 7 iterations, nbhd size=1, neg = 0
- 0432: dt=44.800000, rms=0.421 (0.045%), neg=0, invalid=762
- 0433: dt=32.000000, rms=0.421 (0.067%), neg=0, invalid=762
- 0434: dt=11.200000, rms=0.421 (0.006%), neg=0, invalid=762
- 0435: dt=11.200000, rms=0.421 (0.002%), neg=0, invalid=762
- 0436: dt=11.200000, rms=0.421 (0.001%), neg=0, invalid=762
- 0437: dt=11.200000, rms=0.421 (0.002%), neg=0, invalid=762
- 0438: dt=11.200000, rms=0.421 (0.006%), neg=0, invalid=762
- 0439: dt=11.200000, rms=0.421 (0.008%), neg=0, invalid=762
- 0440: dt=11.200000, rms=0.421 (0.006%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.427, neg=0, invalid=762
- 0441: dt=0.000000, rms=0.427 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.427, neg=0, invalid=762
- 0442: dt=-0.000244, rms=0.427 (0.000%), neg=0, invalid=762
- 0443: dt=0.000090, rms=0.427 (0.000%), neg=0, invalid=762
- 0444: dt=0.000090, rms=0.427 (-0.000%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.439, neg=0, invalid=762
- 0445: dt=0.000000, rms=0.439 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.439, neg=0, invalid=762
- 0446: dt=0.448000, rms=0.439 (0.046%), neg=0, invalid=762
- 0447: dt=0.112000, rms=0.439 (0.002%), neg=0, invalid=762
- 0448: dt=0.112000, rms=0.439 (-0.002%), 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=0.421, neg=0, invalid=762
- iter 0, gcam->neg = 704
- after 19 iterations, nbhd size=1, neg = 0
- 0449: dt=1.454074, rms=0.409 (2.722%), neg=0, invalid=762
- 0450: dt=0.000013, rms=0.409 (0.000%), neg=0, invalid=762
- 0451: dt=0.000013, rms=0.409 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.409, neg=0, invalid=762
- 0452: dt=0.112000, rms=0.409 (0.073%), neg=0, invalid=762
- 0453: dt=0.028000, rms=0.409 (0.005%), neg=0, invalid=762
- 0454: dt=0.028000, rms=0.409 (0.001%), neg=0, invalid=762
- 0455: dt=0.028000, rms=0.409 (-0.010%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 2 hours, 38 minutes and 46 seconds.
- mri_ca_register utimesec 10556.493169
- mri_ca_register stimesec 9.485557
- mri_ca_register ru_maxrss 1341860
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 4810102
- mri_ca_register ru_majflt 0
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 0
- mri_ca_register ru_oublock 63496
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 5911
- mri_ca_register ru_nivcsw 58960
- FSRUNTIME@ mri_ca_register 2.6461 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Sat Oct 7 20:02:40 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-929
- 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-6.0.0/0051364/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 7.31
- 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 = 0.08359 (15)
- Left_Lateral_Ventricle (4): linear fit = 0.76 x + 0.0 (2569 voxels, overlap=0.851)
- Left_Lateral_Ventricle (4): linear fit = 0.76 x + 0.0 (2569 voxels, peak = 15), gca=15.3
- gca peak = 0.17677 (13)
- mri peak = 0.08568 (17)
- Right_Lateral_Ventricle (43): linear fit = 1.12 x + 0.0 (2511 voxels, overlap=0.892)
- Right_Lateral_Ventricle (43): linear fit = 1.12 x + 0.0 (2511 voxels, peak = 14), gca=14.5
- gca peak = 0.28129 (95)
- mri peak = 0.09753 (92)
- Right_Pallidum (52): linear fit = 0.95 x + 0.0 (492 voxels, overlap=1.012)
- Right_Pallidum (52): linear fit = 0.95 x + 0.0 (492 voxels, peak = 91), gca=90.7
- gca peak = 0.16930 (96)
- mri peak = 0.09620 (88)
- Left_Pallidum (13): linear fit = 0.94 x + 0.0 (445 voxels, overlap=1.013)
- Left_Pallidum (13): linear fit = 0.94 x + 0.0 (445 voxels, peak = 91), gca=90.7
- gca peak = 0.24553 (55)
- mri peak = 0.08953 (64)
- Right_Hippocampus (53): linear fit = 1.08 x + 0.0 (599 voxels, overlap=0.963)
- Right_Hippocampus (53): linear fit = 1.08 x + 0.0 (599 voxels, peak = 59), gca=59.1
- gca peak = 0.30264 (59)
- mri peak = 0.08502 (59)
- Left_Hippocampus (17): linear fit = 1.04 x + 0.0 (513 voxels, overlap=1.010)
- Left_Hippocampus (17): linear fit = 1.04 x + 0.0 (513 voxels, peak = 62), gca=61.7
- gca peak = 0.07580 (103)
- mri peak = 0.08442 (107)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (30710 voxels, overlap=0.693)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (30710 voxels, peak = 107), gca=106.6
- gca peak = 0.07714 (104)
- mri peak = 0.06429 (108)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (27837 voxels, overlap=0.659)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (27837 voxels, peak = 109), gca=108.7
- gca peak = 0.09712 (58)
- mri peak = 0.03905 (59)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (21760 voxels, overlap=0.989)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (21760 voxels, peak = 59), gca=59.4
- gca peak = 0.11620 (58)
- mri peak = 0.04158 (63)
- Right_Cerebral_Cortex (42): linear fit = 1.10 x + 0.0 (22155 voxels, overlap=0.896)
- Right_Cerebral_Cortex (42): linear fit = 1.10 x + 0.0 (22155 voxels, peak = 64), gca=63.5
- gca peak = 0.30970 (66)
- mri peak = 0.07549 (73)
- Right_Caudate (50): linear fit = 1.10 x + 0.0 (967 voxels, overlap=1.013)
- Right_Caudate (50): linear fit = 1.10 x + 0.0 (967 voxels, peak = 72), gca=72.3
- gca peak = 0.15280 (69)
- mri peak = 0.07503 (77)
- Left_Caudate (11): linear fit = 1.01 x + 0.0 (891 voxels, overlap=1.003)
- Left_Caudate (11): linear fit = 1.01 x + 0.0 (891 voxels, peak = 70), gca=70.0
- gca peak = 0.13902 (56)
- mri peak = 0.05074 (57)
- Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (13292 voxels, overlap=1.000)
- Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (13292 voxels, peak = 59), gca=58.5
- gca peak = 0.14777 (55)
- mri peak = 0.05739 (61)
- Right_Cerebellum_Cortex (47): linear fit = 1.07 x + 0.0 (9940 voxels, overlap=0.971)
- Right_Cerebellum_Cortex (47): linear fit = 1.07 x + 0.0 (9940 voxels, peak = 59), gca=58.6
- gca peak = 0.16765 (84)
- mri peak = 0.06847 (80)
- Left_Cerebellum_White_Matter (7): linear fit = 0.95 x + 0.0 (5342 voxels, overlap=0.991)
- Left_Cerebellum_White_Matter (7): linear fit = 0.95 x + 0.0 (5342 voxels, peak = 80), gca=80.2
- gca peak = 0.18739 (84)
- mri peak = 0.07528 (81)
- Right_Cerebellum_White_Matter (46): linear fit = 0.96 x + 0.0 (3319 voxels, overlap=0.997)
- Right_Cerebellum_White_Matter (46): linear fit = 0.96 x + 0.0 (3319 voxels, peak = 81), gca=81.1
- gca peak = 0.29869 (57)
- mri peak = 0.08854 (57)
- Left_Amygdala (18): linear fit = 0.96 x + 0.0 (345 voxels, overlap=1.032)
- Left_Amygdala (18): linear fit = 0.96 x + 0.0 (345 voxels, peak = 55), gca=55.0
- gca peak = 0.33601 (57)
- mri peak = 0.08808 (61)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (390 voxels, overlap=1.023)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (390 voxels, peak = 60), gca=59.6
- gca peak = 0.11131 (90)
- mri peak = 0.06824 (87)
- Left_Thalamus_Proper (10): linear fit = 0.99 x + 0.0 (3338 voxels, overlap=0.973)
- Left_Thalamus_Proper (10): linear fit = 0.99 x + 0.0 (3338 voxels, peak = 89), gca=88.7
- gca peak = 0.11793 (83)
- mri peak = 0.07175 (88)
- Right_Thalamus_Proper (49): linear fit = 1.04 x + 0.0 (3561 voxels, overlap=0.921)
- Right_Thalamus_Proper (49): linear fit = 1.04 x + 0.0 (3561 voxels, peak = 87), gca=86.7
- gca peak = 0.08324 (81)
- mri peak = 0.05904 (76)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1339 voxels, overlap=0.934)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1339 voxels, peak = 81), gca=81.0
- gca peak = 0.10360 (77)
- mri peak = 0.06664 (79)
- Right_Putamen (51): linear fit = 1.01 x + 0.0 (1305 voxels, overlap=0.985)
- Right_Putamen (51): linear fit = 1.01 x + 0.0 (1305 voxels, peak = 78), gca=78.2
- gca peak = 0.08424 (78)
- mri peak = 0.13010 (81)
- Brain_Stem (16): linear fit = 1.03 x + 0.0 (8081 voxels, overlap=0.476)
- Brain_Stem (16): linear fit = 1.03 x + 0.0 (8081 voxels, peak = 81), gca=80.7
- gca peak = 0.12631 (89)
- mri peak = 0.07555 (88)
- Right_VentralDC (60): linear fit = 1.02 x + 0.0 (1107 voxels, overlap=0.825)
- Right_VentralDC (60): linear fit = 1.02 x + 0.0 (1107 voxels, peak = 91), gca=91.2
- gca peak = 0.14500 (87)
- mri peak = 0.07692 (86)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1173 voxels, overlap=0.916)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1173 voxels, peak = 87), gca=86.6
- gca peak = 0.14975 (24)
- mri peak = 0.16217 (21)
- gca peak = 0.19357 (14)
- mri peak = 0.10385 (19)
- Fourth_Ventricle (15): linear fit = 1.10 x + 0.0 (256 voxels, overlap=0.854)
- Fourth_Ventricle (15): linear fit = 1.10 x + 0.0 (256 voxels, peak = 15), gca=15.3
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16825 (27)
- gca peak Left_Thalamus = 1.00000 (94)
- gca peak Third_Ventricle = 0.14975 (24)
- gca peak CSF = 0.23379 (36)
- gca peak Left_Accumbens_area = 0.70037 (62)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.75997 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.24655 (23)
- gca peak Right_Accumbens_area = 0.45042 (65)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65475 (32)
- gca peak WM_hypointensities = 0.07854 (76)
- gca peak non_WM_hypointensities = 0.08491 (43)
- gca peak Optic_Chiasm = 0.71127 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.04 x + 0.0
- estimating mean wm scale to be 1.04 x + 0.0
- estimating mean csf scale to be 0.99 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.18464 (14)
- mri peak = 0.08359 (15)
- Left_Lateral_Ventricle (4): linear fit = 1.03 x + 0.0 (2569 voxels, overlap=0.994)
- Left_Lateral_Ventricle (4): linear fit = 1.03 x + 0.0 (2569 voxels, peak = 14), gca=14.5
- gca peak = 0.17058 (14)
- mri peak = 0.08568 (17)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (2511 voxels, overlap=0.820)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (2511 voxels, peak = 14), gca=14.5
- gca peak = 0.26708 (90)
- mri peak = 0.09753 (92)
- Right_Pallidum (52): linear fit = 0.99 x + 0.0 (492 voxels, overlap=1.006)
- Right_Pallidum (52): linear fit = 0.99 x + 0.0 (492 voxels, peak = 89), gca=88.7
- gca peak = 0.20812 (91)
- mri peak = 0.09620 (88)
- Left_Pallidum (13): linear fit = 1.01 x + 0.0 (445 voxels, overlap=1.006)
- Left_Pallidum (13): linear fit = 1.01 x + 0.0 (445 voxels, peak = 92), gca=92.4
- gca peak = 0.28073 (60)
- mri peak = 0.08953 (64)
- Right_Hippocampus (53): linear fit = 1.02 x + 0.0 (599 voxels, overlap=1.006)
- Right_Hippocampus (53): linear fit = 1.02 x + 0.0 (599 voxels, peak = 62), gca=61.5
- gca peak = 0.29115 (59)
- mri peak = 0.08502 (59)
- Left_Hippocampus (17): linear fit = 0.99 x + 0.0 (513 voxels, overlap=1.007)
- Left_Hippocampus (17): linear fit = 0.99 x + 0.0 (513 voxels, peak = 58), gca=58.1
- gca peak = 0.07501 (106)
- mri peak = 0.08442 (107)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (30710 voxels, overlap=0.825)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (30710 voxels, peak = 106), gca=106.0
- gca peak = 0.07788 (109)
- mri peak = 0.06429 (108)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (27837 voxels, overlap=0.840)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (27837 voxels, peak = 109), gca=109.0
- gca peak = 0.09512 (59)
- mri peak = 0.03905 (59)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (21760 voxels, overlap=0.994)
- Left_Cerebral_Cortex (3): linear fit = 1.02 x + 0.0 (21760 voxels, peak = 60), gca=60.5
- gca peak = 0.10610 (64)
- mri peak = 0.04158 (63)
- Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (22155 voxels, overlap=0.978)
- Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (22155 voxels, peak = 63), gca=63.0
- gca peak = 0.25590 (73)
- mri peak = 0.07549 (73)
- Right_Caudate (50): linear fit = 0.99 x + 0.0 (967 voxels, overlap=1.010)
- Right_Caudate (50): linear fit = 0.99 x + 0.0 (967 voxels, peak = 72), gca=71.9
- gca peak = 0.14951 (70)
- mri peak = 0.07503 (77)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (891 voxels, overlap=1.003)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (891 voxels, peak = 70), gca=70.0
- gca peak = 0.13197 (58)
- mri peak = 0.05074 (57)
- Left_Cerebellum_Cortex (8): linear fit = 0.96 x + 0.0 (13292 voxels, overlap=0.993)
- Left_Cerebellum_Cortex (8): linear fit = 0.96 x + 0.0 (13292 voxels, peak = 56), gca=56.0
- gca peak = 0.13831 (58)
- mri peak = 0.05739 (61)
- Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (9940 voxels, overlap=0.996)
- Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (9940 voxels, peak = 59), gca=59.4
- gca peak = 0.16129 (80)
- mri peak = 0.06847 (80)
- Left_Cerebellum_White_Matter (7): linear fit = 0.99 x + 0.0 (5342 voxels, overlap=0.986)
- Left_Cerebellum_White_Matter (7): linear fit = 0.99 x + 0.0 (5342 voxels, peak = 79), gca=78.8
- gca peak = 0.17826 (81)
- mri peak = 0.07528 (81)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (3319 voxels, overlap=0.988)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (3319 voxels, peak = 81), gca=81.0
- gca peak = 0.28763 (56)
- mri peak = 0.08854 (57)
- Left_Amygdala (18): linear fit = 1.04 x + 0.0 (345 voxels, overlap=1.028)
- Left_Amygdala (18): linear fit = 1.04 x + 0.0 (345 voxels, peak = 59), gca=58.5
- gca peak = 0.33420 (60)
- mri peak = 0.08808 (61)
- Right_Amygdala (54): linear fit = 1.02 x + 0.0 (390 voxels, overlap=1.018)
- Right_Amygdala (54): linear fit = 1.02 x + 0.0 (390 voxels, peak = 62), gca=61.5
- gca peak = 0.10397 (87)
- mri peak = 0.06824 (87)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (3338 voxels, overlap=0.972)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (3338 voxels, peak = 87), gca=86.6
- gca peak = 0.09742 (90)
- mri peak = 0.07175 (88)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (3561 voxels, overlap=0.991)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (3561 voxels, peak = 90), gca=89.6
- gca peak = 0.08313 (81)
- mri peak = 0.05904 (76)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1339 voxels, overlap=0.934)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1339 voxels, peak = 81), gca=81.0
- gca peak = 0.08217 (78)
- mri peak = 0.06664 (79)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (1305 voxels, overlap=0.999)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (1305 voxels, peak = 78), gca=78.0
- gca peak = 0.08212 (81)
- mri peak = 0.13010 (81)
- Brain_Stem (16): linear fit = 1.01 x + 0.0 (8081 voxels, overlap=0.616)
- Brain_Stem (16): linear fit = 1.01 x + 0.0 (8081 voxels, peak = 82), gca=82.2
- gca peak = 0.11338 (86)
- mri peak = 0.07555 (88)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1107 voxels, overlap=0.862)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1107 voxels, peak = 86), gca=85.6
- gca peak = 0.16311 (86)
- mri peak = 0.07692 (86)
- Left_VentralDC (28): linear fit = 1.01 x + 0.0 (1173 voxels, overlap=0.916)
- Left_VentralDC (28): linear fit = 1.01 x + 0.0 (1173 voxels, peak = 87), gca=87.3
- gca peak = 0.13732 (23)
- mri peak = 0.16217 (21)
- gca peak = 0.19627 (16)
- mri peak = 0.10385 (19)
- Fourth_Ventricle (15): linear fit = 0.88 x + 0.0 (256 voxels, overlap=0.832)
- Fourth_Ventricle (15): linear fit = 0.88 x + 0.0 (256 voxels, peak = 14), gca=14.2
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16507 (28)
- gca peak Left_Thalamus = 1.00000 (98)
- gca peak Third_Ventricle = 0.13732 (23)
- gca peak CSF = 0.28459 (36)
- gca peak Left_Accumbens_area = 0.79369 (63)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.75962 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.24205 (25)
- gca peak Right_Accumbens_area = 0.30009 (71)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.54107 (32)
- gca peak WM_hypointensities = 0.07348 (78)
- gca peak non_WM_hypointensities = 0.09744 (45)
- gca peak Optic_Chiasm = 0.71108 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.01 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 0.98 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
- 101614 voxels changed in iteration 0 of unlikely voxel relabeling
- 171 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
- 48724 gm and wm labels changed (%28 to gray, %72 to white out of all changed labels)
- 600 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 93356 changed. image ll: -2.156, PF=0.500
- pass 2: 26591 changed. image ll: -2.155, PF=0.500
- pass 3: 7377 changed.
- pass 4: 2569 changed.
- 58309 voxels changed in iteration 0 of unlikely voxel relabeling
- 270 voxels changed in iteration 1 of unlikely voxel relabeling
- 1 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 7444 voxels changed in iteration 0 of unlikely voxel relabeling
- 72 voxels changed in iteration 1 of unlikely voxel relabeling
- 13 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 7036 voxels changed in iteration 0 of unlikely voxel relabeling
- 33 voxels changed in iteration 1 of unlikely voxel relabeling
- 8 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 5223 voxels changed in iteration 0 of unlikely voxel relabeling
- 33 voxels changed in iteration 1 of unlikely voxel relabeling
- 1 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- MRItoUCHAR: min=0, max=85
- MRItoUCHAR: converting to UCHAR
- writing labeled volume to aseg.auto_noCCseg.mgz
- mri_ca_label utimesec 4172.384701
- mri_ca_label stimesec 1.914708
- mri_ca_label ru_maxrss 2090804
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 886835
- mri_ca_label ru_majflt 0
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 63488
- mri_ca_label ru_oublock 528
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 314
- mri_ca_label ru_nivcsw 9103
- auto-labeling took 68 minutes and 49 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/transforms/cc_up.lta 0051364
- 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-6.0.0/0051364/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/norm.mgz
- 44909 voxels in left wm, 50710 in right wm, xrange [124, 134]
- searching rotation angles z=[-4 10], y=[-5 9]
-
searching scale 1 Z rot -4.3
searching scale 1 Z rot -4.0
searching scale 1 Z rot -3.8
searching scale 1 Z rot -3.5
searching scale 1 Z rot -3.3
searching scale 1 Z rot -3.0
searching scale 1 Z rot -2.8
searching scale 1 Z rot -2.5
searching scale 1 Z rot -2.3
searching scale 1 Z rot -2.0
searching scale 1 Z rot -1.8
searching scale 1 Z rot -1.5
searching scale 1 Z rot -1.3
searching scale 1 Z rot -1.0
searching scale 1 Z rot -0.8
searching scale 1 Z rot -0.5
searching scale 1 Z rot -0.3
searching scale 1 Z rot -0.0
searching scale 1 Z rot 0.2
searching scale 1 Z rot 0.5
searching scale 1 Z rot 0.7
searching scale 1 Z rot 1.0
searching scale 1 Z rot 1.2
searching scale 1 Z rot 1.5
searching scale 1 Z rot 1.7
searching scale 1 Z rot 2.0
searching scale 1 Z rot 2.2
searching scale 1 Z rot 2.5
searching scale 1 Z rot 2.7
searching scale 1 Z rot 3.0
searching scale 1 Z rot 3.2
searching scale 1 Z rot 3.5
searching scale 1 Z rot 3.7
searching scale 1 Z rot 4.0
searching scale 1 Z rot 4.2
searching scale 1 Z rot 4.5
searching scale 1 Z rot 4.7
searching scale 1 Z rot 5.0
searching scale 1 Z rot 5.2
searching scale 1 Z rot 5.5
searching scale 1 Z rot 5.7
searching scale 1 Z rot 6.0
searching scale 1 Z rot 6.2
searching scale 1 Z rot 6.5
searching scale 1 Z rot 6.7
searching scale 1 Z rot 7.0
searching scale 1 Z rot 7.2
searching scale 1 Z rot 7.5
searching scale 1 Z rot 7.7
searching scale 1 Z rot 8.0
searching scale 1 Z rot 8.2
searching scale 1 Z rot 8.5
searching scale 1 Z rot 8.7
searching scale 1 Z rot 9.0
searching scale 1 Z rot 9.2
searching scale 1 Z rot 9.5 global minimum found at slice 129.1, rotations (2.12, 2.72)
- final transformation (x=129.1, yr=2.119, zr=2.716):
- 0.99819 -0.04739 0.03694 -0.58029;
- 0.04735 0.99888 0.00175 33.80135;
- -0.03698 0.00000 0.99932 27.84653;
- 0.00000 0.00000 0.00000 1.00000;
- updating x range to be [126, 131] in xformed coordinates
- best xformed slice 128
- cc center is found at 128 88 105
- eigenvectors:
- 0.00007 0.00310 1.00000;
- -0.09036 -0.99590 0.00310;
- 0.99591 -0.09036 0.00021;
- error in mid anterior detected - correcting...
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/aseg.auto.mgz...
- corpus callosum segmentation took 1.0 minutes
- #--------------------------------------
- #@# Merge ASeg Sat Oct 7 21:12:28 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Sat Oct 7 21:12:28 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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...
- 1835 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 103
- gm peak at 69 (69), valley at 24 (24)
- csf peak at 35, setting threshold to 57
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- ---------------------------------
- 3d normalization pass 2 of 2
- white matter peak found at 110
- white matter peak found at 109
- gm peak at 66 (66), valley at 26 (26)
- csf peak at 33, setting threshold to 55
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to brain.mgz
- 3D bias adjustment took 3 minutes and 37 seconds.
- #--------------------------------------------
- #@# Mask BFS Sat Oct 7 21:16:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1711533 voxels in mask (pct= 10.20)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Sat Oct 7 21:16:08 CEST 2017
- mri_segment -mprage brain.mgz wm.seg.mgz
- doing initial intensity segmentation...
- using local statistics to label ambiguous voxels...
- computing class statistics for intensity windows...
- WM (105.0): 105.8 +- 5.3 [79.0 --> 125.0]
- GM (69.0) : 67.7 +- 9.3 [30.0 --> 95.0]
- setting bottom of white matter range to 77.1
- setting top of gray matter range to 86.4
- doing initial intensity segmentation...
- using local statistics to label ambiguous voxels...
- using local geometry to label remaining ambiguous voxels...
- reclassifying voxels using Gaussian border classifier...
- removing voxels with positive offset direction...
- smoothing T1 volume with sigma = 0.250
- removing 1-dimensional structures...
- 18233 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 6091 filled
- 677 bright non-wm voxels segmented.
- 10238 diagonally connected voxels added...
- white matter segmentation took 1.7 minutes
- writing output to wm.seg.mgz...
- assuming input volume is MGH (Van der Kouwe) MP-RAGE
- mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz
- preserving editing changes in input volume...
- auto filling took 0.65 minutes
- reading wm segmentation from wm.seg.mgz...
- 650 voxels added to wm to prevent paths from MTL structures to cortex
- 3001 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 68106 voxels turned on, 37145 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+): 47 found - 47 modified | TOTAL: 47
- pass 2 (xy+): 0 found - 47 modified | TOTAL: 47
- pass 1 (xy-): 51 found - 51 modified | TOTAL: 98
- pass 2 (xy-): 0 found - 51 modified | TOTAL: 98
- pass 1 (yz+): 40 found - 40 modified | TOTAL: 138
- pass 2 (yz+): 0 found - 40 modified | TOTAL: 138
- pass 1 (yz-): 48 found - 48 modified | TOTAL: 186
- pass 2 (yz-): 0 found - 48 modified | TOTAL: 186
- pass 1 (xz+): 42 found - 42 modified | TOTAL: 228
- pass 2 (xz+): 0 found - 42 modified | TOTAL: 228
- pass 1 (xz-): 33 found - 33 modified | TOTAL: 261
- pass 2 (xz-): 0 found - 33 modified | TOTAL: 261
- Iteration Number : 1
- pass 1 (+++): 19 found - 19 modified | TOTAL: 19
- pass 2 (+++): 0 found - 19 modified | TOTAL: 19
- pass 1 (+++): 38 found - 38 modified | TOTAL: 57
- pass 2 (+++): 0 found - 38 modified | TOTAL: 57
- pass 1 (+++): 74 found - 74 modified | TOTAL: 131
- pass 2 (+++): 0 found - 74 modified | TOTAL: 131
- pass 1 (+++): 34 found - 34 modified | TOTAL: 165
- pass 2 (+++): 0 found - 34 modified | TOTAL: 165
- Iteration Number : 1
- pass 1 (++): 282 found - 282 modified | TOTAL: 282
- pass 2 (++): 0 found - 282 modified | TOTAL: 282
- pass 1 (+-): 266 found - 266 modified | TOTAL: 548
- pass 2 (+-): 0 found - 266 modified | TOTAL: 548
- pass 1 (--): 261 found - 261 modified | TOTAL: 809
- pass 2 (--): 0 found - 261 modified | TOTAL: 809
- pass 1 (-+): 331 found - 331 modified | TOTAL: 1140
- pass 2 (-+): 0 found - 331 modified | TOTAL: 1140
- Iteration Number : 2
- pass 1 (xy+): 15 found - 15 modified | TOTAL: 15
- pass 2 (xy+): 0 found - 15 modified | TOTAL: 15
- pass 1 (xy-): 18 found - 18 modified | TOTAL: 33
- pass 2 (xy-): 0 found - 18 modified | TOTAL: 33
- pass 1 (yz+): 20 found - 20 modified | TOTAL: 53
- pass 2 (yz+): 0 found - 20 modified | TOTAL: 53
- pass 1 (yz-): 31 found - 31 modified | TOTAL: 84
- pass 2 (yz-): 0 found - 31 modified | TOTAL: 84
- pass 1 (xz+): 13 found - 13 modified | TOTAL: 97
- pass 2 (xz+): 0 found - 13 modified | TOTAL: 97
- pass 1 (xz-): 17 found - 17 modified | TOTAL: 114
- pass 2 (xz-): 0 found - 17 modified | TOTAL: 114
- Iteration Number : 2
- pass 1 (+++): 3 found - 3 modified | TOTAL: 3
- pass 2 (+++): 0 found - 3 modified | TOTAL: 3
- pass 1 (+++): 7 found - 7 modified | TOTAL: 10
- pass 2 (+++): 0 found - 7 modified | TOTAL: 10
- pass 1 (+++): 0 found - 0 modified | TOTAL: 10
- pass 1 (+++): 5 found - 5 modified | TOTAL: 15
- pass 2 (+++): 0 found - 5 modified | TOTAL: 15
- Iteration Number : 2
- pass 1 (++): 15 found - 15 modified | TOTAL: 15
- pass 2 (++): 0 found - 15 modified | TOTAL: 15
- pass 1 (+-): 11 found - 11 modified | TOTAL: 26
- pass 2 (+-): 0 found - 11 modified | TOTAL: 26
- pass 1 (--): 5 found - 5 modified | TOTAL: 31
- pass 2 (--): 1 found - 6 modified | TOTAL: 32
- pass 3 (--): 0 found - 6 modified | TOTAL: 32
- pass 1 (-+): 9 found - 9 modified | TOTAL: 41
- pass 2 (-+): 0 found - 9 modified | TOTAL: 41
- Iteration Number : 3
- 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-): 1 found - 1 modified | TOTAL: 5
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 5
- pass 1 (xz+): 2 found - 2 modified | TOTAL: 7
- pass 2 (xz+): 0 found - 2 modified | TOTAL: 7
- pass 1 (xz-): 3 found - 3 modified | TOTAL: 10
- pass 2 (xz-): 0 found - 3 modified | TOTAL: 10
- Iteration Number : 3
- pass 1 (+++): 2 found - 2 modified | TOTAL: 2
- pass 2 (+++): 0 found - 2 modified | TOTAL: 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 2
- Iteration Number : 3
- pass 1 (++): 4 found - 4 modified | TOTAL: 4
- pass 2 (++): 0 found - 4 modified | TOTAL: 4
- pass 1 (+-): 0 found - 0 modified | TOTAL: 4
- pass 1 (--): 0 found - 0 modified | TOTAL: 4
- pass 1 (-+): 1 found - 1 modified | TOTAL: 5
- pass 2 (-+): 0 found - 1 modified | TOTAL: 5
- Iteration Number : 4
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 2 found - 2 modified | TOTAL: 2
- pass 2 (xy-): 0 found - 2 modified | TOTAL: 2
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 2
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 2
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 2
- pass 1 (xz-): 1 found - 1 modified | TOTAL: 3
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 3
- Iteration Number : 4
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 4
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 1 found - 1 modified | TOTAL: 1
- pass 2 (-+): 0 found - 1 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 = 1757 (out of 582639: 0.301559)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Sat Oct 7 21:18:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri
- mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta -segmentation aseg.auto_noCCseg.mgz wm.mgz filled.mgz
- logging cutting plane coordinates to ../scripts/ponscc.cut.log...
- INFO: Using transforms/talairach.lta and its offset for Talairach volume ...
- using segmentation aseg.auto_noCCseg.mgz...
- reading input volume...done.
- searching for cutting planes...voxel to talairach voxel transform
- 1.07114 -0.07028 0.04633 -12.04305;
- 0.06028 1.03502 0.20308 -20.25351;
- -0.07270 -0.16069 0.94862 29.43155;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 1.07114 -0.07028 0.04633 -12.04305;
- 0.06028 1.03502 0.20308 -20.25351;
- -0.07270 -0.16069 0.94862 29.43155;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 1455 (min = 350, max = 1400), aspect = 0.52 (min = 0.10, max = 0.75)
- need search nearby
- using seed (125, 119, 150), TAL = (3.0, 22.0, 9.0)
- talairach voxel to voxel transform
- 0.92668 0.05410 -0.05684 13.92879;
- -0.06572 0.93125 -0.19615 23.84246;
- 0.05988 0.16189 1.01658 -25.91933;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (125, 119, 150) --> (3.0, 22.0, 9.0)
- done.
- writing output to filled.mgz...
- filling took 0.7 minutes
- talairach cc position changed to (3.00, 22.00, 9.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(21.00, 22.00, 9.00) SRC: (111.00, 98.21, 152.24)
- search lh wm seed point around talairach space (-15.00, 22.00, 9.00), SRC: (144.36, 95.84, 154.40)
- 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 21:19:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz
- Iteration Number : 1
- pass 1 (xy+): 3 found - 3 modified | TOTAL: 3
- pass 2 (xy+): 0 found - 3 modified | TOTAL: 3
- pass 1 (xy-): 3 found - 3 modified | TOTAL: 6
- pass 2 (xy-): 0 found - 3 modified | TOTAL: 6
- pass 1 (yz+): 3 found - 3 modified | TOTAL: 9
- pass 2 (yz+): 0 found - 3 modified | TOTAL: 9
- pass 1 (yz-): 4 found - 4 modified | TOTAL: 13
- pass 2 (yz-): 0 found - 4 modified | TOTAL: 13
- pass 1 (xz+): 2 found - 2 modified | TOTAL: 15
- pass 2 (xz+): 0 found - 2 modified | TOTAL: 15
- pass 1 (xz-): 3 found - 3 modified | TOTAL: 18
- pass 2 (xz-): 0 found - 3 modified | TOTAL: 18
- 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 (+++): 2 found - 2 modified | TOTAL: 2
- pass 2 (+++): 0 found - 2 modified | TOTAL: 2
- Iteration Number : 1
- pass 1 (++): 1 found - 1 modified | TOTAL: 1
- pass 2 (++): 0 found - 1 modified | TOTAL: 1
- pass 1 (+-): 2 found - 2 modified | TOTAL: 3
- pass 2 (+-): 0 found - 2 modified | TOTAL: 3
- pass 1 (--): 0 found - 0 modified | TOTAL: 3
- pass 1 (-+): 2 found - 2 modified | TOTAL: 5
- pass 2 (-+): 0 found - 2 modified | TOTAL: 5
- 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 = 25 (out of 278539: 0.008975)
- Ambiguous edge configurations...
- mri_pretess done
- mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix
- $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- slice 40: 2100 vertices, 2271 faces
- slice 50: 10302 vertices, 10696 faces
- slice 60: 21211 vertices, 21639 faces
- slice 70: 32893 vertices, 33308 faces
- slice 80: 44761 vertices, 45174 faces
- slice 90: 57138 vertices, 57583 faces
- slice 100: 69547 vertices, 70014 faces
- slice 110: 82450 vertices, 82931 faces
- slice 120: 94695 vertices, 95188 faces
- slice 130: 107408 vertices, 107939 faces
- slice 140: 120096 vertices, 120681 faces
- slice 150: 130391 vertices, 130874 faces
- slice 160: 138785 vertices, 139226 faces
- slice 170: 146738 vertices, 147154 faces
- slice 180: 153425 vertices, 153819 faces
- slice 190: 158738 vertices, 159049 faces
- slice 200: 160972 vertices, 161156 faces
- slice 210: 160972 vertices, 161156 faces
- slice 220: 160972 vertices, 161156 faces
- slice 230: 160972 vertices, 161156 faces
- slice 240: 160972 vertices, 161156 faces
- slice 250: 160972 vertices, 161156 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...
- 160972 voxel in cpt #1: X=-184 [v=160972,e=483468,f=322312] located at (-28.323503, -19.143385, 29.064203)
- For the whole surface: X=-184 [v=160972,e=483468,f=322312]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Tessellate rh Sat Oct 7 21:19:26 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 6 found - 6 modified | TOTAL: 6
- pass 2 (yz+): 0 found - 6 modified | TOTAL: 6
- pass 1 (yz-): 1 found - 1 modified | TOTAL: 7
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 7
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 7
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 7
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 2 found - 2 modified | TOTAL: 2
- pass 2 (-+): 0 found - 2 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 = 9 (out of 285908: 0.003148)
- 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: 10 vertices, 14 faces
- slice 40: 2349 vertices, 2560 faces
- slice 50: 10687 vertices, 11073 faces
- slice 60: 22498 vertices, 22925 faces
- slice 70: 35427 vertices, 35927 faces
- slice 80: 48923 vertices, 49436 faces
- slice 90: 61583 vertices, 62036 faces
- slice 100: 76117 vertices, 76648 faces
- slice 110: 89383 vertices, 89892 faces
- slice 120: 102528 vertices, 103044 faces
- slice 130: 115181 vertices, 115760 faces
- slice 140: 126744 vertices, 127285 faces
- slice 150: 136138 vertices, 136602 faces
- slice 160: 144732 vertices, 145185 faces
- slice 170: 152278 vertices, 152717 faces
- slice 180: 158837 vertices, 159231 faces
- slice 190: 163603 vertices, 163960 faces
- slice 200: 165700 vertices, 165910 faces
- slice 210: 165700 vertices, 165910 faces
- slice 220: 165700 vertices, 165910 faces
- slice 230: 165700 vertices, 165910 faces
- slice 240: 165700 vertices, 165910 faces
- slice 250: 165700 vertices, 165910 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...
- 165700 voxel in cpt #1: X=-210 [v=165700,e=497730,f=331820] located at (25.307447, -21.361647, 26.230532)
- For the whole surface: X=-210 [v=165700,e=497730,f=331820]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Sat Oct 7 21:19:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Sat Oct 7 21:19:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 31513 of (31513 31516) to complete...
- Waiting for PID 31516 of (31513 31516) 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 (31513 31516) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Sat Oct 7 21:19:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Sat Oct 7 21:19:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 31563 of (31563 31566) to complete...
- Waiting for PID 31566 of (31563 31566) 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 = 49.0 mm, total surface area = 81997 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 1.0 minutes
-
step 000: RMS=0.167 (target=0.015)
step 005: RMS=0.127 (target=0.015)
step 010: RMS=0.098 (target=0.015)
step 015: RMS=0.084 (target=0.015)
step 020: RMS=0.074 (target=0.015)
step 025: RMS=0.066 (target=0.015)
step 030: RMS=0.060 (target=0.015)
step 035: RMS=0.055 (target=0.015)
step 040: RMS=0.053 (target=0.015)
step 045: RMS=0.050 (target=0.015)
step 050: RMS=0.048 (target=0.015)
step 055: RMS=0.047 (target=0.015)
step 060: RMS=0.048 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 57.911196
- mris_inflate stimesec 0.119981
- mris_inflate ru_maxrss 236124
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 34440
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 11336
- mris_inflate ru_oublock 11352
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 6748
- mris_inflate ru_nivcsw 4244
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 48.9 mm, total surface area = 83571 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=0.127 (target=0.015)
step 010: RMS=0.098 (target=0.015)
step 015: RMS=0.083 (target=0.015)
step 020: RMS=0.073 (target=0.015)
step 025: RMS=0.065 (target=0.015)
step 030: RMS=0.059 (target=0.015)
step 035: RMS=0.054 (target=0.015)
step 040: RMS=0.050 (target=0.015)
step 045: RMS=0.048 (target=0.015)
step 050: RMS=0.046 (target=0.015)
step 055: RMS=0.045 (target=0.015)
step 060: RMS=0.044 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 59.853900
- mris_inflate stimesec 0.139978
- mris_inflate ru_maxrss 243332
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 35221
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 11664
- mris_inflate ru_oublock 11680
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2231
- mris_inflate ru_nivcsw 6506
- PIDs (31563 31566) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Sat Oct 7 21:20:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Sat Oct 7 21:20:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 31664 of (31664 31667) to complete...
- Waiting for PID 31667 of (31664 31667) to complete...
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- doing quick spherical unfolding.
- setting seed for random number genererator to 1234
- $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- reading original vertex positions...
- unfolding cortex into spherical form...
- surface projected - minimizing metric distortion...
- vertex spacing 0.90 +- 0.56 (0.00-->5.99) (max @ vno 56833 --> 58068)
- face area 0.02 +- 0.03 (-0.14-->0.55)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.299...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=176.145, avgs=0
- 005/300: dt: 0.9000, rms radial error=175.885, avgs=0
- 010/300: dt: 0.9000, rms radial error=175.329, avgs=0
- 015/300: dt: 0.9000, rms radial error=174.600, avgs=0
- 020/300: dt: 0.9000, rms radial error=173.770, avgs=0
- 025/300: dt: 0.9000, rms radial error=172.882, avgs=0
- 030/300: dt: 0.9000, rms radial error=171.961, avgs=0
- 035/300: dt: 0.9000, rms radial error=171.023, avgs=0
- 040/300: dt: 0.9000, rms radial error=170.076, avgs=0
- 045/300: dt: 0.9000, rms radial error=169.128, avgs=0
- 050/300: dt: 0.9000, rms radial error=168.180, avgs=0
- 055/300: dt: 0.9000, rms radial error=167.234, avgs=0
- 060/300: dt: 0.9000, rms radial error=166.292, avgs=0
- 065/300: dt: 0.9000, rms radial error=165.356, avgs=0
- 070/300: dt: 0.9000, rms radial error=164.432, avgs=0
- 075/300: dt: 0.9000, rms radial error=163.512, avgs=0
- 080/300: dt: 0.9000, rms radial error=162.597, avgs=0
- 085/300: dt: 0.9000, rms radial error=161.686, avgs=0
- 090/300: dt: 0.9000, rms radial error=160.779, avgs=0
- 095/300: dt: 0.9000, rms radial error=159.877, avgs=0
- 100/300: dt: 0.9000, rms radial error=158.981, avgs=0
- 105/300: dt: 0.9000, rms radial error=158.089, avgs=0
- 110/300: dt: 0.9000, rms radial error=157.202, avgs=0
- 115/300: dt: 0.9000, rms radial error=156.320, avgs=0
- 120/300: dt: 0.9000, rms radial error=155.443, avgs=0
- 125/300: dt: 0.9000, rms radial error=154.570, avgs=0
- 130/300: dt: 0.9000, rms radial error=153.702, avgs=0
- 135/300: dt: 0.9000, rms radial error=152.839, avgs=0
- 140/300: dt: 0.9000, rms radial error=151.981, avgs=0
- 145/300: dt: 0.9000, rms radial error=151.128, avgs=0
- 150/300: dt: 0.9000, rms radial error=150.279, avgs=0
- 155/300: dt: 0.9000, rms radial error=149.435, avgs=0
- 160/300: dt: 0.9000, rms radial error=148.596, avgs=0
- 165/300: dt: 0.9000, rms radial error=147.761, avgs=0
- 170/300: dt: 0.9000, rms radial error=146.931, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.106, avgs=0
- 180/300: dt: 0.9000, rms radial error=145.285, avgs=0
- 185/300: dt: 0.9000, rms radial error=144.469, avgs=0
- 190/300: dt: 0.9000, rms radial error=143.657, avgs=0
- 195/300: dt: 0.9000, rms radial error=142.849, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.046, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.248, avgs=0
- 210/300: dt: 0.9000, rms radial error=140.454, avgs=0
- 215/300: dt: 0.9000, rms radial error=139.664, avgs=0
- 220/300: dt: 0.9000, rms radial error=138.878, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.097, avgs=0
- 230/300: dt: 0.9000, rms radial error=137.320, avgs=0
- 235/300: dt: 0.9000, rms radial error=136.548, avgs=0
- 240/300: dt: 0.9000, rms radial error=135.779, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.016, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.256, avgs=0
- 255/300: dt: 0.9000, rms radial error=133.500, avgs=0
- 260/300: dt: 0.9000, rms radial error=132.749, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.002, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.259, avgs=0
- 275/300: dt: 0.9000, rms radial error=130.520, avgs=0
- 280/300: dt: 0.9000, rms radial error=129.785, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.054, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.327, avgs=0
- 295/300: dt: 0.9000, rms radial error=127.605, avgs=0
- 300/300: dt: 0.9000, rms radial error=126.886, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 19236.29
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00013
- epoch 2 (K=40.0), pass 1, starting sse = 3407.09
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00011
- epoch 3 (K=160.0), pass 1, starting sse = 396.59
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.07/11 = 0.00665
- epoch 4 (K=640.0), pass 1, starting sse = 30.30
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.07/12 = 0.00550
- final distance error %28.70
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.09 hours
- mris_sphere utimesec 323.338845
- mris_sphere stimesec 0.230964
- mris_sphere ru_maxrss 236320
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 34487
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 11376
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 8325
- mris_sphere ru_nivcsw 23938
- FSRUNTIME@ mris_sphere 0.0899 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 0.90 +- 0.56 (0.00-->6.43) (max @ vno 113444 --> 114757)
- face area 0.02 +- 0.03 (-0.15-->0.64)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.300...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=175.886, avgs=0
- 005/300: dt: 0.9000, rms radial error=175.625, avgs=0
- 010/300: dt: 0.9000, rms radial error=175.064, avgs=0
- 015/300: dt: 0.9000, rms radial error=174.328, avgs=0
- 020/300: dt: 0.9000, rms radial error=173.493, avgs=0
- 025/300: dt: 0.9000, rms radial error=172.604, avgs=0
- 030/300: dt: 0.9000, rms radial error=171.682, avgs=0
- 035/300: dt: 0.9000, rms radial error=170.747, avgs=0
- 040/300: dt: 0.9000, rms radial error=169.805, avgs=0
- 045/300: dt: 0.9000, rms radial error=168.861, avgs=0
- 050/300: dt: 0.9000, rms radial error=167.919, avgs=0
- 055/300: dt: 0.9000, rms radial error=166.979, avgs=0
- 060/300: dt: 0.9000, rms radial error=166.044, avgs=0
- 065/300: dt: 0.9000, rms radial error=165.113, avgs=0
- 070/300: dt: 0.9000, rms radial error=164.187, avgs=0
- 075/300: dt: 0.9000, rms radial error=163.265, avgs=0
- 080/300: dt: 0.9000, rms radial error=162.349, avgs=0
- 085/300: dt: 0.9000, rms radial error=161.439, avgs=0
- 090/300: dt: 0.9000, rms radial error=160.533, avgs=0
- 095/300: dt: 0.9000, rms radial error=159.633, avgs=0
- 100/300: dt: 0.9000, rms radial error=158.737, avgs=0
- 105/300: dt: 0.9000, rms radial error=157.847, avgs=0
- 110/300: dt: 0.9000, rms radial error=156.961, avgs=0
- 115/300: dt: 0.9000, rms radial error=156.080, avgs=0
- 120/300: dt: 0.9000, rms radial error=155.205, avgs=0
- 125/300: dt: 0.9000, rms radial error=154.335, avgs=0
- 130/300: dt: 0.9000, rms radial error=153.469, avgs=0
- 135/300: dt: 0.9000, rms radial error=152.608, avgs=0
- 140/300: dt: 0.9000, rms radial error=151.751, avgs=0
- 145/300: dt: 0.9000, rms radial error=150.900, avgs=0
- 150/300: dt: 0.9000, rms radial error=150.052, avgs=0
- 155/300: dt: 0.9000, rms radial error=149.210, avgs=0
- 160/300: dt: 0.9000, rms radial error=148.372, avgs=0
- 165/300: dt: 0.9000, rms radial error=147.539, avgs=0
- 170/300: dt: 0.9000, rms radial error=146.710, avgs=0
- 175/300: dt: 0.9000, rms radial error=145.886, avgs=0
- 180/300: dt: 0.9000, rms radial error=145.066, avgs=0
- 185/300: dt: 0.9000, rms radial error=144.251, avgs=0
- 190/300: dt: 0.9000, rms radial error=143.441, avgs=0
- 195/300: dt: 0.9000, rms radial error=142.634, avgs=0
- 200/300: dt: 0.9000, rms radial error=141.833, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.036, avgs=0
- 210/300: dt: 0.9000, rms radial error=140.243, avgs=0
- 215/300: dt: 0.9000, rms radial error=139.454, avgs=0
- 220/300: dt: 0.9000, rms radial error=138.670, avgs=0
- 225/300: dt: 0.9000, rms radial error=137.890, avgs=0
- 230/300: dt: 0.9000, rms radial error=137.115, avgs=0
- 235/300: dt: 0.9000, rms radial error=136.344, avgs=0
- 240/300: dt: 0.9000, rms radial error=135.577, avgs=0
- 245/300: dt: 0.9000, rms radial error=134.814, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.056, avgs=0
- 255/300: dt: 0.9000, rms radial error=133.302, avgs=0
- 260/300: dt: 0.9000, rms radial error=132.552, avgs=0
- 265/300: dt: 0.9000, rms radial error=131.806, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.064, avgs=0
- 275/300: dt: 0.9000, rms radial error=130.327, avgs=0
- 280/300: dt: 0.9000, rms radial error=129.594, avgs=0
- 285/300: dt: 0.9000, rms radial error=128.865, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.139, avgs=0
- 295/300: dt: 0.9000, rms radial error=127.418, avgs=0
- 300/300: dt: 0.9000, rms radial error=126.701, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 19811.60
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00011
- epoch 2 (K=40.0), pass 1, starting sse = 3510.62
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00008
- epoch 3 (K=160.0), pass 1, starting sse = 404.71
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.07/11 = 0.00599
- epoch 4 (K=640.0), pass 1, starting sse = 29.37
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.09/13 = 0.00662
- final distance error %28.82
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.09 hours
- mris_sphere utimesec 340.790192
- mris_sphere stimesec 0.200969
- mris_sphere ru_maxrss 243536
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 35270
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 11712
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 8089
- mris_sphere ru_nivcsw 23808
- FSRUNTIME@ mris_sphere 0.0930 hours 1 threads
- PIDs (31664 31667) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Sat Oct 7 21:26:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Sat Oct 7 21:26:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Sat Oct 7 21:26:15 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051364 lh
- #@# Fix Topology rh Sat Oct 7 21:26:15 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051364 rh
- Waiting for PID 31917 of (31917 31920) to complete...
- Waiting for PID 31920 of (31917 31920) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051364 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=-184 (nv=160972, nf=322312, ne=483468, g=93)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 8 iterations
- marking ambiguous vertices...
- 9082 ambiguous faces found in tessellation
- segmenting defects...
- 104 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 3 into 0
- -merging segment 41 into 49
- -merging segment 59 into 54
- -merging segment 75 into 68
- 100 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.7094 (-4.8547)
- -vertex loglikelihood: -6.5192 (-3.2596)
- -normal dot loglikelihood: -3.5381 (-3.5381)
- -quad curv loglikelihood: -6.6030 (-3.3015)
- Total Loglikelihood : -26.3697
- CORRECTING DEFECT 0 (vertices=360, convex hull=203, v0=3825)
- After retessellation of defect 0 (v0=3825), euler #=-97 (155286,463145,307762) : difference with theory (-97) = 0
- CORRECTING DEFECT 1 (vertices=51, convex hull=69, v0=5245)
- After retessellation of defect 1 (v0=5245), euler #=-96 (155297,463203,307810) : difference with theory (-96) = 0
- CORRECTING DEFECT 2 (vertices=5, convex hull=23, v0=6801)
- After retessellation of defect 2 (v0=6801), euler #=-95 (155298,463212,307819) : difference with theory (-95) = 0
- CORRECTING DEFECT 3 (vertices=60, convex hull=80, v0=16659)
- After retessellation of defect 3 (v0=16659), euler #=-94 (155306,463269,307869) : difference with theory (-94) = 0
- CORRECTING DEFECT 4 (vertices=25, convex hull=50, v0=17176)
- After retessellation of defect 4 (v0=17176), euler #=-93 (155321,463336,307922) : difference with theory (-93) = 0
- CORRECTING DEFECT 5 (vertices=26, convex hull=63, v0=23507)
- After retessellation of defect 5 (v0=23507), euler #=-92 (155333,463398,307973) : difference with theory (-92) = 0
- CORRECTING DEFECT 6 (vertices=55, convex hull=83, v0=23645)
- After retessellation of defect 6 (v0=23645), euler #=-91 (155363,463523,308069) : difference with theory (-91) = 0
- CORRECTING DEFECT 7 (vertices=12, convex hull=22, v0=25676)
- After retessellation of defect 7 (v0=25676), euler #=-90 (155363,463531,308078) : difference with theory (-90) = 0
- CORRECTING DEFECT 8 (vertices=46, convex hull=99, v0=31090)
- After retessellation of defect 8 (v0=31090), euler #=-89 (155394,463664,308181) : difference with theory (-89) = 0
- CORRECTING DEFECT 9 (vertices=52, convex hull=61, v0=32567)
- After retessellation of defect 9 (v0=32567), euler #=-88 (155403,463715,308224) : difference with theory (-88) = 0
- CORRECTING DEFECT 10 (vertices=147, convex hull=197, v0=36430)
- After retessellation of defect 10 (v0=36430), euler #=-87 (155476,464024,308461) : difference with theory (-87) = 0
- CORRECTING DEFECT 11 (vertices=103, convex hull=64, v0=38556)
- After retessellation of defect 11 (v0=38556), euler #=-86 (155495,464108,308527) : difference with theory (-86) = 0
- CORRECTING DEFECT 12 (vertices=87, convex hull=145, v0=45663)
- After retessellation of defect 12 (v0=45663), euler #=-85 (155551,464342,308706) : difference with theory (-85) = 0
- CORRECTING DEFECT 13 (vertices=38, convex hull=76, v0=47373)
- After retessellation of defect 13 (v0=47373), euler #=-84 (155576,464451,308791) : difference with theory (-84) = 0
- CORRECTING DEFECT 14 (vertices=23, convex hull=62, v0=47495)
- After retessellation of defect 14 (v0=47495), euler #=-83 (155588,464511,308840) : difference with theory (-83) = 0
- CORRECTING DEFECT 15 (vertices=44, convex hull=74, v0=48214)
- After retessellation of defect 15 (v0=48214), euler #=-82 (155615,464623,308926) : difference with theory (-82) = 0
- CORRECTING DEFECT 16 (vertices=19, convex hull=53, v0=51380)
- After retessellation of defect 16 (v0=51380), euler #=-81 (155628,464683,308974) : difference with theory (-81) = 0
- CORRECTING DEFECT 17 (vertices=19, convex hull=47, v0=53069)
- After retessellation of defect 17 (v0=53069), euler #=-80 (155640,464734,309014) : difference with theory (-80) = 0
- CORRECTING DEFECT 18 (vertices=38, convex hull=73, v0=53468)
- After retessellation of defect 18 (v0=53468), euler #=-79 (155655,464804,309070) : difference with theory (-79) = 0
- CORRECTING DEFECT 19 (vertices=115, convex hull=144, v0=59239)
- After retessellation of defect 19 (v0=59239), euler #=-78 (155714,465047,309255) : difference with theory (-78) = 0
- CORRECTING DEFECT 20 (vertices=11, convex hull=34, v0=63197)
- After retessellation of defect 20 (v0=63197), euler #=-77 (155715,465060,309268) : difference with theory (-77) = 0
- CORRECTING DEFECT 21 (vertices=55, convex hull=65, v0=64495)
- After retessellation of defect 21 (v0=64495), euler #=-76 (155736,465148,309336) : difference with theory (-76) = 0
- CORRECTING DEFECT 22 (vertices=49, convex hull=79, v0=65427)
- After retessellation of defect 22 (v0=65427), euler #=-75 (155756,465239,309408) : difference with theory (-75) = 0
- CORRECTING DEFECT 23 (vertices=59, convex hull=95, v0=65494)
- After retessellation of defect 23 (v0=65494), euler #=-74 (155793,465394,309527) : difference with theory (-74) = 0
- CORRECTING DEFECT 24 (vertices=16, convex hull=34, v0=66293)
- After retessellation of defect 24 (v0=66293), euler #=-73 (155797,465418,309548) : difference with theory (-73) = 0
- CORRECTING DEFECT 25 (vertices=6, convex hull=20, v0=73609)
- After retessellation of defect 25 (v0=73609), euler #=-72 (155799,465430,309559) : difference with theory (-72) = 0
- CORRECTING DEFECT 26 (vertices=27, convex hull=50, v0=76348)
- After retessellation of defect 26 (v0=76348), euler #=-71 (155811,465483,309601) : difference with theory (-71) = 0
- CORRECTING DEFECT 27 (vertices=19, convex hull=40, v0=76804)
- After retessellation of defect 27 (v0=76804), euler #=-70 (155820,465523,309633) : difference with theory (-70) = 0
- CORRECTING DEFECT 28 (vertices=220, convex hull=117, v0=77024)
- After retessellation of defect 28 (v0=77024), euler #=-69 (155834,465626,309723) : difference with theory (-69) = 0
- CORRECTING DEFECT 29 (vertices=76, convex hull=70, v0=78714)
- After retessellation of defect 29 (v0=78714), euler #=-68 (155863,465744,309813) : difference with theory (-68) = 0
- CORRECTING DEFECT 30 (vertices=61, convex hull=65, v0=81580)
- After retessellation of defect 30 (v0=81580), euler #=-67 (155887,465842,309888) : difference with theory (-67) = 0
- CORRECTING DEFECT 31 (vertices=29, convex hull=56, v0=83715)
- After retessellation of defect 31 (v0=83715), euler #=-66 (155902,465908,309940) : difference with theory (-66) = 0
- CORRECTING DEFECT 32 (vertices=8, convex hull=23, v0=89635)
- After retessellation of defect 32 (v0=89635), euler #=-65 (155904,465921,309952) : difference with theory (-65) = 0
- CORRECTING DEFECT 33 (vertices=28, convex hull=55, v0=92922)
- After retessellation of defect 33 (v0=92922), euler #=-64 (155922,465994,310008) : difference with theory (-64) = 0
- CORRECTING DEFECT 34 (vertices=22, convex hull=56, v0=93457)
- After retessellation of defect 34 (v0=93457), euler #=-63 (155929,466037,310045) : difference with theory (-63) = 0
- CORRECTING DEFECT 35 (vertices=38, convex hull=86, v0=94677)
- After retessellation of defect 35 (v0=94677), euler #=-62 (155953,466148,310133) : difference with theory (-62) = 0
- CORRECTING DEFECT 36 (vertices=33, convex hull=56, v0=95063)
- After retessellation of defect 36 (v0=95063), euler #=-61 (155967,466211,310183) : difference with theory (-61) = 0
- CORRECTING DEFECT 37 (vertices=23, convex hull=33, v0=96583)
- After retessellation of defect 37 (v0=96583), euler #=-60 (155974,466239,310205) : difference with theory (-60) = 0
- CORRECTING DEFECT 38 (vertices=10, convex hull=20, v0=96608)
- After retessellation of defect 38 (v0=96608), euler #=-59 (155977,466253,310217) : difference with theory (-59) = 0
- CORRECTING DEFECT 39 (vertices=129, convex hull=83, v0=98014)
- After retessellation of defect 39 (v0=98014), euler #=-58 (155995,466348,310295) : difference with theory (-58) = 0
- CORRECTING DEFECT 40 (vertices=210, convex hull=162, v0=98405)
- After retessellation of defect 40 (v0=98405), euler #=-57 (156047,466584,310480) : difference with theory (-57) = 0
- CORRECTING DEFECT 41 (vertices=32, convex hull=40, v0=99787)
- After retessellation of defect 41 (v0=99787), euler #=-56 (156054,466618,310508) : difference with theory (-56) = 0
- CORRECTING DEFECT 42 (vertices=28, convex hull=62, v0=100658)
- After retessellation of defect 42 (v0=100658), euler #=-55 (156072,466695,310568) : difference with theory (-55) = 0
- CORRECTING DEFECT 43 (vertices=23, convex hull=20, v0=100682)
- After retessellation of defect 43 (v0=100682), euler #=-54 (156077,466719,310588) : difference with theory (-54) = 0
- CORRECTING DEFECT 44 (vertices=34, convex hull=60, v0=101910)
- After retessellation of defect 44 (v0=101910), euler #=-53 (156102,466819,310664) : difference with theory (-53) = 0
- CORRECTING DEFECT 45 (vertices=5, convex hull=19, v0=102011)
- After retessellation of defect 45 (v0=102011), euler #=-52 (156103,466828,310673) : difference with theory (-52) = 0
- CORRECTING DEFECT 46 (vertices=29, convex hull=33, v0=103318)
- After retessellation of defect 46 (v0=103318), euler #=-51 (156111,466860,310698) : difference with theory (-51) = 0
- CORRECTING DEFECT 47 (vertices=85, convex hull=77, v0=103585)
- After retessellation of defect 47 (v0=103585), euler #=-49 (156123,466927,310755) : difference with theory (-50) = -1
- CORRECTING DEFECT 48 (vertices=127, convex hull=31, v0=103819)
- After retessellation of defect 48 (v0=103819), euler #=-48 (156129,466957,310780) : difference with theory (-49) = -1
- CORRECTING DEFECT 49 (vertices=21, convex hull=51, v0=106902)
- After retessellation of defect 49 (v0=106902), euler #=-47 (156138,467005,310820) : difference with theory (-48) = -1
- CORRECTING DEFECT 50 (vertices=31, convex hull=34, v0=106955)
- After retessellation of defect 50 (v0=106955), euler #=-46 (156141,467027,310840) : difference with theory (-47) = -1
- CORRECTING DEFECT 51 (vertices=59, convex hull=74, v0=108097)
- After retessellation of defect 51 (v0=108097), euler #=-45 (156162,467123,310916) : difference with theory (-46) = -1
- CORRECTING DEFECT 52 (vertices=295, convex hull=122, v0=108343)
- After retessellation of defect 52 (v0=108343), euler #=-44 (156226,467381,311111) : difference with theory (-45) = -1
- CORRECTING DEFECT 53 (vertices=13, convex hull=28, v0=110792)
- After retessellation of defect 53 (v0=110792), euler #=-43 (156227,467394,311124) : difference with theory (-44) = -1
- CORRECTING DEFECT 54 (vertices=142, convex hull=133, v0=113196)
- After retessellation of defect 54 (v0=113196), euler #=-42 (156306,467708,311360) : difference with theory (-43) = -1
- CORRECTING DEFECT 55 (vertices=86, convex hull=81, v0=113216)
- After retessellation of defect 55 (v0=113216), euler #=-42 (156338,467844,311464) : difference with theory (-42) = 0
- CORRECTING DEFECT 56 (vertices=25, convex hull=67, v0=113256)
- After retessellation of defect 56 (v0=113256), euler #=-41 (156351,467909,311517) : difference with theory (-41) = 0
- CORRECTING DEFECT 57 (vertices=94, convex hull=82, v0=114256)
- After retessellation of defect 57 (v0=114256), euler #=-40 (156367,467994,311587) : difference with theory (-40) = 0
- CORRECTING DEFECT 58 (vertices=53, convex hull=100, v0=114626)
- After retessellation of defect 58 (v0=114626), euler #=-39 (156392,468119,311688) : difference with theory (-39) = 0
- CORRECTING DEFECT 59 (vertices=71, convex hull=71, v0=114869)
- After retessellation of defect 59 (v0=114869), euler #=-38 (156404,468189,311747) : difference with theory (-38) = 0
- CORRECTING DEFECT 60 (vertices=25, convex hull=52, v0=115505)
- After retessellation of defect 60 (v0=115505), euler #=-37 (156420,468259,311802) : difference with theory (-37) = 0
- CORRECTING DEFECT 61 (vertices=8, convex hull=28, v0=115881)
- After retessellation of defect 61 (v0=115881), euler #=-36 (156424,468278,311818) : difference with theory (-36) = 0
- CORRECTING DEFECT 62 (vertices=109, convex hull=90, v0=116067)
- After retessellation of defect 62 (v0=116067), euler #=-35 (156459,468420,311926) : difference with theory (-35) = 0
- CORRECTING DEFECT 63 (vertices=61, convex hull=94, v0=116879)
- After retessellation of defect 63 (v0=116879), euler #=-35 (156494,468574,312045) : difference with theory (-34) = 1
- CORRECTING DEFECT 64 (vertices=143, convex hull=61, v0=117026)
- After retessellation of defect 64 (v0=117026), euler #=-34 (156502,468625,312089) : difference with theory (-33) = 1
- CORRECTING DEFECT 65 (vertices=38, convex hull=70, v0=117723)
- After retessellation of defect 65 (v0=117723), euler #=-32 (156521,468712,312159) : difference with theory (-32) = 0
- CORRECTING DEFECT 66 (vertices=31, convex hull=55, v0=118330)
- After retessellation of defect 66 (v0=118330), euler #=-31 (156532,468763,312200) : difference with theory (-31) = 0
- CORRECTING DEFECT 67 (vertices=58, convex hull=42, v0=118717)
- After retessellation of defect 67 (v0=118717), euler #=-30 (156541,468803,312232) : difference with theory (-30) = 0
- CORRECTING DEFECT 68 (vertices=95, convex hull=41, v0=119716)
- After retessellation of defect 68 (v0=119716), euler #=-29 (156561,468876,312286) : difference with theory (-29) = 0
- CORRECTING DEFECT 69 (vertices=6, convex hull=19, v0=120803)
- After retessellation of defect 69 (v0=120803), euler #=-28 (156562,468885,312295) : difference with theory (-28) = 0
- CORRECTING DEFECT 70 (vertices=55, convex hull=95, v0=120908)
- After retessellation of defect 70 (v0=120908), euler #=-27 (156571,468952,312354) : difference with theory (-27) = 0
- CORRECTING DEFECT 71 (vertices=24, convex hull=60, v0=120971)
- After retessellation of defect 71 (v0=120971), euler #=-26 (156586,469015,312403) : difference with theory (-26) = 0
- CORRECTING DEFECT 72 (vertices=34, convex hull=72, v0=122542)
- After retessellation of defect 72 (v0=122542), euler #=-25 (156607,469105,312473) : difference with theory (-25) = 0
- CORRECTING DEFECT 73 (vertices=239, convex hull=120, v0=123322)
- After retessellation of defect 73 (v0=123322), euler #=-24 (156674,469361,312663) : difference with theory (-24) = 0
- CORRECTING DEFECT 74 (vertices=93, convex hull=121, v0=125399)
- After retessellation of defect 74 (v0=125399), euler #=-23 (156700,469493,312770) : difference with theory (-23) = 0
- CORRECTING DEFECT 75 (vertices=24, convex hull=35, v0=125608)
- After retessellation of defect 75 (v0=125608), euler #=-22 (156703,469513,312788) : difference with theory (-22) = 0
- CORRECTING DEFECT 76 (vertices=149, convex hull=132, v0=125628)
- After retessellation of defect 76 (v0=125628), euler #=-21 (156721,469626,312884) : difference with theory (-21) = 0
- CORRECTING DEFECT 77 (vertices=35, convex hull=33, v0=126392)
- After retessellation of defect 77 (v0=126392), euler #=-20 (156727,469655,312908) : difference with theory (-20) = 0
- CORRECTING DEFECT 78 (vertices=22, convex hull=23, v0=126413)
- After retessellation of defect 78 (v0=126413), euler #=-19 (156731,469672,312922) : difference with theory (-19) = 0
- CORRECTING DEFECT 79 (vertices=29, convex hull=64, v0=127145)
- After retessellation of defect 79 (v0=127145), euler #=-18 (156744,469733,312971) : difference with theory (-18) = 0
- CORRECTING DEFECT 80 (vertices=55, convex hull=95, v0=127295)
- After retessellation of defect 80 (v0=127295), euler #=-17 (156777,469875,313081) : difference with theory (-17) = 0
- CORRECTING DEFECT 81 (vertices=39, convex hull=33, v0=131902)
- After retessellation of defect 81 (v0=131902), euler #=-16 (156782,469900,313102) : difference with theory (-16) = 0
- CORRECTING DEFECT 82 (vertices=27, convex hull=43, v0=131925)
- After retessellation of defect 82 (v0=131925), euler #=-15 (156790,469940,313135) : difference with theory (-15) = 0
- CORRECTING DEFECT 83 (vertices=43, convex hull=34, v0=131926)
- After retessellation of defect 83 (v0=131926), euler #=-14 (156791,469956,313151) : difference with theory (-14) = 0
- CORRECTING DEFECT 84 (vertices=32, convex hull=69, v0=134376)
- After retessellation of defect 84 (v0=134376), euler #=-13 (156810,470045,313222) : difference with theory (-13) = 0
- CORRECTING DEFECT 85 (vertices=38, convex hull=49, v0=137262)
- After retessellation of defect 85 (v0=137262), euler #=-12 (156825,470106,313269) : difference with theory (-12) = 0
- CORRECTING DEFECT 86 (vertices=50, convex hull=46, v0=140555)
- After retessellation of defect 86 (v0=140555), euler #=-11 (156828,470138,313299) : difference with theory (-11) = 0
- CORRECTING DEFECT 87 (vertices=32, convex hull=64, v0=141475)
- After retessellation of defect 87 (v0=141475), euler #=-10 (156837,470190,313343) : difference with theory (-10) = 0
- CORRECTING DEFECT 88 (vertices=25, convex hull=59, v0=145133)
- After retessellation of defect 88 (v0=145133), euler #=-9 (156853,470258,313396) : difference with theory (-9) = 0
- CORRECTING DEFECT 89 (vertices=65, convex hull=90, v0=147419)
- After retessellation of defect 89 (v0=147419), euler #=-8 (156867,470339,313464) : difference with theory (-8) = 0
- CORRECTING DEFECT 90 (vertices=18, convex hull=39, v0=148320)
- After retessellation of defect 90 (v0=148320), euler #=-7 (156877,470381,313497) : difference with theory (-7) = 0
- CORRECTING DEFECT 91 (vertices=40, convex hull=59, v0=149892)
- After retessellation of defect 91 (v0=149892), euler #=-6 (156898,470465,313561) : difference with theory (-6) = 0
- CORRECTING DEFECT 92 (vertices=21, convex hull=57, v0=150130)
- After retessellation of defect 92 (v0=150130), euler #=-5 (156907,470513,313601) : difference with theory (-5) = 0
- CORRECTING DEFECT 93 (vertices=35, convex hull=88, v0=150891)
- After retessellation of defect 93 (v0=150891), euler #=-4 (156920,470589,313665) : difference with theory (-4) = 0
- CORRECTING DEFECT 94 (vertices=23, convex hull=63, v0=154173)
- After retessellation of defect 94 (v0=154173), euler #=-3 (156928,470641,313710) : difference with theory (-3) = 0
- CORRECTING DEFECT 95 (vertices=44, convex hull=50, v0=154266)
- After retessellation of defect 95 (v0=154266), euler #=-2 (156937,470688,313749) : difference with theory (-2) = 0
- CORRECTING DEFECT 96 (vertices=33, convex hull=72, v0=157508)
- After retessellation of defect 96 (v0=157508), euler #=-1 (156945,470740,313794) : difference with theory (-1) = 0
- CORRECTING DEFECT 97 (vertices=59, convex hull=94, v0=159125)
- After retessellation of defect 97 (v0=159125), euler #=0 (156967,470850,313883) : difference with theory (0) = 0
- CORRECTING DEFECT 98 (vertices=23, convex hull=57, v0=159610)
- After retessellation of defect 98 (v0=159610), euler #=1 (156977,470901,313925) : difference with theory (1) = 0
- CORRECTING DEFECT 99 (vertices=35, convex hull=59, v0=160594)
- After retessellation of defect 99 (v0=160594), euler #=2 (156996,470982,313988) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.25 (0.09-->9.54) (max @ vno 9036 --> 13284)
- 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 (0.09-->9.54) (max @ vno 9036 --> 13284)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 317 mutations (34.6%), 598 crossovers (65.4%), 233 vertices were eliminated
- building final representation...
- 3976 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=156996, nf=313988, ne=470982, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 61.6 minutes
- 0 defective edges
- removing intersecting faces
- 000: 592 intersecting
- 001: 22 intersecting
- 002: 14 intersecting
- mris_fix_topology utimesec 3696.022119
- mris_fix_topology stimesec 0.208968
- mris_fix_topology ru_maxrss 509760
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 56073
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 0
- mris_fix_topology ru_oublock 15424
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 606
- mris_fix_topology ru_nivcsw 8634
- FSRUNTIME@ mris_fix_topology lh 1.0266 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051364 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=-210 (nv=165700, nf=331820, ne=497730, g=106)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 8 iterations
- marking ambiguous vertices...
- 8275 ambiguous faces found in tessellation
- segmenting defects...
- 98 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 57 into 54
- -merging segment 62 into 66
- -merging segment 74 into 72
- 95 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.5313 (-4.7656)
- -vertex loglikelihood: -6.4513 (-3.2257)
- -normal dot loglikelihood: -3.5838 (-3.5838)
- -quad curv loglikelihood: -6.5588 (-3.2794)
- Total Loglikelihood : -26.1252
- CORRECTING DEFECT 0 (vertices=30, convex hull=64, v0=479)
- After retessellation of defect 0 (v0=479), euler #=-95 (160430,478577,318052) : difference with theory (-92) = 3
- CORRECTING DEFECT 1 (vertices=96, convex hull=118, v0=6713)
- After retessellation of defect 1 (v0=6713), euler #=-94 (160443,478674,318137) : difference with theory (-91) = 3
- CORRECTING DEFECT 2 (vertices=135, convex hull=147, v0=17292)
- After retessellation of defect 2 (v0=17292), euler #=-93 (160484,478862,318285) : difference with theory (-90) = 3
- CORRECTING DEFECT 3 (vertices=50, convex hull=63, v0=22433)
- After retessellation of defect 3 (v0=22433), euler #=-92 (160493,478913,318328) : difference with theory (-89) = 3
- CORRECTING DEFECT 4 (vertices=22, convex hull=65, v0=26983)
- After retessellation of defect 4 (v0=26983), euler #=-91 (160503,478964,318370) : difference with theory (-88) = 3
- CORRECTING DEFECT 5 (vertices=30, convex hull=46, v0=29596)
- After retessellation of defect 5 (v0=29596), euler #=-90 (160509,479000,318401) : difference with theory (-87) = 3
- CORRECTING DEFECT 6 (vertices=51, convex hull=86, v0=31302)
- After retessellation of defect 6 (v0=31302), euler #=-89 (160527,479088,318472) : difference with theory (-86) = 3
- CORRECTING DEFECT 7 (vertices=43, convex hull=77, v0=33402)
- After retessellation of defect 7 (v0=33402), euler #=-88 (160554,479196,318554) : difference with theory (-85) = 3
- CORRECTING DEFECT 8 (vertices=22, convex hull=56, v0=39549)
- After retessellation of defect 8 (v0=39549), euler #=-87 (160564,479247,318596) : difference with theory (-84) = 3
- CORRECTING DEFECT 9 (vertices=5, convex hull=17, v0=40523)
- After retessellation of defect 9 (v0=40523), euler #=-86 (160565,479253,318602) : difference with theory (-83) = 3
- CORRECTING DEFECT 10 (vertices=40, convex hull=78, v0=47148)
- After retessellation of defect 10 (v0=47148), euler #=-85 (160585,479346,318676) : difference with theory (-82) = 3
- CORRECTING DEFECT 11 (vertices=5, convex hull=16, v0=48551)
- After retessellation of defect 11 (v0=48551), euler #=-84 (160586,479354,318684) : difference with theory (-81) = 3
- CORRECTING DEFECT 12 (vertices=48, convex hull=84, v0=50215)
- After retessellation of defect 12 (v0=50215), euler #=-83 (160608,479459,318768) : difference with theory (-80) = 3
- CORRECTING DEFECT 13 (vertices=20, convex hull=30, v0=53442)
- After retessellation of defect 13 (v0=53442), euler #=-82 (160610,479474,318782) : difference with theory (-79) = 3
- CORRECTING DEFECT 14 (vertices=71, convex hull=102, v0=54015)
- After retessellation of defect 14 (v0=54015), euler #=-81 (160624,479557,318852) : difference with theory (-78) = 3
- CORRECTING DEFECT 15 (vertices=29, convex hull=68, v0=54174)
- After retessellation of defect 15 (v0=54174), euler #=-80 (160634,479612,318898) : difference with theory (-77) = 3
- CORRECTING DEFECT 16 (vertices=6, convex hull=23, v0=54915)
- After retessellation of defect 16 (v0=54915), euler #=-79 (160634,479619,318906) : difference with theory (-76) = 3
- CORRECTING DEFECT 17 (vertices=79, convex hull=137, v0=56277)
- After retessellation of defect 17 (v0=56277), euler #=-78 (160677,479808,319053) : difference with theory (-75) = 3
- CORRECTING DEFECT 18 (vertices=18, convex hull=40, v0=61564)
- After retessellation of defect 18 (v0=61564), euler #=-77 (160679,479829,319073) : difference with theory (-74) = 3
- CORRECTING DEFECT 19 (vertices=56, convex hull=110, v0=62833)
- After retessellation of defect 19 (v0=62833), euler #=-76 (160704,479953,319173) : difference with theory (-73) = 3
- CORRECTING DEFECT 20 (vertices=52, convex hull=66, v0=62938)
- After retessellation of defect 20 (v0=62938), euler #=-75 (160728,480054,319251) : difference with theory (-72) = 3
- CORRECTING DEFECT 21 (vertices=18, convex hull=20, v0=63959)
- After retessellation of defect 21 (v0=63959), euler #=-74 (160733,480076,319269) : difference with theory (-71) = 3
- CORRECTING DEFECT 22 (vertices=44, convex hull=44, v0=65822)
- After retessellation of defect 22 (v0=65822), euler #=-73 (160747,480138,319318) : difference with theory (-70) = 3
- CORRECTING DEFECT 23 (vertices=5, convex hull=27, v0=66775)
- After retessellation of defect 23 (v0=66775), euler #=-72 (160748,480148,319328) : difference with theory (-69) = 3
- CORRECTING DEFECT 24 (vertices=36, convex hull=65, v0=67090)
- After retessellation of defect 24 (v0=67090), euler #=-71 (160760,480208,319377) : difference with theory (-68) = 3
- CORRECTING DEFECT 25 (vertices=32, convex hull=45, v0=67269)
- After retessellation of defect 25 (v0=67269), euler #=-70 (160779,480283,319434) : difference with theory (-67) = 3
- CORRECTING DEFECT 26 (vertices=138, convex hull=127, v0=68322)
- After retessellation of defect 26 (v0=68322), euler #=-69 (160815,480450,319566) : difference with theory (-66) = 3
- CORRECTING DEFECT 27 (vertices=50, convex hull=85, v0=68842)
- After retessellation of defect 27 (v0=68842), euler #=-68 (160848,480582,319666) : difference with theory (-65) = 3
- CORRECTING DEFECT 28 (vertices=90, convex hull=111, v0=70075)
- After retessellation of defect 28 (v0=70075), euler #=-67 (160897,480785,319821) : difference with theory (-64) = 3
- CORRECTING DEFECT 29 (vertices=35, convex hull=73, v0=72425)
- After retessellation of defect 29 (v0=72425), euler #=-66 (160906,480839,319867) : difference with theory (-63) = 3
- CORRECTING DEFECT 30 (vertices=6, convex hull=25, v0=77224)
- After retessellation of defect 30 (v0=77224), euler #=-65 (160909,480854,319880) : difference with theory (-62) = 3
- CORRECTING DEFECT 31 (vertices=38, convex hull=70, v0=77490)
- After retessellation of defect 31 (v0=77490), euler #=-64 (160926,480934,319944) : difference with theory (-61) = 3
- CORRECTING DEFECT 32 (vertices=55, convex hull=78, v0=79209)
- After retessellation of defect 32 (v0=79209), euler #=-63 (160951,481038,320024) : difference with theory (-60) = 3
- CORRECTING DEFECT 33 (vertices=21, convex hull=39, v0=83266)
- After retessellation of defect 33 (v0=83266), euler #=-62 (160962,481085,320061) : difference with theory (-59) = 3
- CORRECTING DEFECT 34 (vertices=21, convex hull=52, v0=87892)
- After retessellation of defect 34 (v0=87892), euler #=-61 (160972,481131,320098) : difference with theory (-58) = 3
- CORRECTING DEFECT 35 (vertices=7, convex hull=15, v0=88492)
- After retessellation of defect 35 (v0=88492), euler #=-60 (160973,481138,320105) : difference with theory (-57) = 3
- CORRECTING DEFECT 36 (vertices=32, convex hull=64, v0=95868)
- After retessellation of defect 36 (v0=95868), euler #=-59 (160982,481193,320152) : difference with theory (-56) = 3
- CORRECTING DEFECT 37 (vertices=42, convex hull=70, v0=98887)
- After retessellation of defect 37 (v0=98887), euler #=-58 (160997,481269,320214) : difference with theory (-55) = 3
- CORRECTING DEFECT 38 (vertices=68, convex hull=98, v0=99844)
- After retessellation of defect 38 (v0=99844), euler #=-57 (161025,481392,320310) : difference with theory (-54) = 3
- CORRECTING DEFECT 39 (vertices=49, convex hull=97, v0=100434)
- After retessellation of defect 39 (v0=100434), euler #=-56 (161059,481535,320420) : difference with theory (-53) = 3
- CORRECTING DEFECT 40 (vertices=61, convex hull=34, v0=102497)
- After retessellation of defect 40 (v0=102497), euler #=-55 (161068,481576,320453) : difference with theory (-52) = 3
- CORRECTING DEFECT 41 (vertices=17, convex hull=43, v0=103334)
- After retessellation of defect 41 (v0=103334), euler #=-54 (161074,481609,320481) : difference with theory (-51) = 3
- CORRECTING DEFECT 42 (vertices=5, convex hull=31, v0=103565)
- After retessellation of defect 42 (v0=103565), euler #=-53 (161076,481623,320494) : difference with theory (-50) = 3
- CORRECTING DEFECT 43 (vertices=25, convex hull=49, v0=103764)
- After retessellation of defect 43 (v0=103764), euler #=-52 (161085,481669,320532) : difference with theory (-49) = 3
- CORRECTING DEFECT 44 (vertices=36, convex hull=76, v0=104838)
- After retessellation of defect 44 (v0=104838), euler #=-51 (161104,481754,320599) : difference with theory (-48) = 3
- CORRECTING DEFECT 45 (vertices=334, convex hull=226, v0=107399)
- After retessellation of defect 45 (v0=107399), euler #=-50 (161251,482303,321002) : difference with theory (-47) = 3
- CORRECTING DEFECT 46 (vertices=58, convex hull=47, v0=108833)
- After retessellation of defect 46 (v0=108833), euler #=-49 (161261,482348,321038) : difference with theory (-46) = 3
- CORRECTING DEFECT 47 (vertices=36, convex hull=58, v0=110191)
- After retessellation of defect 47 (v0=110191), euler #=-48 (161285,482444,321111) : difference with theory (-45) = 3
- CORRECTING DEFECT 48 (vertices=150, convex hull=143, v0=110861)
- After retessellation of defect 48 (v0=110861), euler #=-47 (161295,482552,321210) : difference with theory (-44) = 3
- CORRECTING DEFECT 49 (vertices=7, convex hull=26, v0=113583)
- After retessellation of defect 49 (v0=113583), euler #=-46 (161298,482569,321225) : difference with theory (-43) = 3
- CORRECTING DEFECT 50 (vertices=54, convex hull=77, v0=113829)
- After retessellation of defect 50 (v0=113829), euler #=-45 (161316,482651,321290) : difference with theory (-42) = 3
- CORRECTING DEFECT 51 (vertices=33, convex hull=60, v0=114876)
- After retessellation of defect 51 (v0=114876), euler #=-44 (161325,482702,321333) : difference with theory (-41) = 3
- CORRECTING DEFECT 52 (vertices=49, convex hull=83, v0=115098)
- After retessellation of defect 52 (v0=115098), euler #=-43 (161355,482829,321431) : difference with theory (-40) = 3
- CORRECTING DEFECT 53 (vertices=78, convex hull=46, v0=115175)
- After retessellation of defect 53 (v0=115175), euler #=-42 (161366,482885,321477) : difference with theory (-39) = 3
- CORRECTING DEFECT 54 (vertices=82, convex hull=88, v0=116339)
- After retessellation of defect 54 (v0=116339), euler #=-40 (161375,482948,321533) : difference with theory (-38) = 2
- CORRECTING DEFECT 55 (vertices=32, convex hull=80, v0=116521)
- After retessellation of defect 55 (v0=116521), euler #=-39 (161392,483028,321597) : difference with theory (-37) = 2
- CORRECTING DEFECT 56 (vertices=46, convex hull=75, v0=116942)
- After retessellation of defect 56 (v0=116942), euler #=-38 (161420,483143,321685) : difference with theory (-36) = 2
- CORRECTING DEFECT 57 (vertices=49, convex hull=59, v0=120906)
- After retessellation of defect 57 (v0=120906), euler #=-37 (161443,483236,321756) : difference with theory (-35) = 2
- CORRECTING DEFECT 58 (vertices=46, convex hull=54, v0=120930)
- After retessellation of defect 58 (v0=120930), euler #=-36 (161469,483335,321830) : difference with theory (-34) = 2
- CORRECTING DEFECT 59 (vertices=183, convex hull=123, v0=120985)
- After retessellation of defect 59 (v0=120985), euler #=-35 (161492,483459,321932) : difference with theory (-33) = 2
- CORRECTING DEFECT 60 (vertices=21, convex hull=18, v0=121200)
- After retessellation of defect 60 (v0=121200), euler #=-34 (161496,483474,321944) : difference with theory (-32) = 2
- CORRECTING DEFECT 61 (vertices=66, convex hull=109, v0=122374)
- After retessellation of defect 61 (v0=122374), euler #=-33 (161514,483573,322026) : difference with theory (-31) = 2
- CORRECTING DEFECT 62 (vertices=135, convex hull=137, v0=122392)
- After retessellation of defect 62 (v0=122392), euler #=-32 (161539,483714,322143) : difference with theory (-30) = 2
- CORRECTING DEFECT 63 (vertices=21, convex hull=57, v0=122693)
- After retessellation of defect 63 (v0=122693), euler #=-31 (161550,483768,322187) : difference with theory (-29) = 2
- CORRECTING DEFECT 64 (vertices=65, convex hull=116, v0=123025)
- After retessellation of defect 64 (v0=123025), euler #=-29 (161586,483932,322317) : difference with theory (-28) = 1
- CORRECTING DEFECT 65 (vertices=22, convex hull=46, v0=124056)
- After retessellation of defect 65 (v0=124056), euler #=-28 (161595,483973,322350) : difference with theory (-27) = 1
- CORRECTING DEFECT 66 (vertices=164, convex hull=56, v0=124316)
- After retessellation of defect 66 (v0=124316), euler #=-27 (161604,484025,322394) : difference with theory (-26) = 1
- CORRECTING DEFECT 67 (vertices=8, convex hull=24, v0=126425)
- After retessellation of defect 67 (v0=126425), euler #=-26 (161605,484036,322405) : difference with theory (-25) = 1
- CORRECTING DEFECT 68 (vertices=65, convex hull=88, v0=127338)
- After retessellation of defect 68 (v0=127338), euler #=-25 (161631,484148,322492) : difference with theory (-24) = 1
- CORRECTING DEFECT 69 (vertices=40, convex hull=28, v0=127421)
- After retessellation of defect 69 (v0=127421), euler #=-24 (161635,484168,322509) : difference with theory (-23) = 1
- CORRECTING DEFECT 70 (vertices=162, convex hull=153, v0=128624)
- After retessellation of defect 70 (v0=128624), euler #=-22 (161663,484332,322647) : difference with theory (-22) = 0
- CORRECTING DEFECT 71 (vertices=29, convex hull=59, v0=129174)
- After retessellation of defect 71 (v0=129174), euler #=-21 (161678,484400,322701) : difference with theory (-21) = 0
- CORRECTING DEFECT 72 (vertices=27, convex hull=54, v0=131024)
- After retessellation of defect 72 (v0=131024), euler #=-20 (161687,484446,322739) : difference with theory (-20) = 0
- CORRECTING DEFECT 73 (vertices=30, convex hull=36, v0=131087)
- After retessellation of defect 73 (v0=131087), euler #=-19 (161691,484471,322761) : difference with theory (-19) = 0
- CORRECTING DEFECT 74 (vertices=35, convex hull=52, v0=131139)
- After retessellation of defect 74 (v0=131139), euler #=-18 (161698,484512,322796) : difference with theory (-18) = 0
- CORRECTING DEFECT 75 (vertices=173, convex hull=83, v0=131826)
- After retessellation of defect 75 (v0=131826), euler #=-17 (161726,484637,322894) : difference with theory (-17) = 0
- CORRECTING DEFECT 76 (vertices=12, convex hull=23, v0=132659)
- After retessellation of defect 76 (v0=132659), euler #=-16 (161730,484655,322909) : difference with theory (-16) = 0
- CORRECTING DEFECT 77 (vertices=9, convex hull=28, v0=132690)
- After retessellation of defect 77 (v0=132690), euler #=-15 (161731,484666,322920) : difference with theory (-15) = 0
- CORRECTING DEFECT 78 (vertices=26, convex hull=55, v0=134421)
- After retessellation of defect 78 (v0=134421), euler #=-14 (161746,484731,322971) : difference with theory (-14) = 0
- CORRECTING DEFECT 79 (vertices=23, convex hull=79, v0=135946)
- After retessellation of defect 79 (v0=135946), euler #=-13 (161759,484803,323031) : difference with theory (-13) = 0
- CORRECTING DEFECT 80 (vertices=20, convex hull=55, v0=136409)
- After retessellation of defect 80 (v0=136409), euler #=-12 (161771,484860,323077) : difference with theory (-12) = 0
- CORRECTING DEFECT 81 (vertices=42, convex hull=70, v0=138813)
- After retessellation of defect 81 (v0=138813), euler #=-11 (161782,484922,323129) : difference with theory (-11) = 0
- CORRECTING DEFECT 82 (vertices=40, convex hull=66, v0=139729)
- After retessellation of defect 82 (v0=139729), euler #=-10 (161795,484986,323181) : difference with theory (-10) = 0
- CORRECTING DEFECT 83 (vertices=28, convex hull=42, v0=143077)
- After retessellation of defect 83 (v0=143077), euler #=-9 (161807,485035,323219) : difference with theory (-9) = 0
- CORRECTING DEFECT 84 (vertices=143, convex hull=104, v0=143238)
- After retessellation of defect 84 (v0=143238), euler #=-8 (161846,485197,323343) : difference with theory (-8) = 0
- CORRECTING DEFECT 85 (vertices=95, convex hull=96, v0=143943)
- After retessellation of defect 85 (v0=143943), euler #=-7 (161877,485334,323450) : difference with theory (-7) = 0
- CORRECTING DEFECT 86 (vertices=20, convex hull=51, v0=145752)
- After retessellation of defect 86 (v0=145752), euler #=-6 (161888,485390,323496) : difference with theory (-6) = 0
- CORRECTING DEFECT 87 (vertices=30, convex hull=52, v0=149147)
- After retessellation of defect 87 (v0=149147), euler #=-5 (161904,485457,323548) : difference with theory (-5) = 0
- CORRECTING DEFECT 88 (vertices=47, convex hull=78, v0=151449)
- After retessellation of defect 88 (v0=151449), euler #=-4 (161935,485581,323642) : difference with theory (-4) = 0
- CORRECTING DEFECT 89 (vertices=24, convex hull=56, v0=154111)
- After retessellation of defect 89 (v0=154111), euler #=-3 (161946,485637,323688) : difference with theory (-3) = 0
- CORRECTING DEFECT 90 (vertices=57, convex hull=74, v0=155808)
- After retessellation of defect 90 (v0=155808), euler #=-2 (161971,485740,323767) : difference with theory (-2) = 0
- CORRECTING DEFECT 91 (vertices=47, convex hull=81, v0=156070)
- After retessellation of defect 91 (v0=156070), euler #=-1 (161994,485839,323844) : difference with theory (-1) = 0
- CORRECTING DEFECT 92 (vertices=27, convex hull=63, v0=156869)
- After retessellation of defect 92 (v0=156869), euler #=0 (162008,485904,323896) : difference with theory (0) = 0
- CORRECTING DEFECT 93 (vertices=83, convex hull=111, v0=159918)
- After retessellation of defect 93 (v0=159918), euler #=1 (162039,486056,324018) : difference with theory (1) = 0
- CORRECTING DEFECT 94 (vertices=365, convex hull=114, v0=160452)
- After retessellation of defect 94 (v0=160452), euler #=2 (162099,486291,324194) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.87 +- 0.26 (0.03-->11.88) (max @ vno 118424 --> 122298)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.87 +- 0.26 (0.03-->11.88) (max @ vno 118424 --> 122298)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 310 mutations (36.5%), 540 crossovers (63.5%), 374 vertices were eliminated
- building final representation...
- 3601 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=162099, nf=324194, ne=486291, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 64.4 minutes
- 0 defective edges
- removing intersecting faces
- 000: 635 intersecting
- 001: 19 intersecting
- mris_fix_topology utimesec 3863.754620
- mris_fix_topology stimesec 0.717890
- mris_fix_topology ru_maxrss 517484
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 56652
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 23040
- mris_fix_topology ru_oublock 15824
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 406
- mris_fix_topology ru_nivcsw 10617
- FSRUNTIME@ mris_fix_topology rh 1.0732 hours 1 threads
- PIDs (31917 31920) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 156996 - 470982 + 313988 = 2 --> 0 holes
- F =2V-4: 313988 = 313992-4 (0)
- 2E=3F: 941964 = 941964 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 162099 - 486291 + 324194 = 2 --> 0 holes
- F =2V-4: 324194 = 324198-4 (0)
- 2E=3F: 972582 = 972582 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 55 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 60 intersecting
- 001: 16 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Sat Oct 7 22:30:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051364 lh
- #--------------------------------------------
- #@# Make White Surf rh Sat Oct 7 22:30:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051364 rh
- Waiting for PID 2479 of (2479 2482) to complete...
- Waiting for PID 2482 of (2479 2482) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051364 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-6.0.0/0051364/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- 42280 bright wm thresholded.
- 866 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.orig...
- computing class statistics...
- border white: 298267 voxels (1.78%)
- border gray 340284 voxels (2.03%)
- WM (95.0): 95.7 +- 9.1 [70.0 --> 110.0]
- GM (69.0) : 68.6 +- 10.3 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 55.7 (was 70)
- setting MAX_BORDER_WHITE to 108.1 (was 105)
- setting MIN_BORDER_WHITE to 66.0 (was 85)
- setting MAX_CSF to 45.5 (was 40)
- setting MAX_GRAY to 89.9 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 55.7 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 35.2 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.81 +- 0.23 (0.02-->3.69) (max @ vno 124642 --> 126318)
- face area 0.27 +- 0.13 (0.00-->4.16)
- mean absolute distance = 0.71 +- 0.88
- 3312 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=99+-7.8, GM=66+-7.0
- mean inside = 91.1, mean outside = 71.7
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- mean border=76.2, 171 (171) missing vertices, mean dist 0.3 [0.6 (%32.8)->0.7 (%67.2))]
- %61 local maxima, %34 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.90 +- 0.26 (0.08-->4.90) (max @ vno 85233 --> 75491)
- face area 0.27 +- 0.13 (0.00-->3.50)
- mean absolute distance = 0.36 +- 0.56
- 3499 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=4123445.2, rms=10.752
- 001: dt: 0.5000, sse=2404426.2, rms=7.743 (27.986%)
- 002: dt: 0.5000, sse=1656987.6, rms=5.945 (23.215%)
- 003: dt: 0.5000, sse=1302153.4, rms=4.850 (18.417%)
- 004: dt: 0.5000, sse=1136479.8, rms=4.254 (12.303%)
- 005: dt: 0.5000, sse=1070067.9, rms=3.984 (6.347%)
- 006: dt: 0.5000, sse=1053896.9, rms=3.851 (3.317%)
- rms = 3.80, time step reduction 1 of 3 to 0.250...
- 007: dt: 0.5000, sse=1029691.4, rms=3.804 (1.230%)
- 008: dt: 0.2500, sse=831401.4, rms=2.711 (28.725%)
- 009: dt: 0.2500, sse=781785.0, rms=2.373 (12.493%)
- 010: dt: 0.2500, sse=772941.9, rms=2.299 (3.094%)
- 011: dt: 0.2500, sse=765409.8, rms=2.244 (2.388%)
- rms = 2.22, time step reduction 2 of 3 to 0.125...
- 012: dt: 0.2500, sse=763392.2, rms=2.218 (1.153%)
- 013: dt: 0.1250, sse=752898.4, rms=2.137 (3.659%)
- rms = 2.13, time step reduction 3 of 3 to 0.062...
- 014: dt: 0.1250, sse=751332.7, rms=2.126 (0.542%)
- positioning took 3.4 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=80.1, 166 (36) missing vertices, mean dist -0.2 [0.4 (%75.0)->0.3 (%25.0))]
- %77 local maxima, %19 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 (0.09-->4.94) (max @ vno 85233 --> 75491)
- face area 0.34 +- 0.17 (0.00-->4.44)
- mean absolute distance = 0.25 +- 0.37
- 3107 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1557808.0, rms=5.121
- 015: dt: 0.5000, sse=1125222.5, rms=3.419 (33.243%)
- rms = 3.62, time step reduction 1 of 3 to 0.250...
- 016: dt: 0.2500, sse=974391.1, rms=2.608 (23.712%)
- 017: dt: 0.2500, sse=907503.1, rms=2.125 (18.511%)
- 018: dt: 0.2500, sse=885300.7, rms=1.919 (9.712%)
- 019: dt: 0.2500, sse=875887.0, rms=1.865 (2.814%)
- rms = 1.83, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=873118.5, rms=1.833 (1.702%)
- 021: dt: 0.1250, sse=863672.9, rms=1.751 (4.460%)
- rms = 1.75, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=863998.1, rms=1.748 (0.188%)
- positioning took 2.0 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=82.4, 176 (18) missing vertices, mean dist -0.1 [0.3 (%67.8)->0.2 (%32.2))]
- %85 local maxima, %10 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.89 +- 0.26 (0.03-->5.04) (max @ vno 85233 --> 75491)
- face area 0.33 +- 0.16 (0.00-->4.45)
- mean absolute distance = 0.22 +- 0.31
- 3467 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1073828.0, rms=3.267
- 023: dt: 0.5000, sse=1069174.8, rms=3.188 (2.394%)
- rms = 3.52, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=903623.4, rms=2.212 (30.629%)
- 025: dt: 0.2500, sse=857700.6, rms=1.803 (18.490%)
- 026: dt: 0.2500, sse=840650.8, rms=1.699 (5.769%)
- rms = 1.69, time step reduction 2 of 3 to 0.125...
- 027: dt: 0.2500, sse=841072.0, rms=1.690 (0.501%)
- 028: dt: 0.1250, sse=827441.1, rms=1.577 (6.696%)
- rms = 1.57, time step reduction 3 of 3 to 0.062...
- 029: dt: 0.1250, sse=827694.5, rms=1.573 (0.274%)
- positioning took 1.7 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 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
- removing 3 vertex label from ripped group
- mean border=83.2, 235 (13) missing vertices, mean dist -0.0 [0.2 (%54.1)->0.2 (%45.9))]
- %88 local maxima, % 7 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-6.0.0/0051364/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=844173.1, rms=1.800
- rms = 2.10, time step reduction 1 of 3 to 0.250...
- 030: dt: 0.2500, sse=798725.9, rms=1.329 (26.175%)
- 031: dt: 0.2500, sse=785924.4, rms=1.166 (12.288%)
- rms = 1.19, time step reduction 2 of 3 to 0.125...
- rms = 1.16, time step reduction 3 of 3 to 0.062...
- 032: dt: 0.1250, sse=784077.9, rms=1.160 (0.492%)
- positioning took 0.5 minutes
- generating cortex label...
- 20 non-cortical segments detected
- only using segment with 8292 vertices
- erasing segment 0 (vno[0] = 54370)
- erasing segment 2 (vno[0] = 66335)
- erasing segment 3 (vno[0] = 84802)
- erasing segment 4 (vno[0] = 91978)
- erasing segment 5 (vno[0] = 96711)
- erasing segment 6 (vno[0] = 99272)
- erasing segment 7 (vno[0] = 102794)
- erasing segment 8 (vno[0] = 110166)
- erasing segment 9 (vno[0] = 113373)
- erasing segment 10 (vno[0] = 113433)
- erasing segment 11 (vno[0] = 114608)
- erasing segment 12 (vno[0] = 115810)
- erasing segment 13 (vno[0] = 118102)
- erasing segment 14 (vno[0] = 119025)
- erasing segment 15 (vno[0] = 119112)
- erasing segment 16 (vno[0] = 119959)
- erasing segment 17 (vno[0] = 122691)
- erasing segment 18 (vno[0] = 122735)
- erasing segment 19 (vno[0] = 131594)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.area
- vertex spacing 0.89 +- 0.26 (0.04-->5.05) (max @ vno 75491 --> 85233)
- face area 0.33 +- 0.16 (0.00-->4.44)
- refinement took 10.5 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051364 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-6.0.0/0051364/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- 42280 bright wm thresholded.
- 866 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.orig...
- computing class statistics...
- border white: 298267 voxels (1.78%)
- border gray 340284 voxels (2.03%)
- WM (95.0): 95.7 +- 9.1 [70.0 --> 110.0]
- GM (69.0) : 68.6 +- 10.3 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 57.7 (was 70)
- setting MAX_BORDER_WHITE to 108.1 (was 105)
- setting MIN_BORDER_WHITE to 68.0 (was 85)
- setting MAX_CSF to 47.5 (was 40)
- setting MAX_GRAY to 89.9 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 57.7 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 37.2 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.80 +- 0.24 (0.02-->6.18) (max @ vno 118424 --> 122298)
- face area 0.27 +- 0.13 (0.00-->5.83)
- mean absolute distance = 0.72 +- 0.91
- 3708 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=99+-7.8, GM=68+-7.0
- mean inside = 91.0, mean outside = 72.7
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- mean border=78.0, 150 (150) missing vertices, mean dist 0.2 [0.7 (%36.0)->0.7 (%64.0))]
- %59 local maxima, %37 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.90 +- 0.26 (0.08-->5.95) (max @ vno 118424 --> 122298)
- face area 0.27 +- 0.13 (0.00-->3.87)
- mean absolute distance = 0.38 +- 0.59
- 4235 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=3680414.8, rms=9.822
- 001: dt: 0.5000, sse=2088295.0, rms=6.874 (30.011%)
- 002: dt: 0.5000, sse=1454902.9, rms=5.206 (24.266%)
- 003: dt: 0.5000, sse=1181611.6, rms=4.294 (17.523%)
- 004: dt: 0.5000, sse=1072596.1, rms=3.842 (10.530%)
- 005: dt: 0.5000, sse=1034810.5, rms=3.634 (5.412%)
- 006: dt: 0.5000, sse=1011436.8, rms=3.542 (2.534%)
- rms = 3.50, time step reduction 1 of 3 to 0.250...
- 007: dt: 0.5000, sse=994121.9, rms=3.497 (1.254%)
- 008: dt: 0.2500, sse=815945.4, rms=2.468 (29.423%)
- 009: dt: 0.2500, sse=773228.9, rms=2.160 (12.508%)
- 010: dt: 0.2500, sse=765783.9, rms=2.097 (2.886%)
- rms = 2.05, time step reduction 2 of 3 to 0.125...
- 011: dt: 0.2500, sse=761771.8, rms=2.051 (2.224%)
- 012: dt: 0.1250, sse=752119.2, rms=1.985 (3.212%)
- rms = 1.98, time step reduction 3 of 3 to 0.062...
- 013: dt: 0.1250, sse=751749.1, rms=1.978 (0.359%)
- positioning took 3.0 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- mean border=81.6, 137 (39) missing vertices, mean dist -0.2 [0.4 (%73.4)->0.3 (%26.6))]
- %74 local maxima, %21 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 (0.07-->5.78) (max @ vno 118424 --> 122298)
- face area 0.34 +- 0.17 (0.00-->5.14)
- mean absolute distance = 0.27 +- 0.38
- 3898 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1493852.8, rms=4.777
- 014: dt: 0.5000, sse=1116975.0, rms=3.236 (32.257%)
- rms = 3.33, time step reduction 1 of 3 to 0.250...
- 015: dt: 0.2500, sse=983181.0, rms=2.519 (22.144%)
- 016: dt: 0.2500, sse=928862.3, rms=2.045 (18.814%)
- 017: dt: 0.2500, sse=896044.1, rms=1.844 (9.863%)
- 018: dt: 0.2500, sse=885846.8, rms=1.771 (3.916%)
- rms = 1.73, time step reduction 2 of 3 to 0.125...
- 019: dt: 0.2500, sse=884384.9, rms=1.731 (2.283%)
- 020: dt: 0.1250, sse=873302.4, rms=1.667 (3.685%)
- rms = 1.66, time step reduction 3 of 3 to 0.062...
- 021: dt: 0.1250, sse=872504.2, rms=1.662 (0.291%)
- positioning took 2.0 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=83.9, 150 (14) missing vertices, mean dist -0.1 [0.3 (%67.9)->0.2 (%32.1))]
- %84 local maxima, %12 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-->5.73) (max @ vno 118424 --> 122298)
- face area 0.33 +- 0.16 (0.00-->5.15)
- mean absolute distance = 0.23 +- 0.33
- 3315 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1087217.8, rms=3.218
- 022: dt: 0.5000, sse=1048595.0, rms=2.875 (10.661%)
- rms = 3.21, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=899278.7, rms=2.029 (29.425%)
- 024: dt: 0.2500, sse=861964.6, rms=1.660 (18.161%)
- 025: dt: 0.2500, sse=855852.2, rms=1.578 (4.938%)
- rms = 1.57, time step reduction 2 of 3 to 0.125...
- 026: dt: 0.2500, sse=847408.3, rms=1.571 (0.461%)
- 027: dt: 0.1250, sse=837731.1, rms=1.498 (4.625%)
- rms = 1.50, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=837818.1, rms=1.500 (-0.101%)
- positioning took 1.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=84.7, 191 (12) missing vertices, mean dist -0.0 [0.3 (%54.6)->0.2 (%45.4))]
- %87 local maxima, % 9 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=859286.6, rms=1.783
- rms = 1.96, time step reduction 1 of 3 to 0.250...
- 029: dt: 0.2500, sse=813132.1, rms=1.313 (26.346%)
- 030: dt: 0.2500, sse=813520.8, rms=1.108 (15.584%)
- rms = 1.13, time step reduction 2 of 3 to 0.125...
- rms = 1.10, time step reduction 3 of 3 to 0.062...
- 031: dt: 0.1250, sse=801486.2, rms=1.105 (0.335%)
- positioning took 0.5 minutes
- generating cortex label...
- 12 non-cortical segments detected
- only using segment with 8262 vertices
- erasing segment 1 (vno[0] = 63179)
- erasing segment 2 (vno[0] = 63291)
- erasing segment 3 (vno[0] = 94797)
- erasing segment 4 (vno[0] = 98754)
- erasing segment 5 (vno[0] = 101919)
- erasing segment 6 (vno[0] = 108589)
- erasing segment 7 (vno[0] = 109265)
- erasing segment 8 (vno[0] = 109716)
- erasing segment 9 (vno[0] = 121100)
- erasing segment 10 (vno[0] = 122155)
- erasing segment 11 (vno[0] = 128937)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.area
- vertex spacing 0.88 +- 0.26 (0.06-->5.75) (max @ vno 118424 --> 122298)
- face area 0.32 +- 0.16 (0.00-->5.02)
- refinement took 10.4 minutes
- PIDs (2479 2482) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Sat Oct 7 22:41:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Sat Oct 7 22:41:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 2846 of (2846 2849) to complete...
- Waiting for PID 2849 of (2846 2849) 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 (2846 2849) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Sat Oct 7 22:41:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Sat Oct 7 22:41:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 2893 of (2893 2896) to complete...
- Waiting for PID 2896 of (2893 2896) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 49.0 mm, total surface area = 93050 mm^2
- writing inflated surface to ../surf/lh.inflated
- writing sulcal depths to ../surf/lh.sulc
-
step 000: RMS=0.185 (target=0.015)
step 005: RMS=0.129 (target=0.015)
step 010: RMS=0.096 (target=0.015)
step 015: RMS=0.079 (target=0.015)
step 020: RMS=0.066 (target=0.015)
step 025: RMS=0.054 (target=0.015)
step 030: RMS=0.046 (target=0.015)
step 035: RMS=0.039 (target=0.015)
step 040: RMS=0.033 (target=0.015)
step 045: RMS=0.029 (target=0.015)
step 050: RMS=0.026 (target=0.015)
step 055: RMS=0.025 (target=0.015)
step 060: RMS=0.023 (target=0.015)
- inflation complete.
- inflation took 0.8 minutes
- mris_inflate utimesec 48.040696
- mris_inflate stimesec 0.120981
- mris_inflate ru_maxrss 230476
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 33666
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 11048
- mris_inflate ru_oublock 12296
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2097
- mris_inflate ru_nivcsw 3574
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 49.0 mm, total surface area = 94417 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.186 (target=0.015)
step 005: RMS=0.129 (target=0.015)
step 010: RMS=0.097 (target=0.015)
step 015: RMS=0.080 (target=0.015)
step 020: RMS=0.067 (target=0.015)
step 025: RMS=0.056 (target=0.015)
step 030: RMS=0.047 (target=0.015)
step 035: RMS=0.039 (target=0.015)
step 040: RMS=0.034 (target=0.015)
step 045: RMS=0.031 (target=0.015)
step 050: RMS=0.027 (target=0.015)
step 055: RMS=0.025 (target=0.015)
step 060: RMS=0.024 (target=0.015)
- inflation complete.
- inflation took 0.8 minutes
- mris_inflate utimesec 47.644756
- mris_inflate stimesec 0.116982
- mris_inflate ru_maxrss 238052
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 34537
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 11408
- mris_inflate ru_oublock 12696
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2299
- mris_inflate ru_nivcsw 3566
- PIDs (2893 2896) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Sat Oct 7 22:42:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 22:42:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 2998 of (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) to complete...
- Waiting for PID 3001 of (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) to complete...
- Waiting for PID 3004 of (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) to complete...
- Waiting for PID 3007 of (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) to complete...
- Waiting for PID 3010 of (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) to complete...
- Waiting for PID 3013 of (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) to complete...
- Waiting for PID 3016 of (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) to complete...
- Waiting for PID 3019 of (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) to complete...
- Waiting for PID 3022 of (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) to complete...
- Waiting for PID 3025 of (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) to complete...
- Waiting for PID 3028 of (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) to complete...
- Waiting for PID 3032 of (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = -16.406*4pi (-206.163) --> 17 handles
- ICI = 229.5, FI = 2182.7, variation=35542.865
- 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
- 186 vertices thresholded to be in k1 ~ [-0.20 0.25], k2 ~ [-0.11 0.07]
- total integrated curvature = 0.503*4pi (6.325) --> 0 handles
- ICI = 1.5, FI = 9.7, variation=166.714
- 165 vertices thresholded to be in [-0.01 0.01]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 146 vertices thresholded to be in [-0.12 0.10]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.016, std = 0.021
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = -12.558*4pi (-157.815) --> 14 handles
- ICI = 239.7, FI = 2269.0, variation=36915.072
- 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
- 218 vertices thresholded to be in k1 ~ [-0.21 0.83], k2 ~ [-0.12 0.07]
- total integrated curvature = 0.390*4pi (4.903) --> 1 handles
- ICI = 1.5, FI = 10.1, variation=171.929
- 153 vertices thresholded to be in [-0.03 0.01]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 133 vertices thresholded to be in [-0.12 0.19]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.016, std = 0.021
- done.
- PIDs (2998 3001 3004 3007 3010 3013 3016 3019 3022 3025 3028 3032) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Sat Oct 7 22:43:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0051364 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 [ 0051364/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 [ 309 ]
- Gb_filter = 0
- WARN: S lookup min: -1.097187
- WARN: S explicit min: 0.000000 vertex = 238
- #-----------------------------------------
- #@# Curvature Stats rh Sat Oct 7 22:44:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0051364 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 [ 0051364/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 [ 260 ]
- Gb_filter = 0
- WARN: S lookup min: -0.986896
- WARN: S explicit min: 0.000000 vertex = 860
- WARN: C lookup max: 263.211761
- WARN: C explicit max: 95.620827 vertex = 127045
- #--------------------------------------------
- #@# Sphere lh Sat Oct 7 22:44:09 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Sat Oct 7 22:44:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 3193 of (3193 3197) to complete...
- Waiting for PID 3197 of (3193 3197) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- setting seed for random number genererator to 1234
- $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- reading original vertex positions...
- unfolding cortex into spherical form...
- surface projected - minimizing metric distortion...
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.278...
- MRISunfold() max_passes = 1 -------
- tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
- using quadratic fit line minimization
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 1.000000
- desired_rms_height -1.000000
- momentum 0.900000
- nbhd_size 7
- max_nbrs 8
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 1234
- --------------------
- mrisRemoveNegativeArea()
- pass 1: epoch 1 of 3 starting distance error %19.89
- pass 1: epoch 2 of 3 starting distance error %19.83
- unfolding complete - removing small folds...
- starting distance error %19.73
- removing remaining folds...
- final distance error %19.75
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 284 negative triangles
- 177: dt=0.9900, 284 negative triangles
- 178: dt=0.9900, 100 negative triangles
- 179: dt=0.9900, 75 negative triangles
- 180: dt=0.9900, 50 negative triangles
- 181: dt=0.9900, 36 negative triangles
- 182: dt=0.9900, 34 negative triangles
- 183: dt=0.9900, 19 negative triangles
- 184: dt=0.9900, 25 negative triangles
- 185: dt=0.9900, 16 negative triangles
- 186: dt=0.9900, 17 negative triangles
- 187: dt=0.9900, 7 negative triangles
- 188: dt=0.9900, 1 negative triangles
- 189: dt=0.9900, 4 negative triangles
- 190: dt=0.9900, 3 negative triangles
- 191: dt=0.9900, 5 negative triangles
- 192: dt=0.9900, 1 negative triangles
- 193: dt=0.9900, 2 negative triangles
- 194: dt=0.9900, 2 negative triangles
- 195: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 1.15 hours
- mris_sphere utimesec 3993.661871
- mris_sphere stimesec 1.504771
- mris_sphere ru_maxrss 323096
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 56964
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 11088
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 124825
- mris_sphere ru_nivcsw 318158
- FSRUNTIME@ mris_sphere 1.1476 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 0.279...
- 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 %20.84
- pass 1: epoch 2 of 3 starting distance error %20.66
- unfolding complete - removing small folds...
- starting distance error %20.56
- removing remaining folds...
- final distance error %20.58
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 388 negative triangles
- 195: dt=0.9900, 388 negative triangles
- 196: dt=0.9900, 177 negative triangles
- 197: dt=0.9900, 120 negative triangles
- 198: dt=0.9900, 113 negative triangles
- 199: dt=0.9900, 101 negative triangles
- 200: dt=0.9900, 77 negative triangles
- 201: dt=0.9900, 78 negative triangles
- 202: dt=0.9900, 73 negative triangles
- 203: dt=0.9900, 87 negative triangles
- 204: dt=0.9900, 78 negative triangles
- 205: dt=0.9900, 67 negative triangles
- 206: dt=0.9900, 60 negative triangles
- 207: dt=0.9900, 71 negative triangles
- 208: dt=0.9900, 64 negative triangles
- 209: dt=0.9900, 70 negative triangles
- 210: dt=0.9900, 71 negative triangles
- 211: dt=0.9900, 61 negative triangles
- 212: dt=0.9900, 55 negative triangles
- 213: dt=0.9900, 60 negative triangles
- 214: dt=0.9900, 58 negative triangles
- 215: dt=0.9900, 56 negative triangles
- 216: dt=0.9900, 56 negative triangles
- 217: dt=0.9900, 60 negative triangles
- 218: dt=0.9900, 47 negative triangles
- 219: dt=0.9900, 44 negative triangles
- 220: dt=0.9900, 41 negative triangles
- 221: dt=0.9900, 49 negative triangles
- 222: dt=0.9900, 46 negative triangles
- 223: dt=0.9900, 39 negative triangles
- 224: dt=0.9900, 37 negative triangles
- 225: dt=0.9900, 36 negative triangles
- 226: dt=0.9900, 31 negative triangles
- 227: dt=0.9900, 25 negative triangles
- 228: dt=0.9900, 30 negative triangles
- 229: dt=0.9900, 24 negative triangles
- 230: dt=0.9900, 27 negative triangles
- 231: dt=0.9900, 24 negative triangles
- 232: dt=0.9900, 25 negative triangles
- 233: dt=0.9900, 22 negative triangles
- 234: dt=0.9900, 28 negative triangles
- 235: dt=0.9900, 21 negative triangles
- 236: dt=0.9900, 25 negative triangles
- 237: dt=0.9900, 20 negative triangles
- 238: dt=0.9900, 18 negative triangles
- 239: dt=0.9900, 18 negative triangles
- 240: dt=0.9900, 19 negative triangles
- 241: dt=0.9900, 20 negative triangles
- 242: dt=0.9900, 20 negative triangles
- 243: dt=0.9900, 17 negative triangles
- 244: dt=0.9900, 20 negative triangles
- 245: dt=0.9900, 14 negative triangles
- 246: dt=0.9900, 15 negative triangles
- 247: dt=0.9900, 17 negative triangles
- 248: dt=0.9900, 17 negative triangles
- 249: dt=0.9900, 15 negative triangles
- 250: dt=0.9900, 17 negative triangles
- 251: dt=0.9900, 14 negative triangles
- 252: dt=0.9900, 18 negative triangles
- 253: dt=0.9900, 15 negative triangles
- 254: dt=0.9900, 18 negative triangles
- 255: dt=0.9405, 18 negative triangles
- 256: dt=0.9405, 18 negative triangles
- 257: dt=0.9405, 17 negative triangles
- 258: dt=0.9405, 18 negative triangles
- 259: dt=0.9405, 13 negative triangles
- 260: dt=0.9405, 15 negative triangles
- 261: dt=0.9405, 15 negative triangles
- 262: dt=0.9405, 12 negative triangles
- 263: dt=0.9405, 15 negative triangles
- 264: dt=0.9405, 9 negative triangles
- 265: dt=0.9405, 9 negative triangles
- 266: dt=0.9405, 9 negative triangles
- 267: dt=0.9405, 8 negative triangles
- 268: dt=0.9405, 12 negative triangles
- 269: dt=0.9405, 9 negative triangles
- 270: dt=0.9405, 8 negative triangles
- 271: dt=0.9405, 6 negative triangles
- 272: dt=0.9405, 10 negative triangles
- 273: dt=0.9405, 7 negative triangles
- 274: dt=0.9405, 4 negative triangles
- 275: dt=0.9405, 3 negative triangles
- 276: dt=0.9405, 4 negative triangles
- 277: dt=0.9405, 4 negative triangles
- 278: dt=0.9405, 3 negative triangles
- 279: dt=0.9405, 1 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 1.34 hours
- mris_sphere utimesec 5226.196497
- mris_sphere stimesec 1.883713
- mris_sphere ru_maxrss 333336
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 58487
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 11472
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 118351
- mris_sphere ru_nivcsw 365834
- FSRUNTIME@ mris_sphere 1.3416 hours 1 threads
- PIDs (3193 3197) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Sun Oct 8 00:04:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg
- #--------------------------------------------
- #@# Surf Reg rh Sun Oct 8 00:04:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 8522 of (8522 8525) to complete...
- Waiting for PID 8525 of (8522 8525) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 = 5.504
- curvature mean = 0.022, std = 0.815
- curvature mean = 0.020, std = 0.851
- Starting MRISrigidBodyAlignGlobal()
- d=32.00 min @ (0.00, -8.00, 0.00) sse = 291366.1, tmin=2.5049
- d=16.00 min @ (4.00, 4.00, 0.00) sse = 255697.2, tmin=3.7412
- d=8.00 min @ (0.00, 0.00, 2.00) sse = 249697.7, tmin=5.0103
- d=4.00 min @ (-1.00, -1.00, 0.00) sse = 246096.4, tmin=6.2954
- d=2.00 min @ (0.00, 0.50, 0.00) sse = 245856.4, tmin=7.5832
- d=1.00 min @ (0.00, 0.00, -0.25) sse = 245727.2, tmin=8.8947
- d=0.50 min @ (-0.12, -0.12, 0.12) sse = 245648.2, tmin=10.2025
- 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 10.20 min
- curvature mean = -0.012, std = 0.813
- curvature mean = 0.009, std = 0.940
- curvature mean = -0.017, std = 0.822
- curvature mean = 0.004, std = 0.973
- curvature mean = -0.021, std = 0.821
- curvature mean = 0.001, std = 0.987
- 2 Reading smoothwm
- curvature mean = -0.028, std = 0.340
- curvature mean = 0.038, std = 0.240
- curvature mean = 0.070, std = 0.280
- curvature mean = 0.032, std = 0.300
- curvature mean = 0.043, std = 0.442
- curvature mean = 0.031, std = 0.327
- curvature mean = 0.025, std = 0.574
- curvature mean = 0.031, std = 0.339
- curvature mean = 0.009, std = 0.689
- MRISregister() return, current seed 0
- -01: dt=0.0000, 114 negative triangles
- 123: dt=0.9900, 114 negative triangles
- expanding nbhd size to 1
- 124: dt=0.9900, 141 negative triangles
- 125: dt=0.9900, 108 negative triangles
- 126: dt=0.9900, 99 negative triangles
- 127: dt=0.9900, 99 negative triangles
- 128: dt=0.9900, 91 negative triangles
- 129: dt=0.9900, 87 negative triangles
- 130: dt=0.9900, 77 negative triangles
- 131: dt=0.9900, 72 negative triangles
- 132: dt=0.9900, 61 negative triangles
- 133: dt=0.9900, 55 negative triangles
- 134: dt=0.9900, 48 negative triangles
- 135: dt=0.9900, 43 negative triangles
- 136: dt=0.9900, 40 negative triangles
- 137: dt=0.9900, 37 negative triangles
- 138: dt=0.9900, 34 negative triangles
- 139: dt=0.9900, 33 negative triangles
- 140: dt=0.9900, 33 negative triangles
- 141: dt=0.9900, 32 negative triangles
- 142: dt=0.9900, 29 negative triangles
- 143: dt=0.9900, 26 negative triangles
- 144: dt=0.9900, 27 negative triangles
- 145: dt=0.9900, 24 negative triangles
- 146: dt=0.9900, 22 negative triangles
- 147: dt=0.9900, 25 negative triangles
- 148: dt=0.9900, 25 negative triangles
- 149: dt=0.9900, 22 negative triangles
- 150: dt=0.9900, 22 negative triangles
- 151: dt=0.9900, 21 negative triangles
- 152: dt=0.9900, 19 negative triangles
- 153: dt=0.9900, 17 negative triangles
- 154: dt=0.9900, 17 negative triangles
- 155: dt=0.9900, 19 negative triangles
- 156: dt=0.9900, 17 negative triangles
- 157: dt=0.9900, 15 negative triangles
- 158: dt=0.9900, 15 negative triangles
- 159: dt=0.9900, 16 negative triangles
- 160: dt=0.9900, 14 negative triangles
- 161: dt=0.9900, 11 negative triangles
- 162: dt=0.9900, 8 negative triangles
- 163: dt=0.9900, 8 negative triangles
- 164: dt=0.9900, 7 negative triangles
- 165: dt=0.9900, 5 negative triangles
- 166: dt=0.9900, 5 negative triangles
- 167: dt=0.9900, 7 negative triangles
- 168: dt=0.9900, 4 negative triangles
- 169: dt=0.9900, 4 negative triangles
- 170: dt=0.9900, 1 negative triangles
- 171: dt=0.9900, 2 negative triangles
- 172: dt=0.9900, 2 negative triangles
- 173: dt=0.9900, 1 negative triangles
- 174: dt=0.9900, 2 negative triangles
- 175: dt=0.9900, 1 negative triangles
- 176: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 1.66 hours
- mris_register utimesec 5980.638804
- mris_register stimesec 5.377182
- mris_register ru_maxrss 286160
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 40863
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 0
- mris_register ru_oublock 11144
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 359687
- mris_register ru_nivcsw 300125
- FSRUNTIME@ mris_register 1.6625 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 = 5.511
- curvature mean = 0.024, std = 0.815
- curvature mean = 0.026, std = 0.850
- Starting MRISrigidBodyAlignGlobal()
- d=32.00 min @ (0.00, -8.00, 0.00) sse = 354403.9, tmin=2.4905
- d=16.00 min @ (0.00, 4.00, 0.00) sse = 336083.9, tmin=3.7436
- d=8.00 min @ (2.00, 0.00, 2.00) sse = 329773.2, tmin=5.0263
- d=4.00 min @ (0.00, -1.00, -1.00) sse = 327185.2, tmin=6.3314
- d=2.00 min @ (0.00, 0.50, 0.00) sse = 326943.9, tmin=7.6444
- d=1.00 min @ (0.25, -0.25, 0.25) sse = 326826.9, tmin=8.9625
- d=0.50 min @ (0.00, 0.12, -0.12) sse = 326778.8, tmin=10.3072
- 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 10.31 min
- curvature mean = -0.001, std = 0.808
- curvature mean = 0.011, std = 0.940
- curvature mean = -0.008, std = 0.813
- curvature mean = 0.005, std = 0.974
- curvature mean = -0.009, std = 0.814
- curvature mean = 0.001, std = 0.988
- 2 Reading smoothwm
- curvature mean = -0.032, std = 0.341
- curvature mean = 0.034, std = 0.238
- curvature mean = 0.080, std = 0.276
- curvature mean = 0.029, std = 0.294
- curvature mean = 0.049, std = 0.439
- curvature mean = 0.028, std = 0.320
- curvature mean = 0.029, std = 0.573
- curvature mean = 0.028, std = 0.331
- curvature mean = 0.012, std = 0.690
- MRISregister() return, current seed 0
- -01: dt=0.0000, 122 negative triangles
- 126: dt=0.9900, 122 negative triangles
- expanding nbhd size to 1
- 127: dt=0.9900, 166 negative triangles
- 128: dt=0.9900, 128 negative triangles
- 129: dt=0.9900, 131 negative triangles
- 130: dt=0.9405, 124 negative triangles
- 131: dt=0.9405, 130 negative triangles
- 132: dt=0.9405, 111 negative triangles
- 133: dt=0.9405, 104 negative triangles
- 134: dt=0.9405, 102 negative triangles
- 135: dt=0.9405, 86 negative triangles
- 136: dt=0.9405, 82 negative triangles
- 137: dt=0.9405, 75 negative triangles
- 138: dt=0.9405, 70 negative triangles
- 139: dt=0.9405, 70 negative triangles
- 140: dt=0.9405, 71 negative triangles
- 141: dt=0.9405, 63 negative triangles
- 142: dt=0.9405, 62 negative triangles
- 143: dt=0.9405, 61 negative triangles
- 144: dt=0.9405, 55 negative triangles
- 145: dt=0.9405, 50 negative triangles
- 146: dt=0.9405, 48 negative triangles
- 147: dt=0.9405, 37 negative triangles
- 148: dt=0.9405, 40 negative triangles
- 149: dt=0.9405, 32 negative triangles
- 150: dt=0.9405, 35 negative triangles
- 151: dt=0.9405, 27 negative triangles
- 152: dt=0.9405, 31 negative triangles
- 153: dt=0.9405, 26 negative triangles
- 154: dt=0.9405, 25 negative triangles
- 155: dt=0.9405, 24 negative triangles
- 156: dt=0.9405, 23 negative triangles
- 157: dt=0.9405, 13 negative triangles
- 158: dt=0.9405, 16 negative triangles
- 159: dt=0.9405, 11 negative triangles
- 160: dt=0.9405, 11 negative triangles
- 161: dt=0.9405, 12 negative triangles
- 162: dt=0.9405, 11 negative triangles
- 163: dt=0.9405, 6 negative triangles
- 164: dt=0.9405, 9 negative triangles
- 165: dt=0.9405, 5 negative triangles
- 166: dt=0.9405, 7 negative triangles
- 167: dt=0.9405, 3 negative triangles
- 168: dt=0.9405, 4 negative triangles
- 169: dt=0.9405, 2 negative triangles
- 170: dt=0.9405, 3 negative triangles
- 171: dt=0.9405, 1 negative triangles
- 172: dt=0.9405, 1 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- registration took 2.06 hours
- mris_register utimesec 8434.875703
- mris_register stimesec 6.324038
- mris_register ru_maxrss 291940
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 40833
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 11408
- mris_register ru_oublock 11496
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 407226
- mris_register ru_nivcsw 353675
- FSRUNTIME@ mris_register 2.0640 hours 1 threads
- PIDs (8522 8525) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Sun Oct 8 02:08:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Sun Oct 8 02:08:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 12666 of (12666 12669) to complete...
- Waiting for PID 12669 of (12666 12669) 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 (12666 12669) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Sun Oct 8 02:08:33 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 02:08:33 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 12714 of (12714 12717) to complete...
- Waiting for PID 12717 of (12714 12717) 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 (12714 12717) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Sun Oct 8 02:08:36 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051364 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 02:08:36 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051364 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 12762 of (12762 12765) to complete...
- Waiting for PID 12765 of (12762 12765) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051364 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...
- 1684 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3590 changed, 156996 examined...
- 001: 836 changed, 14751 examined...
- 002: 220 changed, 4619 examined...
- 003: 73 changed, 1306 examined...
- 004: 33 changed, 436 examined...
- 005: 16 changed, 178 examined...
- 006: 7 changed, 95 examined...
- 007: 3 changed, 46 examined...
- 008: 0 changed, 16 examined...
- 295 labels changed using aseg
- 000: 154 total segments, 111 labels (401 vertices) changed
- 001: 44 total segments, 5 labels (16 vertices) changed
- 002: 39 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 21 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 3036 vertices marked for relabeling...
- 3036 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 20 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051364 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...
- 1177 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3147 changed, 162099 examined...
- 001: 738 changed, 13493 examined...
- 002: 176 changed, 4248 examined...
- 003: 70 changed, 1045 examined...
- 004: 21 changed, 421 examined...
- 005: 4 changed, 135 examined...
- 006: 2 changed, 26 examined...
- 007: 0 changed, 10 examined...
- 149 labels changed using aseg
- 000: 111 total segments, 73 labels (299 vertices) changed
- 001: 39 total segments, 1 labels (1 vertices) changed
- 002: 38 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 5 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1538 vertices marked for relabeling...
- 1538 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 22 seconds.
- PIDs (12762 12765) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Sun Oct 8 02:08:58 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051364 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Sun Oct 8 02:08:58 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051364 rh
- Waiting for PID 12824 of (12824 12827) to complete...
- Waiting for PID 12827 of (12824 12827) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051364 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-6.0.0/0051364/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- 42280 bright wm thresholded.
- 866 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.orig...
- computing class statistics...
- border white: 298267 voxels (1.78%)
- border gray 340284 voxels (2.03%)
- WM (95.0): 95.7 +- 9.1 [70.0 --> 110.0]
- GM (69.0) : 68.6 +- 10.3 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 55.7 (was 70)
- setting MAX_BORDER_WHITE to 108.1 (was 105)
- setting MIN_BORDER_WHITE to 66.0 (was 85)
- setting MAX_CSF to 45.5 (was 40)
- setting MAX_GRAY to 89.9 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 55.7 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 35.2 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=99+-7.8, GM=66+-7.0
- mean inside = 91.1, mean outside = 71.7
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.89 +- 0.26 (0.04-->5.05) (max @ vno 75491 --> 85233)
- face area 0.33 +- 0.16 (0.00-->4.44)
- mean absolute distance = 0.62 +- 0.83
- 2706 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- deleting segment 0 with 1 points - only 0.00% unknown
- deleting segment 2 with 361 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 3 with 2 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 4 with 2 points - only 0.00% unknown
- deleting segment 5 with 5 points - only 0.00% unknown
- deleting segment 6 with 7 points - only 0.00% unknown
- deleting segment 7 with 21 points - only 0.00% unknown
- deleting segment 8 with 29 points - only 0.00% unknown
- deleting segment 9 with 23 points - only 0.00% unknown
- deleting segment 10 with 46 points - only 0.00% unknown
- deleting segment 11 with 5 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 12 with 3 points - only 0.00% unknown
- deleting segment 13 with 32 points - only 0.00% unknown
- mean border=76.2, 141 (140) missing vertices, mean dist 0.4 [1.2 (%11.2)->0.6 (%88.8))]
- %59 local maxima, %36 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.91 +- 0.27 (0.09-->5.23) (max @ vno 85233 --> 75491)
- face area 0.33 +- 0.17 (0.00-->4.35)
- mean absolute distance = 0.35 +- 0.56
- 3294 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2833332.2, rms=8.331
- 001: dt: 0.5000, sse=1433013.4, rms=4.764 (42.819%)
- 002: dt: 0.5000, sse=1169748.2, rms=3.758 (21.110%)
- rms = 3.75, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.5000, sse=1160791.9, rms=3.751 (0.180%)
- 004: dt: 0.2500, sse=938819.9, rms=2.537 (32.368%)
- 005: dt: 0.2500, sse=902811.3, rms=2.268 (10.594%)
- 006: dt: 0.2500, sse=893977.1, rms=2.213 (2.447%)
- 007: dt: 0.2500, sse=886027.9, rms=2.150 (2.832%)
- rms = 2.14, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=886355.3, rms=2.141 (0.411%)
- 009: dt: 0.1250, sse=876568.5, rms=2.065 (3.589%)
- rms = 2.06, time step reduction 3 of 3 to 0.062...
- 010: dt: 0.1250, sse=875855.1, rms=2.057 (0.373%)
- positioning took 1.2 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 7 points - only 0.00% unknown
- deleting segment 1 with 175 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 2 with 3 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 58 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 6 with 4 points - only 0.00% unknown
- deleting segment 7 with 15 points - only 0.00% unknown
- deleting segment 8 with 31 points - only 0.00% unknown
- deleting segment 9 with 6 points - only 0.00% unknown
- deleting segment 10 with 5 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 11 with 3 points - only 0.00% unknown
- deleting segment 12 with 9 points - only 0.00% unknown
- mean border=80.0, 129 (31) missing vertices, mean dist -0.2 [0.4 (%74.6)->0.2 (%25.4))]
- %76 local maxima, %19 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 (0.11-->5.29) (max @ vno 85233 --> 75491)
- face area 0.34 +- 0.17 (0.00-->4.77)
- mean absolute distance = 0.25 +- 0.37
- 3228 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1515549.1, rms=4.937
- 011: dt: 0.5000, sse=1133028.0, rms=3.323 (32.691%)
- rms = 3.53, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.2500, sse=973963.4, rms=2.500 (24.751%)
- 013: dt: 0.2500, sse=907600.3, rms=2.011 (19.557%)
- 014: dt: 0.2500, sse=888317.1, rms=1.824 (9.309%)
- rms = 1.78, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=879746.2, rms=1.776 (2.655%)
- 016: dt: 0.1250, sse=870964.0, rms=1.688 (4.960%)
- rms = 1.68, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=871604.4, rms=1.684 (0.191%)
- positioning took 0.9 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 203 points - only 0.00% unknown
- deleting segment 1 with 9 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 2 with 2 points - only 0.00% unknown
- deleting segment 3 with 59 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 4 with 4 points - only 0.00% unknown
- deleting segment 5 with 18 points - only 0.00% unknown
- deleting segment 6 with 46 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- deleting segment 8 with 27 points - only 0.00% unknown
- mean border=82.3, 131 (18) missing vertices, mean dist -0.1 [0.3 (%67.9)->0.2 (%32.1))]
- %86 local maxima, %10 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.89 +- 0.26 (0.03-->5.27) (max @ vno 85233 --> 75491)
- face area 0.34 +- 0.17 (0.00-->4.62)
- mean absolute distance = 0.22 +- 0.31
- 3374 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1081718.8, rms=3.248
- 018: dt: 0.5000, sse=1072035.0, rms=3.161 (2.678%)
- rms = 3.47, time step reduction 1 of 3 to 0.250...
- 019: dt: 0.2500, sse=910707.1, rms=2.178 (31.100%)
- 020: dt: 0.2500, sse=858207.6, rms=1.751 (19.632%)
- 021: dt: 0.2500, sse=845799.2, rms=1.653 (5.572%)
- rms = 1.64, time step reduction 2 of 3 to 0.125...
- 022: dt: 0.2500, sse=845354.1, rms=1.640 (0.786%)
- 023: dt: 0.1250, sse=835451.5, rms=1.534 (6.456%)
- rms = 1.53, time step reduction 3 of 3 to 0.062...
- 024: dt: 0.1250, sse=834555.5, rms=1.534 (0.040%)
- positioning took 0.9 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 207 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 1 with 4 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 2 with 2 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 3 with 4 points - only 0.00% unknown
- deleting segment 4 with 59 points - only 0.00% unknown
- deleting segment 5 with 5 points - only 0.00% unknown
- deleting segment 6 with 18 points - only 0.00% unknown
- deleting segment 7 with 7 points - only 0.00% unknown
- deleting segment 8 with 51 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 9 with 3 points - only 0.00% unknown
- deleting segment 10 with 30 points - only 0.00% unknown
- mean border=83.1, 214 (15) missing vertices, mean dist -0.0 [0.2 (%54.2)->0.2 (%45.8))]
- %88 local maxima, % 7 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-6.0.0/0051364/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=851500.8, rms=1.783
- rms = 2.08, time step reduction 1 of 3 to 0.250...
- 025: dt: 0.2500, sse=805054.2, rms=1.301 (27.016%)
- 026: dt: 0.2500, sse=792772.8, rms=1.134 (12.897%)
- rms = 1.16, time step reduction 2 of 3 to 0.125...
- rms = 1.13, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=790982.3, rms=1.128 (0.468%)
- positioning took 0.5 minutes
- generating cortex label...
- 18 non-cortical segments detected
- only using segment with 8304 vertices
- erasing segment 1 (vno[0] = 66335)
- erasing segment 2 (vno[0] = 91978)
- erasing segment 3 (vno[0] = 99272)
- erasing segment 4 (vno[0] = 102794)
- erasing segment 5 (vno[0] = 110166)
- erasing segment 6 (vno[0] = 113373)
- erasing segment 7 (vno[0] = 114608)
- erasing segment 8 (vno[0] = 114610)
- erasing segment 9 (vno[0] = 115837)
- erasing segment 10 (vno[0] = 118053)
- erasing segment 11 (vno[0] = 118102)
- erasing segment 12 (vno[0] = 119025)
- erasing segment 13 (vno[0] = 119959)
- erasing segment 14 (vno[0] = 122691)
- erasing segment 15 (vno[0] = 122735)
- erasing segment 16 (vno[0] = 131594)
- erasing segment 17 (vno[0] = 156493)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.area
- vertex spacing 0.89 +- 0.27 (0.04-->5.27) (max @ vno 75491 --> 85233)
- face area 0.33 +- 0.17 (0.00-->4.57)
- 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 2 with 5 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=53.3, 155 (155) missing vertices, mean dist 2.0 [1.2 (%0.0)->2.7 (%100.0))]
- %16 local maxima, %53 large gradients and %26 min vals, 218 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=28635944.0, rms=30.463
- 001: dt: 0.0500, sse=24909434.0, rms=28.354 (6.922%)
- 002: dt: 0.0500, sse=22248160.0, rms=26.746 (5.670%)
- 003: dt: 0.0500, sse=20238466.0, rms=25.465 (4.791%)
- 004: dt: 0.0500, sse=18642282.0, rms=24.399 (4.185%)
- 005: dt: 0.0500, sse=17326458.0, rms=23.484 (3.750%)
- 006: dt: 0.0500, sse=16210879.0, rms=22.680 (3.427%)
- 007: dt: 0.0500, sse=15243654.0, rms=21.958 (3.182%)
- 008: dt: 0.0500, sse=14392115.0, rms=21.302 (2.986%)
- 009: dt: 0.0500, sse=13633469.0, rms=20.701 (2.824%)
- 010: dt: 0.0500, sse=12950535.0, rms=20.144 (2.691%)
- positioning took 1.1 minutes
- mean border=53.1, 133 (75) missing vertices, mean dist 1.6 [0.2 (%0.0)->2.2 (%100.0))]
- %17 local maxima, %53 large gradients and %25 min vals, 209 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=13682876.0, rms=20.748
- 011: dt: 0.0500, sse=13059025.0, rms=20.241 (2.443%)
- 012: dt: 0.0500, sse=12489959.0, rms=19.767 (2.340%)
- 013: dt: 0.0500, sse=11968251.0, rms=19.322 (2.249%)
- 014: dt: 0.0500, sse=11489189.0, rms=18.905 (2.161%)
- 015: dt: 0.0500, sse=11048673.0, rms=18.513 (2.075%)
- 016: dt: 0.0500, sse=10642297.0, rms=18.143 (1.996%)
- 017: dt: 0.0500, sse=10266841.0, rms=17.795 (1.919%)
- 018: dt: 0.0500, sse=9919271.0, rms=17.466 (1.847%)
- 019: dt: 0.0500, sse=9597127.0, rms=17.156 (1.776%)
- 020: dt: 0.0500, sse=9297539.0, rms=16.862 (1.712%)
- positioning took 1.1 minutes
- mean border=53.0, 131 (48) missing vertices, mean dist 1.4 [0.1 (%0.9)->1.9 (%99.1))]
- %17 local maxima, %53 large gradients and %25 min vals, 207 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=9394710.0, rms=16.966
- 021: dt: 0.0500, sse=9108896.0, rms=16.683 (1.670%)
- 022: dt: 0.0500, sse=8842524.0, rms=16.415 (1.610%)
- 023: dt: 0.0500, sse=8592073.0, rms=16.158 (1.564%)
- 024: dt: 0.0500, sse=8357415.5, rms=15.914 (1.512%)
- 025: dt: 0.0500, sse=8136824.5, rms=15.680 (1.465%)
- 026: dt: 0.0500, sse=7928676.0, rms=15.457 (1.424%)
- 027: dt: 0.0500, sse=7730076.0, rms=15.241 (1.399%)
- 028: dt: 0.0500, sse=7539466.5, rms=15.030 (1.381%)
- 029: dt: 0.0500, sse=7356415.0, rms=14.825 (1.365%)
- 030: dt: 0.0500, sse=7180183.0, rms=14.625 (1.351%)
- positioning took 1.1 minutes
- mean border=52.8, 153 (42) missing vertices, mean dist 1.1 [0.1 (%6.3)->1.6 (%93.7))]
- %18 local maxima, %53 large gradients and %24 min vals, 177 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=7282536.0, rms=14.743
- 031: dt: 0.5000, sse=6003782.5, rms=13.215 (10.363%)
- 032: dt: 0.5000, sse=5079876.5, rms=11.984 (9.317%)
- 033: dt: 0.5000, sse=4312542.5, rms=10.859 (9.389%)
- 034: dt: 0.5000, sse=3674073.2, rms=9.817 (9.596%)
- 035: dt: 0.5000, sse=3148809.0, rms=8.870 (9.643%)
- 036: dt: 0.5000, sse=2733691.2, rms=8.039 (9.365%)
- 037: dt: 0.5000, sse=2401105.8, rms=7.311 (9.057%)
- 038: dt: 0.5000, sse=2154718.0, rms=6.716 (8.139%)
- 039: dt: 0.5000, sse=1979978.0, rms=6.264 (6.739%)
- 040: dt: 0.5000, sse=1866654.4, rms=5.948 (5.046%)
- 041: dt: 0.5000, sse=1789891.6, rms=5.727 (3.715%)
- 042: dt: 0.5000, sse=1739331.0, rms=5.572 (2.698%)
- 043: dt: 0.5000, sse=1698016.9, rms=5.448 (2.235%)
- 044: dt: 0.5000, sse=1674394.8, rms=5.370 (1.431%)
- 045: dt: 0.5000, sse=1652052.8, rms=5.302 (1.267%)
- rms = 5.26, time step reduction 1 of 3 to 0.250...
- 046: dt: 0.5000, sse=1639255.1, rms=5.256 (0.853%)
- 047: dt: 0.2500, sse=1484245.0, rms=4.686 (10.860%)
- 048: dt: 0.2500, sse=1436176.6, rms=4.509 (3.760%)
- rms = 4.50, time step reduction 2 of 3 to 0.125...
- 049: dt: 0.2500, sse=1434072.8, rms=4.497 (0.276%)
- 050: dt: 0.1250, sse=1406855.0, rms=4.388 (2.416%)
- rms = 4.37, time step reduction 3 of 3 to 0.062...
- 051: dt: 0.1250, sse=1402893.4, rms=4.372 (0.361%)
- positioning took 2.9 minutes
- mean border=51.0, 1662 (17) missing vertices, mean dist 0.2 [0.2 (%41.5)->0.5 (%58.5))]
- %36 local maxima, %38 large gradients and %21 min vals, 102 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=1847094.9, rms=5.114
- 052: dt: 0.5000, sse=1722487.0, rms=4.694 (8.204%)
- 053: dt: 0.5000, sse=1687493.8, rms=4.614 (1.710%)
- rms = 4.68, time step reduction 1 of 3 to 0.250...
- 054: dt: 0.2500, sse=1515623.2, rms=3.884 (15.815%)
- 055: dt: 0.2500, sse=1465242.5, rms=3.634 (6.444%)
- 056: dt: 0.2500, sse=1453865.4, rms=3.579 (1.505%)
- rms = 3.54, time step reduction 2 of 3 to 0.125...
- 057: dt: 0.2500, sse=1445112.0, rms=3.539 (1.112%)
- 058: dt: 0.1250, sse=1412546.9, rms=3.371 (4.771%)
- rms = 3.33, time step reduction 3 of 3 to 0.062...
- 059: dt: 0.1250, sse=1404300.6, rms=3.330 (1.198%)
- positioning took 1.3 minutes
- mean border=49.7, 1851 (13) missing vertices, mean dist 0.1 [0.2 (%42.0)->0.3 (%58.0))]
- %53 local maxima, %22 large gradients and %20 min vals, 99 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=1508072.5, rms=3.796
- rms = 4.34, time step reduction 1 of 3 to 0.250...
- 060: dt: 0.2500, sse=1439713.2, rms=3.472 (8.546%)
- 061: dt: 0.2500, sse=1420738.6, rms=3.380 (2.642%)
- rms = 3.36, time step reduction 2 of 3 to 0.125...
- 062: dt: 0.2500, sse=1414327.8, rms=3.361 (0.581%)
- 063: dt: 0.1250, sse=1388241.5, rms=3.220 (4.174%)
- rms = 3.19, time step reduction 3 of 3 to 0.062...
- 064: dt: 0.1250, sse=1381551.5, rms=3.188 (1.001%)
- positioning took 0.9 minutes
- mean border=49.1, 3392 (12) missing vertices, mean dist 0.0 [0.2 (%46.6)->0.3 (%53.4))]
- %56 local maxima, %18 large gradients and %20 min vals, 87 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-6.0.0/0051364/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1408449.0, rms=3.321
- rms = 3.84, time step reduction 1 of 3 to 0.250...
- 065: dt: 0.2500, sse=1383346.0, rms=3.188 (4.013%)
- rms = 3.15, time step reduction 2 of 3 to 0.125...
- 066: dt: 0.2500, sse=1372175.0, rms=3.146 (1.322%)
- 067: dt: 0.1250, sse=1358526.6, rms=3.068 (2.482%)
- rms = 3.03, time step reduction 3 of 3 to 0.062...
- 068: dt: 0.1250, sse=1351329.6, rms=3.034 (1.090%)
- positioning took 0.8 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.area.pial
- vertex spacing 1.01 +- 0.46 (0.06-->7.59) (max @ vno 155986 --> 155984)
- face area 0.41 +- 0.34 (0.00-->7.19)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 156996 vertices processed
- 25000 of 156996 vertices processed
- 50000 of 156996 vertices processed
- 75000 of 156996 vertices processed
- 100000 of 156996 vertices processed
- 125000 of 156996 vertices processed
- 150000 of 156996 vertices processed
- 0 of 156996 vertices processed
- 25000 of 156996 vertices processed
- 50000 of 156996 vertices processed
- 75000 of 156996 vertices processed
- 100000 of 156996 vertices processed
- 125000 of 156996 vertices processed
- 150000 of 156996 vertices processed
- thickness calculation complete, 226:861 truncations.
- 30725 vertices at 0 distance
- 103584 vertices at 1 distance
- 100739 vertices at 2 distance
- 44812 vertices at 3 distance
- 14379 vertices at 4 distance
- 4132 vertices at 5 distance
- 1390 vertices at 6 distance
- 485 vertices at 7 distance
- 195 vertices at 8 distance
- 135 vertices at 9 distance
- 94 vertices at 10 distance
- 57 vertices at 11 distance
- 32 vertices at 12 distance
- 21 vertices at 13 distance
- 17 vertices at 14 distance
- 15 vertices at 15 distance
- 13 vertices at 16 distance
- 10 vertices at 17 distance
- 3 vertices at 18 distance
- 1 vertices at 19 distance
- 7 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.thickness
- positioning took 17.2 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051364 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-6.0.0/0051364/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- 42280 bright wm thresholded.
- 866 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.orig...
- computing class statistics...
- border white: 298267 voxels (1.78%)
- border gray 340284 voxels (2.03%)
- WM (95.0): 95.7 +- 9.1 [70.0 --> 110.0]
- GM (69.0) : 68.6 +- 10.3 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 57.7 (was 70)
- setting MAX_BORDER_WHITE to 108.1 (was 105)
- setting MIN_BORDER_WHITE to 68.0 (was 85)
- setting MAX_CSF to 47.5 (was 40)
- setting MAX_GRAY to 89.9 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 57.7 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 37.2 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=99+-7.8, GM=68+-7.0
- mean inside = 91.0, mean outside = 72.7
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.88 +- 0.26 (0.06-->5.75) (max @ vno 118424 --> 122298)
- face area 0.32 +- 0.16 (0.00-->5.02)
- mean absolute distance = 0.65 +- 0.85
- 2853 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- deleting segment 1 with 3 points - only 0.00% unknown
- deleting segment 2 with 10 points - only 0.00% unknown
- deleting segment 3 with 320 points - only 0.00% unknown
- deleting segment 4 with 34 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 5 with 2 points - only 0.00% unknown
- deleting segment 6 with 22 points - only 0.00% unknown
- deleting segment 8 with 24 points - only 0.00% unknown
- deleting segment 9 with 8 points - only 0.00% unknown
- deleting segment 10 with 19 points - only 0.00% unknown
- deleting segment 11 with 38 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 12 with 3 points - only 0.00% unknown
- mean border=78.0, 173 (173) missing vertices, mean dist 0.4 [1.2 (%11.7)->0.6 (%88.3))]
- %57 local maxima, %38 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.90 +- 0.27 (0.10-->5.76) (max @ vno 118424 --> 122298)
- face area 0.32 +- 0.17 (0.00-->4.62)
- mean absolute distance = 0.38 +- 0.59
- 4306 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2718803.2, rms=7.926
- 001: dt: 0.5000, sse=1422053.5, rms=4.601 (41.954%)
- 002: dt: 0.5000, sse=1153861.6, rms=3.559 (22.646%)
- 003: dt: 0.5000, sse=1123610.9, rms=3.477 (2.295%)
- 004: dt: 0.5000, sse=1084506.4, rms=3.303 (5.005%)
- rms = 3.45, time step reduction 1 of 3 to 0.250...
- 005: dt: 0.2500, sse=945790.2, rms=2.476 (25.040%)
- 006: dt: 0.2500, sse=902323.3, rms=2.113 (14.666%)
- 007: dt: 0.2500, sse=894135.3, rms=2.016 (4.578%)
- rms = 2.01, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=884415.9, rms=2.005 (0.531%)
- 009: dt: 0.1250, sse=878648.8, rms=1.943 (3.109%)
- rms = 1.94, time step reduction 3 of 3 to 0.062...
- 010: dt: 0.1250, sse=877828.9, rms=1.941 (0.123%)
- positioning took 1.5 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 11 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 1 with 2 points - only 0.00% unknown
- deleting segment 2 with 129 points - only 0.00% unknown
- deleting segment 3 with 35 points - only 0.00% unknown
- deleting segment 4 with 5 points - only 0.00% unknown
- deleting segment 5 with 53 points - only 0.00% unknown
- deleting segment 6 with 12 points - only 0.00% unknown
- deleting segment 7 with 10 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 8 with 3 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 9 with 3 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 10 with 2 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 11 with 4 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 12 with 2 points - only 0.00% unknown
- mean border=81.5, 116 (30) missing vertices, mean dist -0.2 [0.4 (%72.9)->0.2 (%27.1))]
- %74 local maxima, %22 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 (0.07-->5.62) (max @ vno 118424 --> 122298)
- face area 0.34 +- 0.17 (0.00-->4.99)
- mean absolute distance = 0.27 +- 0.38
- 3885 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1458082.0, rms=4.614
- 011: dt: 0.5000, sse=1107539.1, rms=3.131 (32.132%)
- rms = 3.24, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.2500, sse=978974.8, rms=2.411 (22.988%)
- 013: dt: 0.2500, sse=914440.5, rms=1.929 (20.016%)
- 014: dt: 0.2500, sse=893880.9, rms=1.743 (9.616%)
- 015: dt: 0.2500, sse=888941.3, rms=1.679 (3.671%)
- rms = 1.66, time step reduction 2 of 3 to 0.125...
- 016: dt: 0.2500, sse=885594.5, rms=1.661 (1.084%)
- 017: dt: 0.1250, sse=878067.8, rms=1.599 (3.769%)
- rms = 1.60, time step reduction 3 of 3 to 0.062...
- 018: dt: 0.1250, sse=878235.9, rms=1.599 (-0.026%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 11 points - only 0.00% unknown
- deleting segment 1 with 9 points - only 0.00% unknown
- deleting segment 2 with 207 points - only 0.00% unknown
- deleting segment 3 with 35 points - only 0.00% unknown
- deleting segment 4 with 9 points - only 0.00% unknown
- deleting segment 6 with 15 points - only 0.00% unknown
- deleting segment 7 with 10 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 8 with 3 points - only 0.00% unknown
- deleting segment 9 with 15 points - only 0.00% unknown
- deleting segment 10 with 5 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 11 with 3 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 12 with 2 points - only 0.00% unknown
- mean border=83.8, 167 (21) missing vertices, mean dist -0.1 [0.3 (%67.9)->0.2 (%32.1))]
- %84 local maxima, %12 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 (0.11-->5.63) (max @ vno 118424 --> 122298)
- face area 0.33 +- 0.17 (0.00-->4.89)
- mean absolute distance = 0.23 +- 0.32
- 3361 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1094374.8, rms=3.206
- 019: dt: 0.5000, sse=1052669.2, rms=2.852 (11.021%)
- rms = 3.18, time step reduction 1 of 3 to 0.250...
- 020: dt: 0.2500, sse=906285.6, rms=2.003 (29.767%)
- 021: dt: 0.2500, sse=861999.8, rms=1.630 (18.656%)
- 022: dt: 0.2500, sse=852831.0, rms=1.542 (5.369%)
- rms = 1.54, time step reduction 2 of 3 to 0.125...
- 023: dt: 0.2500, sse=851637.4, rms=1.535 (0.435%)
- 024: dt: 0.1250, sse=864047.1, rms=1.454 (5.314%)
- rms = 1.46, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=842622.3, rms=1.458 (-0.293%)
- positioning took 1.0 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 8 points - only 0.00% unknown
- deleting segment 1 with 10 points - only 0.00% unknown
- deleting segment 2 with 229 points - only 0.00% unknown
- deleting segment 3 with 35 points - only 0.00% unknown
- deleting segment 4 with 19 points - only 0.00% unknown
- deleting segment 5 with 18 points - only 0.00% unknown
- deleting segment 6 with 11 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 7 with 4 points - only 0.00% unknown
- deleting segment 8 with 15 points - only 0.00% unknown
- deleting segment 9 with 11 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 10 with 3 points - only 0.00% unknown
- mean border=84.6, 204 (21) missing vertices, mean dist -0.0 [0.3 (%55.0)->0.2 (%45.0))]
- %87 local maxima, % 9 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=886367.9, rms=1.761
- rms = 1.96, time step reduction 1 of 3 to 0.250...
- 026: dt: 0.2500, sse=822106.8, rms=1.278 (27.386%)
- 027: dt: 0.2500, sse=808835.8, rms=1.074 (15.960%)
- rms = 1.10, time step reduction 2 of 3 to 0.125...
- rms = 1.07, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=803133.6, rms=1.070 (0.386%)
- positioning took 0.6 minutes
- generating cortex label...
- 13 non-cortical segments detected
- only using segment with 8254 vertices
- erasing segment 1 (vno[0] = 61939)
- erasing segment 2 (vno[0] = 63179)
- erasing segment 3 (vno[0] = 94797)
- erasing segment 4 (vno[0] = 98754)
- erasing segment 5 (vno[0] = 101575)
- erasing segment 6 (vno[0] = 101919)
- erasing segment 7 (vno[0] = 108589)
- erasing segment 8 (vno[0] = 109265)
- erasing segment 9 (vno[0] = 109716)
- erasing segment 10 (vno[0] = 121100)
- erasing segment 11 (vno[0] = 122155)
- erasing segment 12 (vno[0] = 128937)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.area
- vertex spacing 0.88 +- 0.27 (0.06-->5.67) (max @ vno 118424 --> 122298)
- face area 0.33 +- 0.17 (0.00-->4.84)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- deleting segment 1 with 4 points - only 0.00% unknown
- deleting segment 3 with 35 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=55.3, 178 (178) missing vertices, mean dist 1.9 [2.0 (%0.0)->2.7 (%100.0))]
- %17 local maxima, %51 large gradients and %28 min vals, 265 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=28608824.0, rms=29.936
- 001: dt: 0.0500, sse=25034376.0, rms=27.949 (6.639%)
- 002: dt: 0.0500, sse=22486032.0, rms=26.441 (5.396%)
- 003: dt: 0.0500, sse=20560334.0, rms=25.241 (4.537%)
- 004: dt: 0.0500, sse=19027718.0, rms=24.244 (3.951%)
- 005: dt: 0.0500, sse=17760816.0, rms=23.388 (3.533%)
- 006: dt: 0.0500, sse=16682865.0, rms=22.633 (3.225%)
- 007: dt: 0.0500, sse=15746401.0, rms=21.957 (2.988%)
- 008: dt: 0.0500, sse=14920118.0, rms=21.342 (2.799%)
- 009: dt: 0.0500, sse=14181428.0, rms=20.777 (2.647%)
- 010: dt: 0.0500, sse=13514182.0, rms=20.253 (2.521%)
- positioning took 1.2 minutes
- mean border=55.1, 135 (71) missing vertices, mean dist 1.6 [0.3 (%0.0)->2.2 (%100.0))]
- %18 local maxima, %51 large gradients and %27 min vals, 262 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=14301261.0, rms=20.875
- 011: dt: 0.0500, sse=13689916.0, rms=20.398 (2.285%)
- 012: dt: 0.0500, sse=13130916.0, rms=19.952 (2.187%)
- 013: dt: 0.0500, sse=12617927.0, rms=19.533 (2.097%)
- 014: dt: 0.0500, sse=12145498.0, rms=19.140 (2.014%)
- 015: dt: 0.0500, sse=11709130.0, rms=18.769 (1.937%)
- 016: dt: 0.0500, sse=11305376.0, rms=18.419 (1.864%)
- 017: dt: 0.0500, sse=10930726.0, rms=18.089 (1.795%)
- 018: dt: 0.0500, sse=10582567.0, rms=17.776 (1.730%)
- 019: dt: 0.0500, sse=10257826.0, rms=17.479 (1.671%)
- 020: dt: 0.0500, sse=9953924.0, rms=17.196 (1.617%)
- positioning took 1.2 minutes
- mean border=54.9, 145 (51) missing vertices, mean dist 1.3 [0.1 (%1.1)->1.9 (%98.9))]
- %18 local maxima, %51 large gradients and %27 min vals, 247 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=10089972.0, rms=17.331
- 021: dt: 0.0500, sse=9797550.0, rms=17.057 (1.582%)
- 022: dt: 0.0500, sse=9523261.0, rms=16.796 (1.532%)
- 023: dt: 0.0500, sse=9263756.0, rms=16.545 (1.495%)
- 024: dt: 0.0500, sse=9018850.0, rms=16.304 (1.454%)
- 025: dt: 0.0500, sse=8787064.0, rms=16.073 (1.417%)
- 026: dt: 0.0500, sse=8567344.0, rms=15.851 (1.383%)
- 027: dt: 0.0500, sse=8356980.0, rms=15.635 (1.362%)
- 028: dt: 0.0500, sse=8154154.0, rms=15.424 (1.350%)
- 029: dt: 0.0500, sse=7958160.5, rms=15.217 (1.341%)
- 030: dt: 0.0500, sse=7768649.0, rms=15.014 (1.332%)
- positioning took 1.2 minutes
- mean border=54.8, 175 (40) missing vertices, mean dist 1.1 [0.1 (%6.8)->1.6 (%93.2))]
- %18 local maxima, %51 large gradients and %26 min vals, 233 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=7874848.5, rms=15.129
- 031: dt: 0.5000, sse=6475438.0, rms=13.555 (10.407%)
- 032: dt: 0.5000, sse=5427789.5, rms=12.237 (9.722%)
- 033: dt: 0.5000, sse=4558280.5, rms=11.028 (9.884%)
- 034: dt: 0.5000, sse=3841658.2, rms=9.912 (10.112%)
- 035: dt: 0.5000, sse=3247885.5, rms=8.886 (10.355%)
- 036: dt: 0.5000, sse=2779063.2, rms=7.978 (10.223%)
- 037: dt: 0.5000, sse=2413329.0, rms=7.194 (9.820%)
- 038: dt: 0.5000, sse=2155329.2, rms=6.581 (8.525%)
- 039: dt: 0.5000, sse=1966400.4, rms=6.096 (7.368%)
- 040: dt: 0.5000, sse=1841121.5, rms=5.748 (5.714%)
- 041: dt: 0.5000, sse=1755132.5, rms=5.499 (4.328%)
- 042: dt: 0.5000, sse=1703709.6, rms=5.341 (2.880%)
- 043: dt: 0.5000, sse=1667561.5, rms=5.230 (2.068%)
- 044: dt: 0.5000, sse=1646268.1, rms=5.159 (1.351%)
- 045: dt: 0.5000, sse=1628619.9, rms=5.105 (1.049%)
- rms = 5.06, time step reduction 1 of 3 to 0.250...
- 046: dt: 0.5000, sse=1615679.1, rms=5.060 (0.880%)
- 047: dt: 0.2500, sse=1457422.1, rms=4.471 (11.640%)
- 048: dt: 0.2500, sse=1408274.5, rms=4.289 (4.089%)
- rms = 4.28, time step reduction 2 of 3 to 0.125...
- 049: dt: 0.2500, sse=1408675.4, rms=4.285 (0.091%)
- 050: dt: 0.1250, sse=1381035.0, rms=4.172 (2.623%)
- rms = 4.16, time step reduction 3 of 3 to 0.062...
- 051: dt: 0.1250, sse=1377274.6, rms=4.157 (0.364%)
- positioning took 3.2 minutes
- mean border=53.1, 1858 (14) missing vertices, mean dist 0.2 [0.2 (%42.0)->0.5 (%58.0))]
- %35 local maxima, %36 large gradients and %23 min vals, 115 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=1813774.2, rms=4.899
- 052: dt: 0.5000, sse=1701879.0, rms=4.525 (7.625%)
- 053: dt: 0.5000, sse=1662245.1, rms=4.423 (2.253%)
- rms = 4.47, time step reduction 1 of 3 to 0.250...
- 054: dt: 0.2500, sse=1488992.4, rms=3.678 (16.861%)
- 055: dt: 0.2500, sse=1434747.1, rms=3.404 (7.433%)
- 056: dt: 0.2500, sse=1422045.1, rms=3.341 (1.869%)
- 057: dt: 0.2500, sse=1410692.6, rms=3.286 (1.631%)
- rms = 3.27, time step reduction 2 of 3 to 0.125...
- 058: dt: 0.2500, sse=1406308.5, rms=3.267 (0.581%)
- 059: dt: 0.1250, sse=1372723.6, rms=3.084 (5.608%)
- rms = 3.05, time step reduction 3 of 3 to 0.062...
- 060: dt: 0.1250, sse=1366131.0, rms=3.049 (1.115%)
- positioning took 1.7 minutes
- mean border=51.9, 2074 (11) missing vertices, mean dist 0.1 [0.2 (%42.9)->0.3 (%57.1))]
- %51 local maxima, %21 large gradients and %22 min vals, 111 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=1471116.8, rms=3.542
- rms = 4.06, time step reduction 1 of 3 to 0.250...
- 061: dt: 0.2500, sse=1408120.2, rms=3.232 (8.749%)
- 062: dt: 0.2500, sse=1388695.1, rms=3.135 (3.010%)
- rms = 3.11, time step reduction 2 of 3 to 0.125...
- 063: dt: 0.2500, sse=1382884.5, rms=3.114 (0.652%)
- 064: dt: 0.1250, sse=1358157.5, rms=2.975 (4.466%)
- rms = 2.95, time step reduction 3 of 3 to 0.062...
- 065: dt: 0.1250, sse=1352319.9, rms=2.946 (0.983%)
- positioning took 1.1 minutes
- mean border=51.3, 3742 (11) missing vertices, mean dist 0.0 [0.2 (%46.8)->0.3 (%53.2))]
- %54 local maxima, %17 large gradients and %22 min vals, 117 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-6.0.0/0051364/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1379781.6, rms=3.092
- rms = 3.59, time step reduction 1 of 3 to 0.250...
- 066: dt: 0.2500, sse=1355824.5, rms=2.960 (4.272%)
- rms = 2.92, time step reduction 2 of 3 to 0.125...
- 067: dt: 0.2500, sse=1345996.6, rms=2.922 (1.262%)
- 068: dt: 0.1250, sse=1334232.0, rms=2.852 (2.418%)
- rms = 2.82, time step reduction 3 of 3 to 0.062...
- 069: dt: 0.1250, sse=1327633.6, rms=2.820 (1.118%)
- positioning took 0.9 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.area.pial
- vertex spacing 1.00 +- 0.45 (0.05-->6.91) (max @ vno 107856 --> 107846)
- face area 0.40 +- 0.33 (0.00-->5.39)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 162099 vertices processed
- 25000 of 162099 vertices processed
- 50000 of 162099 vertices processed
- 75000 of 162099 vertices processed
- 100000 of 162099 vertices processed
- 125000 of 162099 vertices processed
- 150000 of 162099 vertices processed
- 0 of 162099 vertices processed
- 25000 of 162099 vertices processed
- 50000 of 162099 vertices processed
- 75000 of 162099 vertices processed
- 100000 of 162099 vertices processed
- 125000 of 162099 vertices processed
- 150000 of 162099 vertices processed
- thickness calculation complete, 332:1019 truncations.
- 30848 vertices at 0 distance
- 105873 vertices at 1 distance
- 104312 vertices at 2 distance
- 47807 vertices at 3 distance
- 15399 vertices at 4 distance
- 4454 vertices at 5 distance
- 1437 vertices at 6 distance
- 480 vertices at 7 distance
- 186 vertices at 8 distance
- 99 vertices at 9 distance
- 46 vertices at 10 distance
- 30 vertices at 11 distance
- 32 vertices at 12 distance
- 6 vertices at 13 distance
- 15 vertices at 14 distance
- 12 vertices at 15 distance
- 14 vertices at 16 distance
- 4 vertices at 17 distance
- 10 vertices at 18 distance
- 15 vertices at 19 distance
- 13 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.thickness
- positioning took 19.6 minutes
- PIDs (12824 12827) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Sun Oct 8 02:28:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 0051364 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/lh.cortex.label
- Total face volume 294544
- Total vertex volume 291014 (mask=0)
- #@# 0051364 lh 291014
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Sun Oct 8 02:28:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 0051364 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/rh.cortex.label
- Total face volume 296567
- Total vertex volume 292229 (mask=0)
- #@# 0051364 rh 292229
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Sun Oct 8 02:28:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 0051364
- 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 = 252
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/ribbon.mgz
- mris_volmask took 21.87 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Sun Oct 8 02:50:37 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 0051364 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 0051364 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Sun Oct 8 02:50:37 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 0051364 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 0051364 rh pial
- Waiting for PID 14693 of (14693 14696 14699 14702) to complete...
- Waiting for PID 14696 of (14693 14696 14699 14702) to complete...
- Waiting for PID 14699 of (14693 14696 14699 14702) to complete...
- Waiting for PID 14702 of (14693 14696 14699 14702) 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 0051364 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 294544
- Total vertex volume 291014 (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) = 1724509 mm^3 (det: 1.129658 )
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 1410 948 2352 2.604 0.337 0.086 0.018 6 1.1 bankssts
- 1163 767 2373 2.540 0.766 0.134 0.029 18 1.3 caudalanteriorcingulate
- 4054 2653 8032 2.700 0.562 0.119 0.033 42 5.2 caudalmiddlefrontal
- 2242 1459 3265 2.061 0.393 0.142 0.042 34 3.5 cuneus
- 939 658 2614 3.060 0.805 0.145 0.049 12 2.0 entorhinal
- 5521 3880 12362 2.724 0.564 0.139 0.039 88 8.8 fusiform
- 8838 5884 17250 2.586 0.522 0.126 0.030 117 10.2 inferiorparietal
- 6313 4257 13633 2.679 0.631 0.128 0.037 227 8.3 inferiortemporal
- 1815 1157 3301 2.478 0.995 0.127 0.041 32 2.4 isthmuscingulate
- 8395 5571 14972 2.331 0.475 0.140 0.036 127 11.3 lateraloccipital
- 4526 3001 9132 2.721 0.650 0.136 0.041 72 7.8 lateralorbitofrontal
- 3666 2500 6186 2.317 0.577 0.143 0.042 56 6.2 lingual
- 3208 2099 6025 2.489 0.628 0.131 0.042 62 5.6 medialorbitofrontal
- 5802 3802 13282 2.794 0.610 0.124 0.035 81 7.5 middletemporal
- 1094 727 2410 2.911 0.691 0.124 0.036 11 1.5 parahippocampal
- 2626 1652 4436 2.405 0.498 0.114 0.045 31 4.5 paracentral
- 2220 1514 4452 2.639 0.504 0.123 0.034 22 3.1 parsopercularis
- 974 651 2293 2.604 0.556 0.120 0.030 14 1.0 parsorbitalis
- 1761 1209 3454 2.484 0.514 0.124 0.032 22 2.4 parstriangularis
- 1493 996 1703 1.780 0.510 0.121 0.030 15 1.8 pericalcarine
- 7751 4999 12745 2.225 0.596 0.126 0.041 101 12.6 postcentral
- 2089 1383 3917 2.352 0.864 0.125 0.030 29 2.4 posteriorcingulate
- 8532 5464 15320 2.506 0.544 0.125 0.041 107 13.7 precentral
- 7716 5163 14047 2.519 0.522 0.126 0.032 95 9.6 precuneus
- 2168 1367 4027 2.684 0.817 0.137 0.050 43 4.4 rostralanteriorcingulate
- 9461 6482 19912 2.612 0.561 0.144 0.042 166 15.6 rostralmiddlefrontal
- 12802 8425 26449 2.707 0.543 0.129 0.037 166 18.9 superiorfrontal
- 10121 6613 17773 2.361 0.474 0.120 0.031 130 11.0 superiorparietal
- 5968 4139 14003 2.990 0.558 0.119 0.029 67 6.8 superiortemporal
- 7196 4808 14693 2.702 0.560 0.123 0.035 103 10.2 supramarginal
- 460 306 1439 3.268 0.644 0.176 0.056 10 1.2 frontalpole
- 712 516 2751 3.797 0.802 0.150 0.054 14 1.3 temporalpole
- 688 429 1158 2.540 0.527 0.145 0.063 12 1.9 transversetemporal
- 4561 2930 9231 3.058 0.773 0.133 0.051 65 9.2 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 0051364 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 294544
- Total vertex volume 291014 (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) = 1724509 mm^3 (det: 1.129658 )
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 1410 873 2352 2.604 0.337 0.114 0.031 19 1.9 bankssts
- 1163 1011 2373 2.540 0.766 0.179 0.049 39 2.4 caudalanteriorcingulate
- 4054 3148 8032 2.700 0.562 0.138 0.035 55 6.2 caudalmiddlefrontal
- 2242 1722 3265 2.061 0.393 0.149 0.034 38 3.4 cuneus
- 939 1020 2614 3.060 0.805 0.190 0.046 18 2.1 entorhinal
- 5521 5095 12362 2.724 0.564 0.167 0.047 249 10.8 fusiform
- 8838 7273 17250 2.586 0.522 0.146 0.035 122 13.1 inferiorparietal
- 6313 5634 13633 2.679 0.631 0.168 0.050 100 15.2 inferiortemporal
- 1815 1450 3301 2.478 0.995 0.156 0.045 34 3.5 isthmuscingulate
- 8395 7168 14972 2.331 0.475 0.153 0.036 118 13.1 lateraloccipital
- 4526 3623 9132 2.721 0.650 0.152 0.043 72 8.1 lateralorbitofrontal
- 3666 2931 6186 2.317 0.577 0.157 0.040 63 6.8 lingual
- 3208 2643 6025 2.489 0.628 0.164 0.044 51 6.3 medialorbitofrontal
- 5802 5387 13282 2.794 0.610 0.155 0.036 76 9.7 middletemporal
- 1094 993 2410 2.911 0.691 0.176 0.047 17 2.5 parahippocampal
- 2626 1943 4436 2.405 0.498 0.121 0.026 23 3.0 paracentral
- 2220 1849 4452 2.639 0.504 0.162 0.040 34 4.1 parsopercularis
- 974 1036 2293 2.604 0.556 0.163 0.032 11 1.4 parsorbitalis
- 1761 1488 3454 2.484 0.514 0.158 0.039 76 3.4 parstriangularis
- 1493 917 1703 1.780 0.510 0.119 0.032 22 1.9 pericalcarine
- 7751 6257 12745 2.225 0.596 0.141 0.033 89 11.4 postcentral
- 2089 1805 3917 2.352 0.864 0.160 0.039 44 3.6 posteriorcingulate
- 8532 6453 15320 2.506 0.544 0.129 0.033 116 12.1 precentral
- 7716 5874 14047 2.519 0.522 0.141 0.036 109 12.0 precuneus
- 2168 1706 4027 2.684 0.817 0.164 0.059 40 5.3 rostralanteriorcingulate
- 9461 8319 19912 2.612 0.561 0.170 0.042 149 17.5 rostralmiddlefrontal
- 12802 10734 26449 2.707 0.543 0.152 0.038 190 21.5 superiorfrontal
- 10121 8159 17773 2.361 0.474 0.133 0.027 111 11.6 superiorparietal
- 5968 4991 14003 2.990 0.558 0.142 0.036 84 9.6 superiortemporal
- 7196 5766 14693 2.702 0.560 0.142 0.036 113 11.0 supramarginal
- 460 550 1439 3.268 0.644 0.215 0.049 7 1.0 frontalpole
- 712 936 2751 3.797 0.802 0.211 0.046 11 1.6 temporalpole
- 688 490 1158 2.540 0.527 0.130 0.037 6 1.1 transversetemporal
- 4561 2867 9231 3.058 0.773 0.143 0.063 110 10.2 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 0051364 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 296567
- Total vertex volume 292229 (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) = 1724509 mm^3 (det: 1.129658 )
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 1725 1150 2847 2.724 0.437 0.115 0.027 15 1.7 bankssts
- 1010 685 1999 2.504 0.672 0.133 0.029 15 1.0 caudalanteriorcingulate
- 3780 2478 6789 2.514 0.461 0.120 0.035 43 4.9 caudalmiddlefrontal
- 2495 1512 3298 1.996 0.450 0.141 0.046 43 4.2 cuneus
- 765 529 2430 3.217 0.918 0.148 0.058 14 1.9 entorhinal
- 5032 3359 11728 2.813 0.628 0.134 0.045 84 9.3 fusiform
- 12061 7910 23237 2.590 0.470 0.121 0.029 145 13.8 inferiorparietal
- 5843 3880 12226 2.622 0.690 0.135 0.048 92 11.5 inferiortemporal
- 1844 1158 3222 2.386 0.837 0.130 0.050 34 3.1 isthmuscingulate
- 8157 5156 13518 2.316 0.507 0.133 0.041 111 12.0 lateraloccipital
- 4362 2946 9344 2.707 0.661 0.138 0.040 73 7.1 lateralorbitofrontal
- 4351 3017 7427 2.221 0.606 0.149 0.049 78 8.3 lingual
- 3456 2315 6812 2.521 0.634 0.125 0.033 56 4.4 medialorbitofrontal
- 7022 4660 16385 2.874 0.593 0.130 0.039 102 10.7 middletemporal
- 1114 721 2014 2.555 0.639 0.117 0.035 10 1.6 parahippocampal
- 2660 1584 4316 2.520 0.519 0.121 0.046 33 4.9 paracentral
- 1885 1276 3963 2.841 0.482 0.124 0.033 24 2.4 parsopercularis
- 1264 860 3045 2.656 0.628 0.150 0.049 27 2.3 parsorbitalis
- 2537 1709 5080 2.617 0.516 0.125 0.033 30 3.3 parstriangularis
- 1716 1123 1704 1.738 0.452 0.130 0.036 18 2.5 pericalcarine
- 7678 4708 11593 2.206 0.570 0.119 0.040 94 11.7 postcentral
- 2431 1556 4162 2.348 0.703 0.137 0.035 38 3.0 posteriorcingulate
- 8323 4981 14167 2.619 0.486 0.124 0.047 135 16.2 precentral
- 7779 5017 13365 2.533 0.492 0.119 0.030 94 8.6 precuneus
- 1047 675 2190 2.846 0.536 0.135 0.042 19 1.6 rostralanteriorcingulate
- 10487 6938 19944 2.413 0.576 0.132 0.037 164 15.7 rostralmiddlefrontal
- 12062 8017 25272 2.715 0.547 0.126 0.036 147 16.4 superiorfrontal
- 10979 7100 18284 2.319 0.417 0.122 0.029 140 11.7 superiorparietal
- 6560 4240 14836 2.975 0.666 0.118 0.037 80 9.2 superiortemporal
- 6738 4366 13153 2.739 0.546 0.132 0.038 98 9.8 supramarginal
- 571 365 1342 2.733 0.494 0.157 0.050 13 1.3 frontalpole
- 623 439 2283 3.716 0.778 0.144 0.043 9 1.1 temporalpole
- 674 378 1118 2.555 0.410 0.129 0.047 12 1.1 transversetemporal
- 4039 2693 9111 3.218 0.751 0.130 0.048 52 7.5 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.pial.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 0051364 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 296567
- Total vertex volume 292229 (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) = 1724509 mm^3 (det: 1.129658 )
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 1725 940 2847 2.724 0.437 0.130 0.041 43 3.0 bankssts
- 1010 896 1999 2.504 0.672 0.176 0.047 39 1.9 caudalanteriorcingulate
- 3780 2885 6789 2.514 0.461 0.132 0.034 52 6.1 caudalmiddlefrontal
- 2495 1821 3298 1.996 0.450 0.143 0.034 36 3.9 cuneus
- 765 897 2430 3.217 0.918 0.204 0.059 28 2.1 entorhinal
- 5032 4734 11728 2.813 0.628 0.173 0.050 99 11.6 fusiform
- 12061 9598 23237 2.590 0.470 0.142 0.031 155 16.5 inferiorparietal
- 5843 4979 12226 2.622 0.690 0.164 0.046 124 12.0 inferiortemporal
- 1844 1481 3222 2.386 0.837 0.154 0.049 35 3.5 isthmuscingulate
- 8157 6314 13518 2.316 0.507 0.140 0.034 113 12.1 lateraloccipital
- 4362 3776 9344 2.707 0.661 0.177 0.050 95 9.6 lateralorbitofrontal
- 4351 3552 7427 2.221 0.606 0.153 0.041 69 7.6 lingual
- 3456 3065 6812 2.521 0.634 0.159 0.038 60 6.0 medialorbitofrontal
- 7022 6555 16385 2.874 0.593 0.165 0.040 95 12.9 middletemporal
- 1114 883 2014 2.555 0.639 0.141 0.043 18 2.3 parahippocampal
- 2660 1815 4316 2.520 0.519 0.123 0.029 33 3.2 paracentral
- 1885 1542 3963 2.841 0.482 0.157 0.042 31 3.6 parsopercularis
- 1264 1424 3045 2.656 0.628 0.197 0.043 18 2.4 parsorbitalis
- 2537 2171 5080 2.617 0.516 0.155 0.038 34 4.1 parstriangularis
- 1716 961 1704 1.738 0.452 0.104 0.030 48 2.1 pericalcarine
- 7678 5637 11593 2.206 0.570 0.122 0.027 66 8.8 postcentral
- 2431 1888 4162 2.348 0.703 0.157 0.047 51 5.0 posteriorcingulate
- 8323 5602 14167 2.619 0.486 0.114 0.030 86 10.6 precentral
- 7779 5355 13365 2.533 0.492 0.126 0.032 124 10.5 precuneus
- 1047 874 2190 2.846 0.536 0.150 0.038 16 1.6 rostralanteriorcingulate
- 10487 9239 19944 2.413 0.576 0.170 0.043 164 21.5 rostralmiddlefrontal
- 12062 10112 25272 2.715 0.547 0.152 0.039 168 20.5 superiorfrontal
- 10979 8381 18284 2.319 0.417 0.129 0.026 127 11.8 superiorparietal
- 6560 5422 14836 2.975 0.666 0.145 0.037 105 10.6 superiortemporal
- 6738 5141 13153 2.739 0.546 0.141 0.036 87 10.4 supramarginal
- 571 609 1342 2.733 0.494 0.210 0.044 9 1.2 frontalpole
- 623 798 2283 3.716 0.778 0.216 0.048 9 1.4 temporalpole
- 674 468 1118 2.555 0.410 0.111 0.028 6 0.8 transversetemporal
- 4039 2743 9111 3.218 0.751 0.153 0.053 118 9.1 insula
- PIDs (14693 14696 14699 14702) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Sun Oct 8 02:52:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051364 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 02:52:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051364 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 14805 of (14805 14808) to complete...
- Waiting for PID 14808 of (14805 14808) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051364 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...
- 63 labels changed using aseg
- relabeling using gibbs priors...
- 000: 10613 changed, 156996 examined...
- 001: 2551 changed, 40890 examined...
- 002: 764 changed, 13123 examined...
- 003: 331 changed, 4380 examined...
- 004: 146 changed, 1876 examined...
- 005: 79 changed, 822 examined...
- 006: 33 changed, 452 examined...
- 007: 16 changed, 181 examined...
- 008: 8 changed, 103 examined...
- 009: 6 changed, 47 examined...
- 010: 0 changed, 29 examined...
- 0 labels changed using aseg
- 000: 316 total segments, 231 labels (2956 vertices) changed
- 001: 99 total segments, 15 labels (54 vertices) changed
- 002: 84 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 47 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 2031 vertices marked for relabeling...
- 2031 labels changed in reclassification.
- writing output to ../label/lh.aparc.a2009s.annot...
- classification took 0 minutes and 22 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051364 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...
- 10 labels changed using aseg
- relabeling using gibbs priors...
- 000: 10791 changed, 162099 examined...
- 001: 2525 changed, 41931 examined...
- 002: 688 changed, 13068 examined...
- 003: 262 changed, 3876 examined...
- 004: 115 changed, 1445 examined...
- 005: 54 changed, 695 examined...
- 006: 38 changed, 324 examined...
- 007: 14 changed, 186 examined...
- 008: 7 changed, 72 examined...
- 009: 2 changed, 37 examined...
- 010: 0 changed, 12 examined...
- 5 labels changed using aseg
- 000: 314 total segments, 223 labels (3756 vertices) changed
- 001: 102 total segments, 14 labels (171 vertices) changed
- 002: 88 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 36 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1022 vertices marked for relabeling...
- 1022 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 24 seconds.
- PIDs (14805 14808) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Sun Oct 8 02:52:36 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 0051364 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Sun Oct 8 02:52:36 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 0051364 rh white
- Waiting for PID 14852 of (14852 14855) to complete...
- Waiting for PID 14855 of (14852 14855) 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 0051364 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 294544
- Total vertex volume 291014 (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) = 1724509 mm^3 (det: 1.129658 )
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 1387 954 3002 2.683 0.581 0.145 0.040 21 2.3 G&S_frontomargin
- 2085 1375 4061 2.440 0.476 0.137 0.037 33 2.8 G&S_occipital_inf
- 2158 1320 3778 2.337 0.463 0.120 0.047 30 3.6 G&S_paracentral
- 1900 1287 4422 2.797 0.475 0.146 0.043 28 3.2 G&S_subcentral
- 826 583 2505 2.924 0.688 0.174 0.060 21 2.1 G&S_transv_frontopol
- 2925 1953 5591 2.642 0.534 0.120 0.032 39 3.9 G&S_cingul-Ant
- 1480 1023 2839 2.655 0.493 0.120 0.028 13 1.6 G&S_cingul-Mid-Ant
- 1454 990 2867 2.652 0.508 0.114 0.031 15 1.6 G&S_cingul-Mid-Post
- 747 495 2075 2.948 0.742 0.146 0.049 19 1.1 G_cingul-Post-dorsal
- 238 144 665 3.290 0.803 0.124 0.048 3 0.3 G_cingul-Post-ventral
- 2235 1408 3473 2.042 0.507 0.149 0.048 42 4.1 G_cuneus
- 1226 810 3207 2.959 0.488 0.148 0.050 21 2.2 G_front_inf-Opercular
- 499 311 1238 2.750 0.445 0.137 0.033 9 0.7 G_front_inf-Orbital
- 1159 766 2912 2.737 0.476 0.145 0.048 25 2.3 G_front_inf-Triangul
- 5531 3656 14024 2.855 0.539 0.152 0.049 120 10.3 G_front_middle
- 9262 5982 21070 2.792 0.569 0.141 0.046 156 16.4 G_front_sup
- 818 535 1869 3.255 0.699 0.143 0.049 12 1.4 G_Ins_lg&S_cent_ins
- 1002 651 3321 3.673 0.665 0.142 0.057 16 2.2 G_insular_short
- 2919 1876 5758 2.477 0.587 0.138 0.034 49 3.5 G_occipital_middle
- 1365 857 2713 2.525 0.499 0.137 0.035 22 1.7 G_occipital_sup
- 2321 1595 5707 2.867 0.575 0.150 0.044 46 4.2 G_oc-temp_lat-fusifor
- 2410 1621 4349 2.217 0.656 0.154 0.049 46 4.7 G_oc-temp_med-Lingual
- 1809 1218 4828 3.014 0.709 0.147 0.051 29 3.5 G_oc-temp_med-Parahip
- 2641 1754 6802 2.821 0.784 0.140 0.045 54 5.0 G_orbital
- 3749 2478 9136 2.795 0.547 0.138 0.036 69 4.9 G_pariet_inf-Angular
- 3313 2180 8479 2.933 0.572 0.133 0.044 72 5.8 G_pariet_inf-Supramar
- 4262 2756 8263 2.447 0.440 0.124 0.029 59 4.8 G_parietal_sup
- 2967 1815 5540 2.292 0.587 0.137 0.056 55 6.6 G_postcentral
- 3217 1977 6768 2.608 0.572 0.129 0.052 51 6.5 G_precentral
- 4204 2760 9285 2.612 0.553 0.140 0.044 82 6.0 G_precuneus
- 1134 702 2566 2.631 0.619 0.144 0.060 34 2.9 G_rectus
- 1418 844 2355 2.730 1.039 0.145 0.075 35 4.3 G_subcallosal
- 533 322 1045 2.653 0.518 0.159 0.068 14 1.6 G_temp_sup-G_T_transv
- 2051 1469 6564 3.210 0.585 0.147 0.042 40 3.2 G_temp_sup-Lateral
- 863 591 2235 3.336 0.845 0.105 0.031 7 0.9 G_temp_sup-Plan_polar
- 973 692 2069 2.742 0.383 0.100 0.020 6 0.7 G_temp_sup-Plan_tempo
- 3348 2239 8450 2.760 0.681 0.150 0.050 209 5.5 G_temporal_inf
- 3037 1952 7823 2.826 0.631 0.136 0.041 58 4.5 G_temporal_middle
- 278 193 351 1.967 0.342 0.101 0.020 1 0.2 Lat_Fis-ant-Horizont
- 308 233 490 2.228 0.391 0.121 0.022 2 0.3 Lat_Fis-ant-Vertical
- 1317 858 1748 2.511 0.402 0.125 0.040 13 2.1 Lat_Fis-post
- 2006 1363 3715 2.260 0.480 0.156 0.044 36 3.2 Pole_occipital
- 1754 1250 6371 3.380 0.780 0.152 0.053 35 3.8 Pole_temporal
- 1848 1258 2580 2.297 0.802 0.123 0.031 17 2.3 S_calcarine
- 3550 2300 4100 2.072 0.500 0.117 0.034 30 4.8 S_central
- 1333 895 1994 2.348 0.431 0.098 0.020 8 1.1 S_cingul-Marginalis
- 731 473 1168 2.975 0.558 0.114 0.048 6 1.4 S_circular_insula_ant
- 1505 1005 2344 2.947 0.648 0.106 0.028 10 2.0 S_circular_insula_inf
- 1950 1325 2755 2.626 0.484 0.110 0.023 11 1.9 S_circular_insula_sup
- 1361 962 2318 2.619 0.469 0.095 0.019 6 1.0 S_collat_transv_ant
- 703 474 1062 2.284 0.350 0.157 0.039 12 1.3 S_collat_transv_post
- 2607 1783 4074 2.399 0.422 0.113 0.024 20 2.8 S_front_inf
- 1701 1173 2530 2.366 0.470 0.122 0.030 13 2.0 S_front_middle
- 2895 1996 4334 2.354 0.392 0.108 0.024 18 2.9 S_front_sup
- 524 351 664 2.305 0.401 0.112 0.021 3 0.5 S_interm_prim-Jensen
- 4143 2763 5730 2.229 0.408 0.108 0.023 31 3.9 S_intrapariet&P_trans
- 789 551 1185 2.217 0.428 0.102 0.020 4 0.7 S_oc_middle&Lunatus
- 1071 726 1381 2.128 0.325 0.101 0.019 7 0.8 S_oc_sup&transversal
- 1068 721 2072 2.565 0.426 0.122 0.024 11 1.0 S_occipital_ant
- 1080 789 1834 2.420 0.497 0.109 0.025 7 1.0 S_oc-temp_lat
- 2127 1483 3337 2.506 0.486 0.111 0.024 14 2.0 S_oc-temp_med&Lingual
- 365 261 692 2.509 0.456 0.135 0.039 4 0.6 S_orbital_lateral
- 815 557 1088 2.454 0.551 0.107 0.019 5 0.6 S_orbital_med-olfact
- 1577 1065 2835 2.606 0.562 0.133 0.037 22 2.1 S_orbital-H_Shaped
- 2323 1562 3282 2.335 0.389 0.118 0.026 21 2.6 S_parieto_occipital
- 1836 1101 1464 1.651 0.717 0.117 0.025 26 1.7 S_pericallosal
- 3966 2650 5579 2.257 0.420 0.110 0.026 32 4.2 S_postcentral
- 1875 1269 2962 2.454 0.445 0.111 0.025 16 2.0 S_precentral-inf-part
- 1253 844 1778 2.263 0.457 0.104 0.024 7 1.2 S_precentral-sup-part
- 896 607 1403 2.289 0.489 0.131 0.031 12 1.4 S_suborbital
- 1704 1164 2635 2.502 0.428 0.120 0.029 15 2.1 S_subparietal
- 2052 1410 3157 2.462 0.463 0.111 0.024 12 2.2 S_temporal_inf
- 7160 4812 11766 2.603 0.459 0.106 0.024 51 7.1 S_temporal_sup
- 343 237 579 2.773 0.356 0.128 0.025 3 0.4 S_temporal_transverse
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.a2009s.stats -b -a ../label/rh.aparc.a2009s.annot -c ../label/aparc.annot.a2009s.ctab 0051364 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 296567
- Total vertex volume 292229 (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) = 1724509 mm^3 (det: 1.129658 )
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 1131 740 2172 2.466 0.525 0.136 0.042 20 2.0 G&S_frontomargin
- 1736 1119 3140 2.420 0.502 0.142 0.044 29 2.9 G&S_occipital_inf
- 1652 992 2987 2.383 0.475 0.131 0.059 27 3.4 G&S_paracentral
- 1413 921 3227 2.835 0.502 0.135 0.038 22 2.0 G&S_subcentral
- 1426 932 3496 2.781 0.562 0.153 0.049 36 2.8 G&S_transv_frontopol
- 3510 2385 6709 2.561 0.538 0.117 0.031 40 4.0 G&S_cingul-Ant
- 1415 976 2811 2.708 0.459 0.114 0.027 14 1.3 G&S_cingul-Mid-Ant
- 1701 1112 3086 2.629 0.450 0.126 0.032 19 2.0 G&S_cingul-Mid-Post
- 935 573 2278 2.965 0.570 0.155 0.058 21 1.7 G_cingul-Post-dorsal
- 343 192 736 2.717 0.733 0.133 0.070 8 0.9 G_cingul-Post-ventral
- 2375 1431 3172 1.938 0.468 0.141 0.048 40 4.2 G_cuneus
- 1244 836 3295 2.880 0.500 0.148 0.046 27 2.3 G_front_inf-Opercular
- 502 322 1155 2.718 0.565 0.150 0.050 11 0.8 G_front_inf-Orbital
- 942 649 2488 2.792 0.474 0.149 0.045 17 1.8 G_front_inf-Triangul
- 5053 3244 11210 2.563 0.563 0.143 0.047 101 9.2 G_front_middle
- 8791 5621 19855 2.792 0.547 0.137 0.045 145 15.2 G_front_sup
- 807 546 2023 3.210 0.609 0.135 0.049 11 1.4 G_Ins_lg&S_cent_ins
- 1171 753 3509 3.522 0.919 0.160 0.071 26 3.4 G_insular_short
- 3176 1945 6783 2.662 0.453 0.136 0.038 55 4.3 G_occipital_middle
- 1865 1084 3155 2.331 0.502 0.126 0.036 26 2.4 G_occipital_sup
- 2014 1279 5316 2.906 0.684 0.140 0.049 40 3.7 G_oc-temp_lat-fusifor
- 2873 1940 5118 2.187 0.657 0.153 0.053 55 5.6 G_oc-temp_med-Lingual
- 1576 1022 4457 3.111 0.875 0.136 0.050 22 3.1 G_oc-temp_med-Parahip
- 3231 2165 8862 2.892 0.676 0.152 0.049 79 6.5 G_orbital
- 4316 2769 10156 2.763 0.514 0.141 0.042 79 6.9 G_pariet_inf-Angular
- 3483 2199 7738 2.932 0.544 0.137 0.043 61 5.4 G_pariet_inf-Supramar
- 3390 2146 7326 2.538 0.400 0.131 0.034 63 4.2 G_parietal_sup
- 2874 1631 4528 2.173 0.579 0.132 0.058 51 6.2 G_postcentral
- 3549 1905 6904 2.731 0.477 0.125 0.059 83 8.5 G_precentral
- 3495 2198 7509 2.641 0.470 0.127 0.037 61 4.5 G_precuneus
- 903 605 2370 2.754 0.593 0.147 0.039 19 1.5 G_rectus
- 296 193 803 3.626 0.723 0.122 0.044 3 0.5 G_subcallosal
- 537 292 1075 2.666 0.473 0.130 0.052 12 1.0 G_temp_sup-G_T_transv
- 2322 1454 6761 3.177 0.676 0.136 0.051 44 4.5 G_temp_sup-Lateral
- 907 608 2680 3.633 0.716 0.110 0.034 7 1.3 G_temp_sup-Plan_polar
- 1153 741 2017 2.517 0.391 0.100 0.029 12 1.0 G_temp_sup-Plan_tempo
- 2933 1867 7245 2.636 0.814 0.152 0.067 69 8.0 G_temporal_inf
- 4133 2732 11350 2.981 0.609 0.145 0.049 83 7.7 G_temporal_middle
- 598 394 982 2.499 0.555 0.103 0.025 3 0.6 Lat_Fis-ant-Horizont
- 307 212 521 2.720 0.456 0.086 0.018 1 0.2 Lat_Fis-ant-Vertical
- 1393 916 1916 2.673 0.426 0.114 0.029 9 1.5 Lat_Fis-post
- 3128 1974 5026 2.122 0.558 0.143 0.047 51 5.5 Pole_occipital
- 1881 1299 6601 3.283 0.793 0.156 0.060 43 4.8 Pole_temporal
- 1895 1259 2254 2.060 0.648 0.134 0.039 27 3.1 S_calcarine
- 3594 2271 4063 2.168 0.513 0.110 0.030 25 4.6 S_central
- 1505 1018 2206 2.180 0.405 0.117 0.028 16 1.7 S_cingul-Marginalis
- 696 457 1160 2.968 0.562 0.123 0.038 6 1.0 S_circular_insula_ant
- 1246 836 1869 2.746 0.594 0.095 0.021 5 1.2 S_circular_insula_inf
- 1458 966 2150 2.701 0.453 0.113 0.034 11 2.1 S_circular_insula_sup
- 1350 954 2259 2.640 0.436 0.101 0.021 6 1.1 S_collat_transv_ant
- 515 360 611 2.304 0.421 0.136 0.035 4 0.8 S_collat_transv_post
- 2114 1424 3042 2.370 0.468 0.114 0.025 16 2.0 S_front_inf
- 3154 2141 4666 2.185 0.479 0.115 0.025 26 3.4 S_front_middle
- 2849 1915 4352 2.376 0.429 0.103 0.022 18 2.5 S_front_sup
- 307 225 587 2.913 0.618 0.142 0.029 2 0.5 S_interm_prim-Jensen
- 5605 3749 7812 2.239 0.365 0.111 0.023 44 5.2 S_intrapariet&P_trans
- 853 576 1089 2.257 0.301 0.116 0.025 6 0.9 S_oc_middle&Lunatus
- 1553 1049 2012 2.124 0.353 0.107 0.021 12 1.3 S_oc_sup&transversal
- 861 574 1512 2.515 0.426 0.114 0.024 7 0.8 S_occipital_ant
- 1240 863 2205 2.664 0.510 0.130 0.034 13 1.7 S_oc-temp_lat
- 2200 1588 3466 2.454 0.515 0.115 0.026 16 2.5 S_oc-temp_med&Lingual
- 474 346 715 2.102 0.393 0.135 0.037 5 0.6 S_orbital_lateral
- 883 596 1170 2.257 0.648 0.106 0.019 6 0.8 S_orbital_med-olfact
- 1514 1027 2697 2.540 0.535 0.128 0.034 16 2.0 S_orbital-H_Shaped
- 2656 1744 3594 2.384 0.443 0.117 0.027 25 2.7 S_parieto_occipital
- 1787 1095 1477 1.830 0.729 0.122 0.030 27 1.6 S_pericallosal
- 3451 2272 4495 2.273 0.429 0.114 0.026 27 3.7 S_postcentral
- 1754 1188 2663 2.580 0.486 0.110 0.024 13 1.8 S_precentral-inf-part
- 1119 749 1549 2.402 0.391 0.102 0.021 5 1.1 S_precentral-sup-part
- 380 265 637 2.422 0.532 0.156 0.035 6 0.5 S_suborbital
- 2073 1371 3071 2.498 0.454 0.120 0.026 18 2.2 S_subparietal
- 1945 1304 2918 2.636 0.488 0.114 0.026 13 2.2 S_temporal_inf
- 9193 6171 14899 2.578 0.437 0.110 0.025 74 9.0 S_temporal_sup
- 376 247 479 2.698 0.359 0.120 0.025 2 0.4 S_temporal_transverse
- PIDs (14852 14855) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Sun Oct 8 02:53:26 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051364 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 02:53:26 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051364 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 14931 of (14931 14934) to complete...
- Waiting for PID 14934 of (14931 14934) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051364 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...
- 1400 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2313 changed, 156996 examined...
- 001: 533 changed, 10394 examined...
- 002: 133 changed, 3082 examined...
- 003: 61 changed, 763 examined...
- 004: 35 changed, 350 examined...
- 005: 21 changed, 208 examined...
- 006: 13 changed, 107 examined...
- 007: 9 changed, 75 examined...
- 008: 10 changed, 49 examined...
- 009: 9 changed, 45 examined...
- 010: 3 changed, 39 examined...
- 011: 6 changed, 21 examined...
- 012: 6 changed, 31 examined...
- 013: 0 changed, 21 examined...
- 254 labels changed using aseg
- 000: 60 total segments, 27 labels (362 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 19 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1455 vertices marked for relabeling...
- 1455 labels changed in reclassification.
- writing output to ../label/lh.aparc.DKTatlas.annot...
- classification took 0 minutes and 22 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051364 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...
- 1348 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2284 changed, 162099 examined...
- 001: 530 changed, 10377 examined...
- 002: 171 changed, 3020 examined...
- 003: 81 changed, 962 examined...
- 004: 39 changed, 438 examined...
- 005: 26 changed, 224 examined...
- 006: 15 changed, 139 examined...
- 007: 9 changed, 80 examined...
- 008: 8 changed, 46 examined...
- 009: 5 changed, 46 examined...
- 010: 6 changed, 29 examined...
- 011: 3 changed, 27 examined...
- 012: 5 changed, 14 examined...
- 013: 1 changed, 17 examined...
- 014: 2 changed, 7 examined...
- 015: 0 changed, 12 examined...
- 250 labels changed using aseg
- 000: 57 total segments, 24 labels (194 vertices) changed
- 001: 34 total segments, 1 labels (1 vertices) changed
- 002: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 4 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 680 vertices marked for relabeling...
- 680 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 22 seconds.
- PIDs (14931 14934) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Sun Oct 8 02:53:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 0051364 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Sun Oct 8 02:53:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 0051364 rh white
- Waiting for PID 14979 of (14979 14982) to complete...
- Waiting for PID 14982 of (14979 14982) 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 0051364 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 294544
- Total vertex volume 291014 (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) = 1724509 mm^3 (det: 1.129658 )
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 1897 1251 3660 2.566 0.681 0.130 0.031 25 2.2 caudalanteriorcingulate
- 4210 2786 8338 2.684 0.562 0.119 0.033 43 5.4 caudalmiddlefrontal
- 3108 1999 4685 2.142 0.448 0.132 0.039 44 4.5 cuneus
- 850 596 2459 3.087 0.791 0.145 0.051 11 1.9 entorhinal
- 5191 3615 10990 2.691 0.539 0.136 0.038 81 7.6 fusiform
- 8959 5979 17647 2.590 0.529 0.125 0.030 117 10.2 inferiorparietal
- 6160 4237 14007 2.690 0.657 0.132 0.040 230 9.1 inferiortemporal
- 1780 1142 3250 2.508 0.980 0.126 0.041 31 2.2 isthmuscingulate
- 8290 5509 14759 2.337 0.479 0.140 0.036 124 11.1 lateraloccipital
- 5518 3638 11372 2.732 0.717 0.146 0.049 104 11.4 lateralorbitofrontal
- 3777 2578 6439 2.321 0.588 0.143 0.042 57 6.3 lingual
- 3117 2006 6069 2.547 0.700 0.135 0.047 66 6.0 medialorbitofrontal
- 7452 4889 16174 2.747 0.578 0.120 0.032 95 9.1 middletemporal
- 1148 775 2564 2.893 0.711 0.124 0.034 11 1.6 parahippocampal
- 3213 2034 5659 2.473 0.525 0.117 0.046 39 5.4 paracentral
- 2064 1393 4171 2.681 0.494 0.124 0.038 24 3.2 parsopercularis
- 1039 675 2161 2.584 0.496 0.111 0.027 12 0.9 parsorbitalis
- 2217 1527 4329 2.483 0.499 0.127 0.030 28 2.8 parstriangularis
- 1548 1024 1793 1.826 0.510 0.119 0.029 14 1.7 pericalcarine
- 8743 5672 14330 2.234 0.586 0.125 0.040 112 13.8 postcentral
- 2324 1540 4216 2.365 0.841 0.124 0.029 30 2.7 posteriorcingulate
- 8484 5437 15234 2.515 0.542 0.125 0.040 105 13.5 precentral
- 7531 5046 13951 2.520 0.527 0.128 0.033 100 9.8 precuneus
- 2219 1435 3984 2.637 0.733 0.132 0.040 36 3.8 rostralanteriorcingulate
- 6652 4560 14064 2.607 0.541 0.143 0.041 115 10.9 rostralmiddlefrontal
- 13825 9120 29232 2.699 0.560 0.133 0.039 196 21.6 superiorfrontal
- 8505 5534 14873 2.361 0.469 0.119 0.030 108 9.2 superiorparietal
- 7820 5394 18819 3.029 0.635 0.120 0.032 91 9.3 superiortemporal
- 6467 4301 13078 2.708 0.549 0.124 0.036 95 9.3 supramarginal
- 698 435 1175 2.547 0.530 0.145 0.063 12 1.9 transversetemporal
- 3474 2281 7533 3.190 0.737 0.123 0.042 39 5.9 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 0051364 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 296567
- Total vertex volume 292229 (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) = 1724509 mm^3 (det: 1.129658 )
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 1135 768 2177 2.453 0.695 0.133 0.028 17 1.1 caudalanteriorcingulate
- 3941 2592 7037 2.519 0.458 0.120 0.034 44 5.1 caudalmiddlefrontal
- 3069 1883 4022 2.009 0.449 0.137 0.043 48 5.1 cuneus
- 686 476 2133 3.225 0.940 0.148 0.061 12 1.8 entorhinal
- 4529 3017 10193 2.799 0.620 0.129 0.041 68 7.7 fusiform
- 11739 7705 22610 2.587 0.471 0.121 0.030 140 13.5 inferiorparietal
- 6388 4248 13949 2.636 0.697 0.139 0.050 111 13.0 inferiortemporal
- 1832 1154 3223 2.417 0.828 0.128 0.049 33 3.1 isthmuscingulate
- 8307 5223 13804 2.327 0.504 0.132 0.040 112 12.1 lateraloccipital
- 4983 3343 10951 2.715 0.690 0.143 0.044 92 9.4 lateralorbitofrontal
- 4340 2999 7359 2.217 0.600 0.150 0.050 79 8.2 lingual
- 2509 1674 5166 2.556 0.706 0.132 0.035 44 3.3 medialorbitofrontal
- 8503 5643 18915 2.850 0.576 0.129 0.037 116 12.3 middletemporal
- 1212 795 2189 2.574 0.632 0.120 0.034 10 1.8 parahippocampal
- 2752 1645 4573 2.547 0.534 0.119 0.044 33 4.9 paracentral
- 2153 1439 4422 2.807 0.497 0.130 0.036 31 3.1 parsopercularis
- 1058 704 2122 2.482 0.597 0.125 0.035 14 1.3 parsorbitalis
- 2654 1802 5386 2.582 0.531 0.129 0.036 34 3.8 parstriangularis
- 1663 1089 1652 1.738 0.458 0.127 0.034 17 2.3 pericalcarine
- 8531 5276 12893 2.218 0.566 0.119 0.039 105 12.7 postcentral
- 2476 1591 4216 2.360 0.700 0.138 0.036 39 3.1 posteriorcingulate
- 7932 4725 13656 2.635 0.490 0.123 0.048 129 15.5 precentral
- 7997 5166 13945 2.536 0.486 0.120 0.030 99 8.9 precuneus
- 1267 827 2689 2.812 0.539 0.129 0.042 23 1.8 rostralanteriorcingulate
- 7552 4954 14321 2.391 0.576 0.133 0.038 121 11.6 rostralmiddlefrontal
- 15585 10393 32058 2.666 0.546 0.127 0.035 200 21.4 superiorfrontal
- 9346 6043 15586 2.320 0.413 0.121 0.028 119 9.8 superiorparietal
- 8254 5419 19300 3.041 0.713 0.121 0.037 101 11.5 superiortemporal
- 6453 4158 12636 2.744 0.546 0.132 0.039 96 9.6 supramarginal
- 668 375 1121 2.552 0.419 0.129 0.047 12 1.1 transversetemporal
- 3566 2384 7926 3.166 0.682 0.126 0.044 44 5.8 insula
- PIDs (14979 14982) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Sun Oct 8 02:54:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- pctsurfcon --s 0051364 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Sun Oct 8 02:54:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts
- pctsurfcon --s 0051364 --rh-only
- Waiting for PID 15130 of (15130 15140) to complete...
- Waiting for PID 15140 of (15130 15140) to complete...
- pctsurfcon --s 0051364 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts/pctsurfcon.log
- Sun Oct 8 02:54:38 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-6.0.0/0051364/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-929 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-6.0.0/0051364/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/tmp.pctsurfcon.15130/lh.wm.mgh --regheader 0051364 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 = 83475
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/tmp.pctsurfcon.15130/lh.wm.mgh
- Dim: 156996 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/tmp.pctsurfcon.15130/lh.gm.mgh --projfrac 0.3 --regheader 0051364 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 = 103709
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/tmp.pctsurfcon.15130/lh.gm.mgh
- Dim: 156996 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/tmp.pctsurfcon.15130/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/tmp.pctsurfcon.15130/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.w-g.pct.mgh --annot 0051364 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/surf/lh.w-g.pct.mgh --annot 0051364 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-929
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/surf/lh.w-g.pct.mgh
- Vertex Area is 0.663709 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 0051364 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/scripts/pctsurfcon.log
- Sun Oct 8 02:54:38 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-6.0.0/0051364/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-929 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-6.0.0/0051364/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/tmp.pctsurfcon.15140/rh.wm.mgh --regheader 0051364 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 = 84013
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/tmp.pctsurfcon.15140/rh.wm.mgh
- Dim: 162099 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/tmp.pctsurfcon.15140/rh.gm.mgh --projfrac 0.3 --regheader 0051364 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 = 105637
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/tmp.pctsurfcon.15140/rh.gm.mgh
- Dim: 162099 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/tmp.pctsurfcon.15140/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/tmp.pctsurfcon.15140/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.w-g.pct.mgh --annot 0051364 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/surf/rh.w-g.pct.mgh --annot 0051364 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-929
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/surf/rh.w-g.pct.mgh
- Vertex Area is 0.651375 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 (15130 15140) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Sun Oct 8 02:54:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 3186 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 2125 voxels changed to hypointensity...
- 5259 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Sun Oct 8 02:55:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364
- mri_aparc2aseg --s 0051364 --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 02:55:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364
- mri_aparc2aseg --s 0051364 --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 02:55:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364
- mri_aparc2aseg --s 0051364 --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 15334 of (15334 15337 15340) to complete...
- Waiting for PID 15337 of (15334 15337 15340) to complete...
- Waiting for PID 15340 of (15334 15337 15340) to complete...
- mri_aparc2aseg --s 0051364 --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 0051364
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/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-6.0.0/0051364/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 7.31
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 109
- rescaling Left_Cerebral_Cortex from 61 --> 60
- rescaling Left_Lateral_Ventricle from 13 --> 14
- rescaling Left_Inf_Lat_Vent from 34 --> 28
- rescaling Left_Cerebellum_White_Matter from 86 --> 79
- rescaling Left_Cerebellum_Cortex from 60 --> 56
- rescaling Left_Thalamus from 94 --> 99
- rescaling Left_Thalamus_Proper from 84 --> 87
- rescaling Left_Caudate from 75 --> 70
- rescaling Left_Putamen from 80 --> 81
- rescaling Left_Pallidum from 98 --> 92
- rescaling Third_Ventricle from 25 --> 23
- rescaling Fourth_Ventricle from 22 --> 14
- rescaling Brain_Stem from 81 --> 82
- rescaling Left_Hippocampus from 57 --> 58
- rescaling Left_Amygdala from 56 --> 59
- rescaling CSF from 32 --> 35
- rescaling Left_Accumbens_area from 62 --> 63
- rescaling Left_VentralDC from 87 --> 87
- rescaling Right_Cerebral_White_Matter from 105 --> 106
- rescaling Right_Cerebral_Cortex from 58 --> 63
- rescaling Right_Lateral_Ventricle from 13 --> 14
- rescaling Right_Inf_Lat_Vent from 25 --> 26
- rescaling Right_Cerebellum_White_Matter from 87 --> 81
- rescaling Right_Cerebellum_Cortex from 59 --> 59
- rescaling Right_Thalamus_Proper from 85 --> 90
- rescaling Right_Caudate from 62 --> 72
- rescaling Right_Putamen from 80 --> 78
- rescaling Right_Pallidum from 97 --> 89
- rescaling Right_Hippocampus from 53 --> 62
- rescaling Right_Amygdala from 55 --> 62
- rescaling Right_Accumbens_area from 65 --> 70
- rescaling Right_VentralDC from 86 --> 86
- rescaling Fifth_Ventricle from 40 --> 32
- rescaling WM_hypointensities from 78 --> 78
- rescaling non_WM_hypointensities from 40 --> 45
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 578678
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 149 changed.
- pass 2: 2 changed.
- pass 3: 2 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0051364 --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 0051364
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/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-6.0.0/0051364/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 7.31
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 109
- rescaling Left_Cerebral_Cortex from 61 --> 60
- rescaling Left_Lateral_Ventricle from 13 --> 14
- rescaling Left_Inf_Lat_Vent from 34 --> 28
- rescaling Left_Cerebellum_White_Matter from 86 --> 79
- rescaling Left_Cerebellum_Cortex from 60 --> 56
- rescaling Left_Thalamus from 94 --> 99
- rescaling Left_Thalamus_Proper from 84 --> 87
- rescaling Left_Caudate from 75 --> 70
- rescaling Left_Putamen from 80 --> 81
- rescaling Left_Pallidum from 98 --> 92
- rescaling Third_Ventricle from 25 --> 23
- rescaling Fourth_Ventricle from 22 --> 14
- rescaling Brain_Stem from 81 --> 82
- rescaling Left_Hippocampus from 57 --> 58
- rescaling Left_Amygdala from 56 --> 59
- rescaling CSF from 32 --> 35
- rescaling Left_Accumbens_area from 62 --> 63
- rescaling Left_VentralDC from 87 --> 87
- rescaling Right_Cerebral_White_Matter from 105 --> 106
- rescaling Right_Cerebral_Cortex from 58 --> 63
- rescaling Right_Lateral_Ventricle from 13 --> 14
- rescaling Right_Inf_Lat_Vent from 25 --> 26
- rescaling Right_Cerebellum_White_Matter from 87 --> 81
- rescaling Right_Cerebellum_Cortex from 59 --> 59
- rescaling Right_Thalamus_Proper from 85 --> 90
- rescaling Right_Caudate from 62 --> 72
- rescaling Right_Putamen from 80 --> 78
- rescaling Right_Pallidum from 97 --> 89
- rescaling Right_Hippocampus from 53 --> 62
- rescaling Right_Amygdala from 55 --> 62
- rescaling Right_Accumbens_area from 65 --> 70
- rescaling Right_VentralDC from 86 --> 86
- rescaling Fifth_Ventricle from 40 --> 32
- rescaling WM_hypointensities from 78 --> 78
- rescaling non_WM_hypointensities from 40 --> 45
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 578691
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 149 changed.
- pass 2: 2 changed.
- pass 3: 2 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0051364 --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 0051364
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/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-6.0.0/0051364/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 7.31
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 109
- rescaling Left_Cerebral_Cortex from 61 --> 60
- rescaling Left_Lateral_Ventricle from 13 --> 14
- rescaling Left_Inf_Lat_Vent from 34 --> 28
- rescaling Left_Cerebellum_White_Matter from 86 --> 79
- rescaling Left_Cerebellum_Cortex from 60 --> 56
- rescaling Left_Thalamus from 94 --> 99
- rescaling Left_Thalamus_Proper from 84 --> 87
- rescaling Left_Caudate from 75 --> 70
- rescaling Left_Putamen from 80 --> 81
- rescaling Left_Pallidum from 98 --> 92
- rescaling Third_Ventricle from 25 --> 23
- rescaling Fourth_Ventricle from 22 --> 14
- rescaling Brain_Stem from 81 --> 82
- rescaling Left_Hippocampus from 57 --> 58
- rescaling Left_Amygdala from 56 --> 59
- rescaling CSF from 32 --> 35
- rescaling Left_Accumbens_area from 62 --> 63
- rescaling Left_VentralDC from 87 --> 87
- rescaling Right_Cerebral_White_Matter from 105 --> 106
- rescaling Right_Cerebral_Cortex from 58 --> 63
- rescaling Right_Lateral_Ventricle from 13 --> 14
- rescaling Right_Inf_Lat_Vent from 25 --> 26
- rescaling Right_Cerebellum_White_Matter from 87 --> 81
- rescaling Right_Cerebellum_Cortex from 59 --> 59
- rescaling Right_Thalamus_Proper from 85 --> 90
- rescaling Right_Caudate from 62 --> 72
- rescaling Right_Putamen from 80 --> 78
- rescaling Right_Pallidum from 97 --> 89
- rescaling Right_Hippocampus from 53 --> 62
- rescaling Right_Amygdala from 55 --> 62
- rescaling Right_Accumbens_area from 65 --> 70
- rescaling Right_VentralDC from 86 --> 86
- rescaling Fifth_Ventricle from 40 --> 32
- rescaling WM_hypointensities from 78 --> 78
- rescaling non_WM_hypointensities from 40 --> 45
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 578691
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 149 changed.
- pass 2: 2 changed.
- pass 3: 2 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (15334 15337 15340) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Sun Oct 8 03:03:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Sun Oct 8 03:03:19 CEST 2017
- setenv SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0
- cd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-929 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-6.0.0/0051364/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-929
- 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 03:03:19 CEST 2017
- Ended at Sun Oct 8 03:03:26 CEST 2017
- Apas2aseg-Run-Time-Sec 7
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Sun Oct 8 03:03:26 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364
- 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 0051364
- $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 0051364
- sysname Linux
- hostname tars-929
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1724509 mm^3 (det: 1.129658 )
- Computing euler number
- orig.nofix lheno = -184, rheno = -210
- orig.nofix lhholes = 93, rhholes = 106
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 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 03:05:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364
- mri_aparc2aseg --s 0051364 --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 0051364
- 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-6.0.0/0051364/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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-6.0.0/0051364/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 8711 vertices from left hemi
- Ripped 9029 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-6.0.0/0051364/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 = 1041712
- Used brute-force search on 298 voxels
- Fixing Parahip LH WM
- Found 9 clusters
- 0 k 1.000000
- 1 k 15.000000
- 2 k 2.000000
- 3 k 3.000000
- 4 k 4.000000
- 5 k 1284.000000
- 6 k 1.000000
- 7 k 2.000000
- 8 k 1.000000
- Fixing Parahip RH WM
- Found 7 clusters
- 0 k 18.000000
- 1 k 2.000000
- 2 k 4.000000
- 3 k 2.000000
- 4 k 2.000000
- 5 k 1.000000
- 6 k 1248.000000
- 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 0051364 --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 0051364 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-929
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1724509 mm^3 (det: 1.129658 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 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-6.0.0/0051364/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Sun Oct 8 03:16:25 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 0051364 --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 0051364 --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 0051364 --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 0051364 --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 0051364 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 16863 of (16863 16869 16875 16881 16887) to complete...
- Waiting for PID 16869 of (16863 16869 16875 16881 16887) to complete...
- Waiting for PID 16875 of (16863 16869 16875 16881 16887) to complete...
- Waiting for PID 16881 of (16863 16869 16875 16881 16887) to complete...
- Waiting for PID 16887 of (16863 16869 16875 16881 16887) 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 791
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 4920
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 1352
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 9261
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 288
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4365
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 765
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 6748
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 948
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 6732
- mri_label2label: Done
- PIDs (16863 16869 16875 16881 16887) 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 0051364 --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 0051364 --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 0051364 --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 0051364 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 16940 of (16940 16946 16952 16958) to complete...
- Waiting for PID 16946 of (16940 16946 16952 16958) to complete...
- Waiting for PID 16952 of (16940 16946 16952 16958) to complete...
- Waiting for PID 16958 of (16940 16946 16952 16958) 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 472
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4542
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 2187
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 15776
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 419
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 4600
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 521
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 3943
- mri_label2label: Done
- PIDs (16940 16946 16952 16958) 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 0051364 --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 0051364 --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 0051364 --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 0051364 --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 0051364 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 17018 of (17018 17024 17030 17036 17042) to complete...
- Waiting for PID 17024 of (17018 17024 17030 17036 17042) to complete...
- Waiting for PID 17030 of (17018 17024 17030 17036 17042) to complete...
- Waiting for PID 17036 of (17018 17024 17030 17036 17042) to complete...
- Waiting for PID 17042 of (17018 17024 17030 17036 17042) 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 951
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 5592
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 2197
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 10311
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 1033
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 3051
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 323
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1613
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 337
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1536
- mri_label2label: Done
- PIDs (17018 17024 17030 17036 17042) 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 0051364 --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 0051364 --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 0051364 --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 0051364 --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 0051364 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 17125 of (17125 17131 17138 17144 17150) to complete...
- Waiting for PID 17131 of (17125 17131 17138 17144 17150) to complete...
- Waiting for PID 17138 of (17125 17131 17138 17144 17150) to complete...
- Waiting for PID 17144 of (17125 17131 17138 17144 17150) to complete...
- Waiting for PID 17150 of (17125 17131 17138 17144 17150) 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 215
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.thresh.label 1229
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 459
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 2551
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 41
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1545
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 183
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2179
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 467
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 2786
- mri_label2label: Done
- PIDs (17125 17131 17138 17144 17150) 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 0051364 --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 0051364 --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 0051364 --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 0051364 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 17242 of (17242 17248 17254 17260) to complete...
- Waiting for PID 17248 of (17242 17248 17254 17260) to complete...
- Waiting for PID 17254 of (17242 17248 17254 17260) to complete...
- Waiting for PID 17260 of (17242 17248 17254 17260) 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 211
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1760
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 1076
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 8111
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 115
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 2027
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 204
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1355
- mri_label2label: Done
- PIDs (17242 17248 17254 17260) 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 0051364 --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 0051364 --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 0051364 --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 0051364 --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 0051364 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 17304 of (17304 17310 17316 17322 17328) to complete...
- Waiting for PID 17310 of (17304 17310 17316 17322 17328) to complete...
- Waiting for PID 17316 of (17304 17310 17316 17322 17328) to complete...
- Waiting for PID 17322 of (17304 17310 17316 17322 17328) to complete...
- Waiting for PID 17328 of (17304 17310 17316 17322 17328) 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 692
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 4097
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 877
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 4211
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 311
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 824
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 136
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 606
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 156996
- Number of reverse mapping hits = 178
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 628
- mri_label2label: Done
- PIDs (17304 17310 17316 17322 17328) completed and logs appended.
- mris_label2annot --s 0051364 --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-6.0.0/0051364/label
- cmdline mris_label2annot --s 0051364 --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-929
- machine x86_64
- user ntraut
- subject 0051364
- 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-6.0.0/0051364/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 111233 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/lh.BA_exvivo.annot
- mris_label2annot --s 0051364 --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-6.0.0/0051364/label
- cmdline mris_label2annot --s 0051364 --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-929
- machine x86_64
- user ntraut
- subject 0051364
- 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-6.0.0/0051364/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 130699 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 0051364 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 294544
- Total vertex volume 291014 (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) = 1724509 mm^3 (det: 1.129658 )
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 1431 842 2942 2.394 0.699 0.150 0.075 32 4.3 BA1_exvivo
- 5352 3490 8760 2.332 0.476 0.115 0.030 56 6.5 BA2_exvivo
- 1097 726 1176 2.084 0.400 0.138 0.038 11 1.6 BA3a_exvivo
- 2753 1847 4295 2.075 0.606 0.122 0.034 32 3.6 BA3b_exvivo
- 2119 1265 3829 2.509 0.541 0.124 0.056 33 4.8 BA4a_exvivo
- 1562 949 2112 2.366 0.518 0.119 0.049 20 3.0 BA4p_exvivo
- 11179 7213 22472 2.662 0.552 0.122 0.037 123 15.5 BA6_exvivo
- 2342 1592 5108 2.695 0.568 0.138 0.039 34 3.6 BA44_exvivo
- 2802 1944 5827 2.489 0.502 0.129 0.035 40 4.1 BA45_exvivo
- 3013 1991 4073 1.900 0.495 0.135 0.038 40 4.5 V1_exvivo
- 7455 4946 12767 2.283 0.518 0.146 0.042 122 12.2 V2_exvivo
- 2878 1904 5299 2.472 0.490 0.129 0.028 37 3.3 MT_exvivo
- 808 561 2214 3.101 0.715 0.131 0.037 8 1.3 perirhinal_exvivo
- 972 685 2841 3.059 0.654 0.158 0.058 21 2.1 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 0051364 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 294544
- Total vertex volume 291014 (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) = 1724509 mm^3 (det: 1.129658 )
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 946 547 2082 2.404 0.721 0.160 0.075 25 2.6 BA1_exvivo
- 2190 1413 3222 2.201 0.392 0.106 0.027 17 2.4 BA2_exvivo
- 866 588 916 2.068 0.382 0.138 0.037 8 1.2 BA3a_exvivo
- 1559 1059 1922 1.722 0.359 0.108 0.028 12 1.7 BA3b_exvivo
- 2083 1220 3620 2.530 0.535 0.117 0.056 30 4.7 BA4a_exvivo
- 1282 780 1585 2.265 0.466 0.121 0.047 16 2.3 BA4p_exvivo
- 6345 4052 12341 2.591 0.540 0.126 0.041 76 9.6 BA6_exvivo
- 1333 932 3140 2.751 0.576 0.148 0.043 19 2.4 BA44_exvivo
- 1107 755 2606 2.632 0.492 0.136 0.042 19 1.9 BA45_exvivo
- 3218 2116 4475 1.928 0.521 0.132 0.040 44 4.8 V1_exvivo
- 3569 2448 6045 2.200 0.522 0.155 0.042 61 5.7 V2_exvivo
- 804 544 1575 2.414 0.518 0.145 0.034 13 1.1 MT_exvivo
- 414 306 945 2.794 0.650 0.118 0.026 3 0.5 perirhinal_exvivo
- 581 389 1578 3.036 0.659 0.169 0.064 13 1.4 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Sun Oct 8 03:20:13 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 0051364 --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 0051364 --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 0051364 --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 0051364 --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 0051364 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 17491 of (17491 17497 17503 17509 17516) to complete...
- Waiting for PID 17497 of (17491 17497 17503 17509 17516) to complete...
- Waiting for PID 17503 of (17491 17497 17503 17509 17516) to complete...
- Waiting for PID 17509 of (17491 17497 17503 17509 17516) to complete...
- Waiting for PID 17516 of (17491 17497 17503 17509 17516) 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 794
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 4756
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 1186
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 7873
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 242
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4222
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 577
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 5099
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 989
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 6736
- mri_label2label: Done
- PIDs (17491 17497 17503 17509 17516) 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 0051364 --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 0051364 --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 0051364 --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 0051364 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 17579 of (17579 17585 17591 17597) to complete...
- Waiting for PID 17585 of (17579 17585 17591 17597) to complete...
- Waiting for PID 17591 of (17579 17585 17591 17597) to complete...
- Waiting for PID 17597 of (17579 17585 17591 17597) 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 543
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 5016
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 1637
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 13893
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 687
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 7599
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 1170
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 6525
- mri_label2label: Done
- PIDs (17579 17585 17591 17597) 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 0051364 --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 0051364 --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 0051364 --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 0051364 --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 0051364 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 17758 of (17758 17764 17770 17776 17781) to complete...
- Waiting for PID 17764 of (17758 17764 17770 17776 17781) to complete...
- Waiting for PID 17770 of (17758 17764 17770 17776 17781) to complete...
- Waiting for PID 17776 of (17758 17764 17770 17776 17781) to complete...
- Waiting for PID 17781 of (17758 17764 17770 17776 17781) 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 1122
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 5849
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 2863
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 10879
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 867
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.label 2799
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 268
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1306
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 248
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 1000
- mri_label2label: Done
- PIDs (17758 17764 17770 17776 17781) 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 0051364 --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 0051364 --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 0051364 --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 0051364 --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 0051364 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 17936 of (17936 17942 17948 17954 17959) to complete...
- Waiting for PID 17942 of (17936 17942 17948 17954 17959) to complete...
- Waiting for PID 17948 of (17936 17942 17948 17954 17959) to complete...
- Waiting for PID 17954 of (17936 17942 17948 17954 17959) to complete...
- Waiting for PID 17959 of (17936 17942 17948 17954 17959) 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 278
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 1154
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 456
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 3144
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 80
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1778
- mri_label2label: Done
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA3b_exvivo.thresh.label --trgsubject 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 224
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2407
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 251
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1639
- mri_label2label: Done
- PIDs (17936 17942 17948 17954 17959) 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 0051364 --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 0051364 --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 0051364 --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 0051364 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 18082 of (18082 18088 18097 18106) to complete...
- Waiting for PID 18088 of (18082 18088 18097 18106) to complete...
- Waiting for PID 18097 of (18082 18088 18097 18106) to complete...
- Waiting for PID 18106 of (18082 18088 18097 18106) 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 247
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1736
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 754
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 7713
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 141
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1153
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 182
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1360
- mri_label2label: Done
- PIDs (18082 18088 18097 18106) 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 0051364 --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 0051364 --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 0051364 --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 0051364 --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 0051364 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 18158 of (18158 18164 18170 18175 18181) to complete...
- Waiting for PID 18164 of (18158 18164 18170 18175 18181) to complete...
- Waiting for PID 18170 of (18158 18164 18170 18175 18181) to complete...
- Waiting for PID 18175 of (18158 18164 18170 18175 18181) to complete...
- Waiting for PID 18181 of (18158 18164 18170 18175 18181) 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 661
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 3893
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 1244
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 4681
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 165
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 433
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 165
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.thresh.label 859
- 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 0051364 --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 = 0051364
- 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-6.0.0/0051364/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 162099
- Number of reverse mapping hits = 98
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 389
- mri_label2label: Done
- PIDs (18158 18164 18170 18175 18181) completed and logs appended.
- mris_label2annot --s 0051364 --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-6.0.0/0051364/label
- cmdline mris_label2annot --s 0051364 --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-929
- machine x86_64
- user ntraut
- subject 0051364
- 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-6.0.0/0051364/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 117402 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/label/rh.BA_exvivo.annot
- mris_label2annot --s 0051364 --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-6.0.0/0051364/label
- cmdline mris_label2annot --s 0051364 --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-929
- machine x86_64
- user ntraut
- subject 0051364
- 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-6.0.0/0051364/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 137577 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/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 0051364 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 296567
- Total vertex volume 292229 (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) = 1724509 mm^3 (det: 1.129658 )
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 1300 676 2058 2.219 0.568 0.137 0.069 28 3.4 BA1_exvivo
- 4332 2774 6390 2.297 0.469 0.112 0.032 39 5.3 BA2_exvivo
- 1172 787 1241 2.107 0.380 0.130 0.032 9 1.6 BA3a_exvivo
- 2246 1442 2990 1.907 0.518 0.116 0.034 23 3.0 BA3b_exvivo
- 2060 1065 3357 2.683 0.466 0.111 0.062 30 5.5 BA4a_exvivo
- 1581 885 2091 2.564 0.451 0.109 0.041 16 2.5 BA4p_exvivo
- 8653 5444 17671 2.732 0.520 0.124 0.042 128 14.2 BA6_exvivo
- 3499 2360 7021 2.745 0.493 0.129 0.033 48 4.9 BA44_exvivo
- 4571 3088 9423 2.559 0.552 0.133 0.037 62 6.7 BA45_exvivo
- 3217 2060 4148 1.837 0.547 0.142 0.048 50 6.1 V1_exvivo
- 8185 5247 12857 2.201 0.548 0.140 0.046 129 13.8 V2_exvivo
- 2643 1735 4554 2.494 0.391 0.121 0.033 30 3.1 MT_exvivo
- 723 494 2408 3.272 0.807 0.136 0.047 11 1.4 perirhinal_exvivo
- 515 335 1298 2.966 0.664 0.145 0.049 8 1.0 entorhinal_exvivo
- mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 0051364 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051364/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 296567
- Total vertex volume 292229 (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) = 1724509 mm^3 (det: 1.129658 )
- lhCtxGM: 289156.903 288451.000 diff= 705.9 pctdiff= 0.244
- rhCtxGM: 291023.925 290029.000 diff= 994.9 pctdiff= 0.342
- lhCtxWM: 231178.992 231714.500 diff= -535.5 pctdiff=-0.232
- rhCtxWM: 232220.493 233165.500 diff= -945.0 pctdiff=-0.407
- SubCortGMVol 65793.000
- SupraTentVol 1141780.313 (1137731.000) diff=4049.313 pctdiff=0.355
- SupraTentVolNotVent 1113283.313 (1109234.000) diff=4049.313 pctdiff=0.364
- BrainSegVol 1282065.000 (1279358.000) diff=2707.000 pctdiff=0.211
- BrainSegVolNotVent 1249927.000 (1249942.313) diff=-15.313 pctdiff=-0.001
- BrainSegVolNotVent 1249927.000
- CerebellumVol 140488.000
- VentChorVol 28497.000
- 3rd4th5thCSF 3641.000
- CSFVol 934.000, OptChiasmVol 205.000
- MaskVol 1739053.000
- 964 484 1361 2.046 0.502 0.142 0.072 22 2.7 BA1_exvivo
- 2491 1536 3847 2.306 0.471 0.110 0.036 24 3.5 BA2_exvivo
- 1064 716 1081 2.083 0.355 0.135 0.034 8 1.6 BA3a_exvivo
- 1752 1135 1986 1.764 0.379 0.108 0.025 14 1.9 BA3b_exvivo
- 1214 632 2015 2.580 0.506 0.129 0.079 21 3.9 BA4a_exvivo
- 1325 731 1716 2.624 0.456 0.103 0.036 12 2.0 BA4p_exvivo
- 5432 3356 10949 2.716 0.512 0.123 0.044 88 9.3 BA6_exvivo
- 876 597 2050 2.755 0.587 0.141 0.041 18 1.5 BA44_exvivo
- 1062 737 2600 2.798 0.475 0.130 0.035 13 1.5 BA45_exvivo
- 3021 1920 3713 1.816 0.540 0.138 0.046 46 5.5 V1_exvivo
- 4160 2718 6256 2.053 0.529 0.151 0.051 70 7.6 V2_exvivo
- 421 257 700 2.593 0.399 0.137 0.031 6 0.6 MT_exvivo
- 395 287 1311 3.137 0.755 0.135 0.043 5 0.8 perirhinal_exvivo
- 345 239 622 2.770 0.545 0.137 0.043 3 0.6 entorhinal_exvivo
- Started at Sat Oct 7 16:52:34 CEST 2017
- Ended at Sun Oct 8 03:23:50 CEST 2017
- #@#%# recon-all-run-time-hours 10.521
- recon-all -s 0051364 finished without error at Sun Oct 8 03:23:50 CEST 2017
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