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|
- Sat Oct 7 17:01:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0051348 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/MaxMun_c/0051348/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0051348
- 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-553 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: 65993860 50258380 15735480 1756068 0 47564700
- -/+ buffers/cache: 2693680 63300180
- 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: 2017/10/07-15:01:48-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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: 2017/10/07-15:01:49-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-553 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-6.0.0/0051348
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/MaxMun_c/0051348/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/MaxMun_c/0051348/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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_c/0051348/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-6.0.0/0051348/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Sat Oct 7 17:01:51 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/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-6.0.0/0051348/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Sat Oct 7 17:02:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/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-553 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
- Sat Oct 7 17:02:01 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.10063
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.10063/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.10063/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.10063/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 17:02:03 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.10063/nu0.mnc ./tmp.mri_nu_correct.mni.10063/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.10063/0/ -iterations 1000 -distance 50
- [ntraut@tars-553:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/] [2017-10-07 17:02:03] 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.10063/0/ ./tmp.mri_nu_correct.mni.10063/nu0.mnc ./tmp.mri_nu_correct.mni.10063/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
- Number of iterations: 39
- CV of field change: 0.000982278
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.10063/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.10063/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.10063/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 17:03:06 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 17:03:06 CEST 2017
- Ended at Sat Oct 7 17:03:37 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Sat Oct 7 17:03:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.4171, pval=0.0643 >= 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-6.0.0/0051348/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/transforms/talairach_avi.log
- TalAviQA: 0.97879
- z-score: 0
- #--------------------------------------------
- #@# Nu Intensity Correction Sat Oct 7 17:03:40 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-6.0.0/0051348/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-553 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
- Sat Oct 7 17:03:40 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.10873
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.10873/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.10873/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.10873/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 17:03:42 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.10873/nu0.mnc ./tmp.mri_nu_correct.mni.10873/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.10873/0/
- [ntraut@tars-553:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/] [2017-10-07 17:03:42] 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.10873/0/ ./tmp.mri_nu_correct.mni.10873/nu0.mnc ./tmp.mri_nu_correct.mni.10873/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
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- Processing:.................................................................Done
- 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: 39
- CV of field change: 0.000972007
-
-
- --------------------------------------------------------
- Iteration 2 Sat Oct 7 17:04:28 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.10873/nu1.mnc ./tmp.mri_nu_correct.mni.10873/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.10873/1/
- [ntraut@tars-553:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/] [2017-10-07 17:04:28] 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.10873/1/ ./tmp.mri_nu_correct.mni.10873/nu1.mnc ./tmp.mri_nu_correct.mni.10873/nu2.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 14
- CV of field change: 0.000995407
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.10873/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.10873/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-6.0.0/0051348/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.10873/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.10873/ones.mgz
- sysname Linux
- hostname tars-553
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.10873/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.10873/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.10873/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.10873/sum.junk --avgwf ./tmp.mri_nu_correct.mni.10873/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.10873/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.10873/sum.junk --avgwf ./tmp.mri_nu_correct.mni.10873/input.mean.dat
- sysname Linux
- hostname tars-553
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.10873/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.10873/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.10873/ones.mgz --i ./tmp.mri_nu_correct.mni.10873/nu2.mnc --sum ./tmp.mri_nu_correct.mni.10873/sum.junk --avgwf ./tmp.mri_nu_correct.mni.10873/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.10873/ones.mgz --i ./tmp.mri_nu_correct.mni.10873/nu2.mnc --sum ./tmp.mri_nu_correct.mni.10873/sum.junk --avgwf ./tmp.mri_nu_correct.mni.10873/output.mean.dat
- sysname Linux
- hostname tars-553
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.10873/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.10873/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.10873/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.10873/nu2.mnc ./tmp.mri_nu_correct.mni.10873/nu2.mnc mul .96167811818778809197
- Saving result to './tmp.mri_nu_correct.mni.10873/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.10873/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.10873/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.10873/nu2.mnc...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-1, 0, 0)
- j_ras = (0, 0, -1)
- k_ras = (0, 1, 0)
- INFO: transform src into the like-volume: orig.mgz
- writing to nu.mgz...
- mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz
- type change took 0 minutes and 8 seconds.
- mapping (18, 147) to ( 3, 110)
-
-
- Sat Oct 7 17:05:36 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Sat Oct 7 17:05:37 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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
- 1.15435 0.02161 -0.16422 7.60110;
- -0.09427 1.02657 -0.08129 11.33200;
- 0.15816 0.17914 1.03470 -68.80373;
- 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 = 15
- Starting OpenSpline(): npoints = 15
- 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 106
- gm peak at 73 (73), valley at 39 (39)
- csf peak at 37, setting threshold to 61
- 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 72 (72), valley at 37 (37)
- csf peak at 36, setting threshold to 60
- 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 17:07:50 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 = (56, 21, 28) --> (197, 171, 221)
- using (103, 71, 125) as brain centroid...
- mean wm in atlas = 108, using box (86,53,101) --> (120, 89,148) to find MRI wm
- before smoothing, mri peak at 105
- robust fit to distribution - 105 +- 6.1
- after smoothing, mri peak at 105, scaling input intensities by 1.029
- scaling channel 0 by 1.02857
- initial log_p = -4.709
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.495207 @ (9.091, 27.273, -9.091)
- max log p = -4.466466 @ (-4.545, 4.545, -4.545)
- max log p = -4.418298 @ (-6.818, -6.818, 6.818)
- max log p = -4.413081 @ (3.409, -1.136, -7.955)
- max log p = -4.408009 @ (0.568, 2.841, 5.114)
- max log p = -4.400772 @ (-1.989, -1.989, 2.557)
- Found translation: (-0.3, 24.7, -7.1): log p = -4.401
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-4.166, old_max_log_p =-4.401 (thresh=-4.4)
- 1.22567 -0.15998 0.02106 -19.72387;
- 0.16136 1.21519 -0.15998 5.62621;
- 0.00000 0.15011 1.14016 -41.27601;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-4.157, old_max_log_p =-4.166 (thresh=-4.2)
- 1.13375 -0.14798 0.01948 -8.87893;
- 0.14926 1.12405 -0.14798 8.36730;
- 0.00000 0.15011 1.14016 -48.77601;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 2 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-4.157, old_max_log_p =-4.157 (thresh=-4.2)
- 1.13375 -0.14798 0.01948 -8.87893;
- 0.14926 1.12405 -0.14798 8.36730;
- 0.00000 0.15011 1.14016 -48.77601;
- 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=-4.097, old_max_log_p =-4.157 (thresh=-4.2)
- 1.19064 -0.20039 -0.05621 -0.60923;
- 0.19287 1.16808 -0.07768 -7.55813;
- 0.06316 0.06513 1.12392 -41.19419;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 4 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-4.097, old_max_log_p =-4.097 (thresh=-4.1)
- 1.19064 -0.20039 -0.05621 -0.60923;
- 0.19287 1.16808 -0.07768 -7.55813;
- 0.06316 0.06513 1.12392 -41.19419;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-4.085, old_max_log_p =-4.097 (thresh=-4.1)
- 1.19087 -0.19667 -0.01949 -4.58742;
- 0.19092 1.16669 -0.11455 -2.67036;
- 0.03044 0.10982 1.12201 -43.22834;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-4.085, old_max_log_p =-4.085 (thresh=-4.1)
- 1.19087 -0.19667 -0.01949 -4.58742;
- 0.19092 1.16669 -0.11455 -2.67036;
- 0.03044 0.10982 1.12201 -43.22834;
- 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
- 1.19087 -0.19667 -0.01949 -4.58742;
- 0.19092 1.16669 -0.11455 -2.67036;
- 0.03044 0.10982 1.12201 -43.22834;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 1.19087 -0.19667 -0.01949 -4.58742;
- 0.19092 1.16669 -0.11455 -2.67036;
- 0.03044 0.10982 1.12201 -43.22834;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 009: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.19087 -0.19667 -0.01949 -4.58742;
- 0.19092 1.16669 -0.11455 -2.67036;
- 0.03044 0.10982 1.12201 -43.22834;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -4.085 (old=-4.709)
- transform before final EM align:
- 1.19087 -0.19667 -0.01949 -4.58742;
- 0.19092 1.16669 -0.11455 -2.67036;
- 0.03044 0.10982 1.12201 -43.22834;
- 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
- 1.19087 -0.19667 -0.01949 -4.58742;
- 0.19092 1.16669 -0.11455 -2.67036;
- 0.03044 0.10982 1.12201 -43.22834;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 1.19087 -0.19667 -0.01949 -4.58742;
- 0.19092 1.16669 -0.11455 -2.67036;
- 0.03044 0.10982 1.12201 -43.22834;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 011: -log(p) = 4.5 tol 0.000000
- final transform:
- 1.19087 -0.19667 -0.01949 -4.58742;
- 0.19092 1.16669 -0.11455 -2.67036;
- 0.03044 0.10982 1.12201 -43.22834;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 2018.600126
- mri_em_register stimesec 2.287652
- 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 157588
- 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 193060
- mri_em_register ru_nivcsw 7776
- registration took 20 minutes and 58 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/touch/rusage.mri_watershed.dat -T1 -brain_atlas /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz
- Mode: T1 normalized volume
- Mode: Use the information of atlas (default parms, --help for details)
- *********************************************************
- The input file is T1.mgz
- The output file is brainmask.auto.mgz
- Weighting the input with atlas information before watershed
- *************************WATERSHED**************************
- Sorting...
- first estimation of the COG coord: x=127 y=86 z=124 r=65
- first estimation of the main basin volume: 1155728 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 12 found in the rest of the brain
- global maximum in x=143, y=73, z=93, Imax=255
- CSF=16, 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=6854126761 voxels, voxel volume =1.000
- = 6854126761 mmm3 = 6854126.592 cm3
- done.
- PostAnalyze...Basin Prior
- 34 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=126,y=96, z=119, r=9556 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=1, CSF_intensity=2, CSF_MAX=52 , nb = 43226
- RIGHT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=5 , nb = 1104425715
- LEFT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=10 , nb = -1041375197
- RIGHT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=56 , nb = 1088343356
- LEFT_BRAIN CSF_MIN=1, CSF_intensity=2, CSF_MAX=64 , nb = 1057488526
- OTHER CSF_MIN=0, CSF_intensity=9, CSF_MAX=82 , nb = 1078804540
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 52, 47, 45, 66
- after analyzing : 31, 47, 47, 51
- RIGHT_CER
- before analyzing : 5, 10, 47, 69
- after analyzing : 5, 34, 47, 42
- LEFT_CER
- before analyzing : 10, 19, 44, 66
- after analyzing : 10, 35, 44, 42
- RIGHT_BRAIN
- before analyzing : 56, 48, 45, 66
- after analyzing : 33, 48, 48, 52
- LEFT_BRAIN
- before analyzing : 64, 49, 44, 66
- after analyzing : 37, 49, 49, 53
- OTHER
- before analyzing : 82, 88, 89, 95
- after analyzing : 82, 88, 89, 89
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...78 iterations
- *********************VALIDATION*********************
- curvature mean = -0.013, std = 0.013
- curvature mean = 68.877, std = 9.407
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 7.87, sigma = 12.16
- after rotation: sse = 7.87, sigma = 12.16
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 8.66, its var is 10.83
- before Erosion-Dilatation 8.49% of inacurate vertices
- after Erosion-Dilatation 13.27% of inacurate vertices
- Validation of the shape of the surface done.
- Scaling of atlas fields onto current surface fields
- ********FINAL ITERATIVE TEMPLATE DEFORMATION********
- Compute Local values csf/gray
- Fine Segmentation...43 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1602451 voxels, voxel volume = 1.000 mm3
- = 1602451 mmm3 = 1602.451 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 29.319542
- mri_watershed stimesec 0.447931
- mri_watershed ru_maxrss 818064
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 211392
- mri_watershed ru_majflt 0
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 4544
- mri_watershed ru_oublock 2728
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 1846
- mri_watershed ru_nivcsw 1143
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Sat Oct 7 17:29:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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=21.9
- skull bounding box = (62, 29, 37) --> (189, 146, 211)
- using (104, 68, 124) as brain centroid...
- mean wm in atlas = 107, using box (88,54,103) --> (119, 82,145) to find MRI wm
- before smoothing, mri peak at 105
- robust fit to distribution - 105 +- 5.8
- after smoothing, mri peak at 105, scaling input intensities by 1.019
- scaling channel 0 by 1.01905
- initial log_p = -4.512
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.172519 @ (-9.091, 27.273, -9.091)
- max log p = -4.016878 @ (13.636, -4.545, -4.545)
- max log p = -3.914818 @ (-2.273, 2.273, 2.273)
- max log p = -3.914818 @ (0.000, 0.000, 0.000)
- max log p = -3.912988 @ (-0.568, -3.977, -0.568)
- max log p = -3.912988 @ (0.000, 0.000, 0.000)
- Found translation: (1.7, 21.0, -11.9): log p = -3.913
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.747, old_max_log_p =-3.913 (thresh=-3.9)
- 1.06549 -0.14148 -0.01831 9.56794;
- 0.13796 1.05700 -0.13912 14.50175;
- 0.03125 0.11662 0.91709 -17.56709;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.747, old_max_log_p =-3.747 (thresh=-3.7)
- 1.06549 -0.14148 -0.01831 9.56794;
- 0.13796 1.05700 -0.13912 14.50175;
- 0.03125 0.11662 0.91709 -17.56709;
- 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=-3.606, old_max_log_p =-3.747 (thresh=-3.7)
- 1.12398 -0.15605 -0.05065 5.54722;
- 0.13548 1.05776 -0.13706 16.61471;
- 0.06947 0.11593 0.96848 -30.30967;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.592, old_max_log_p =-3.606 (thresh=-3.6)
- 1.10004 -0.18067 -0.01250 6.38888;
- 0.16741 1.04245 -0.20063 21.64808;
- 0.04214 0.19343 0.97656 -35.28300;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 4 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.584, old_max_log_p =-3.592 (thresh=-3.6)
- 1.10694 -0.11683 -0.05557 4.51488;
- 0.09651 1.05813 -0.16529 24.88750;
- 0.07125 0.15034 0.96326 -33.22721;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.584, old_max_log_p =-3.584 (thresh=-3.6)
- 1.10694 -0.11683 -0.05557 4.51488;
- 0.09651 1.05813 -0.16529 24.88750;
- 0.07125 0.15034 0.96326 -33.22721;
- 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=-3.584, old_max_log_p =-3.584 (thresh=-3.6)
- 1.10694 -0.11683 -0.05557 4.51488;
- 0.09651 1.05813 -0.16529 24.88750;
- 0.07125 0.15034 0.96326 -33.22721;
- 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
- 1.10694 -0.11683 -0.05557 4.51488;
- 0.09651 1.05813 -0.16529 24.88750;
- 0.07125 0.15034 0.96326 -33.22721;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 1.10694 -0.11683 -0.05557 4.51488;
- 0.09651 1.05813 -0.16529 24.88750;
- 0.07125 0.15034 0.96326 -33.22721;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 009: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.10694 -0.11683 -0.05557 4.51488;
- 0.09651 1.05813 -0.16529 24.88750;
- 0.07125 0.15034 0.96326 -33.22721;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.584 (old=-4.512)
- transform before final EM align:
- 1.10694 -0.11683 -0.05557 4.51488;
- 0.09651 1.05813 -0.16529 24.88750;
- 0.07125 0.15034 0.96326 -33.22721;
- 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
- 1.10694 -0.11683 -0.05557 4.51488;
- 0.09651 1.05813 -0.16529 24.88750;
- 0.07125 0.15034 0.96326 -33.22721;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 1.10694 -0.11683 -0.05557 4.51488;
- 0.09651 1.05813 -0.16529 24.88750;
- 0.07125 0.15034 0.96326 -33.22721;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 011: -log(p) = 4.0 tol 0.000000
- final transform:
- 1.10694 -0.11683 -0.05557 4.51488;
- 0.09651 1.05813 -0.16529 24.88750;
- 0.07125 0.15034 0.96326 -33.22721;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 1523.550385
- mri_em_register stimesec 2.091682
- 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 158952
- 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 13415
- mri_em_register ru_nivcsw 5596
- registration took 13 minutes and 15 seconds.
- #--------------------------------------
- #@# CA Normalize Sat Oct 7 17:42:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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=21.9
- skull bounding box = (62, 29, 37) --> (189, 146, 211)
- using (104, 68, 124) as brain centroid...
- mean wm in atlas = 107, using box (88,54,103) --> (119, 82,145) to find MRI wm
- before smoothing, mri peak at 105
- robust fit to distribution - 105 +- 5.8
- 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
- 1.10694 -0.11683 -0.05557 4.51488;
- 0.09651 1.05813 -0.16529 24.88750;
- 0.07125 0.15034 0.96326 -33.22721;
- 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 (121, 31, 36) --> (187, 145, 208)
- Left_Cerebral_White_Matter: limiting intensities to 102.0 --> 132.0
- 0 of 14 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (67, 33, 39) --> (131, 151, 211)
- Right_Cerebral_White_Matter: limiting intensities to 102.0 --> 132.0
- 0 of 12 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (127, 108, 53) --> (173, 146, 110)
- Left_Cerebellum_White_Matter: limiting intensities to 102.0 --> 132.0
- 0 of 7 (0.0%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (89, 109, 53) --> (128, 150, 113)
- Right_Cerebellum_White_Matter: limiting intensities to 102.0 --> 132.0
- 2 of 18 (11.1%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (113, 105, 85) --> (146, 168, 124)
- Brain_Stem: limiting intensities to 104.0 --> 132.0
- 9 of 10 (90.0%) samples deleted
- using 61 total control points for intensity normalization...
- bias field = 0.854 +- 0.081
- 0 of 50 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (121, 31, 36) --> (187, 145, 208)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 0 of 128 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (67, 33, 39) --> (131, 151, 211)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 1 of 108 (0.9%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (127, 108, 53) --> (173, 146, 110)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 18 of 59 (30.5%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (89, 109, 53) --> (128, 150, 113)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 36 of 53 (67.9%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (113, 105, 85) --> (146, 168, 124)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 41 of 104 (39.4%) samples deleted
- using 452 total control points for intensity normalization...
- bias field = 0.998 +- 0.103
- 0 of 348 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (121, 31, 36) --> (187, 145, 208)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 1 of 252 (0.4%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (67, 33, 39) --> (131, 151, 211)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 10 of 255 (3.9%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (127, 108, 53) --> (173, 146, 110)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 38 of 68 (55.9%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (89, 109, 53) --> (128, 150, 113)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 74 of 96 (77.1%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (113, 105, 85) --> (146, 168, 124)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 111 of 169 (65.7%) samples deleted
- using 840 total control points for intensity normalization...
- bias field = 1.012 +- 0.070
- 0 of 604 control points discarded
- writing normalized volume to norm.mgz...
- writing control points to ctrl_pts.mgz
- freeing GCA...done.
- normalization took 1 minutes and 51 seconds.
- #--------------------------------------
- #@# CA Reg Sat Oct 7 17:44:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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) = 1.17 (predicted orig area = 6.8)
- 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=0.814, neg=0, invalid=762
- 0001: dt=221.952000, rms=0.738 (9.411%), neg=0, invalid=762
- 0002: dt=156.505747, rms=0.721 (2.269%), neg=0, invalid=762
- 0003: dt=226.513089, rms=0.711 (1.410%), neg=0, invalid=762
- 0004: dt=129.472000, rms=0.706 (0.618%), neg=0, invalid=762
- 0005: dt=295.936000, rms=0.703 (0.507%), neg=0, invalid=762
- 0006: dt=129.472000, rms=0.700 (0.333%), neg=0, invalid=762
- 0007: dt=129.472000, rms=0.699 (0.156%), neg=0, invalid=762
- 0008: dt=129.472000, rms=0.698 (0.133%), neg=0, invalid=762
- 0009: dt=129.472000, rms=0.697 (0.208%), neg=0, invalid=762
- 0010: dt=129.472000, rms=0.695 (0.265%), neg=0, invalid=762
- 0011: dt=129.472000, rms=0.694 (0.214%), neg=0, invalid=762
- 0012: dt=129.472000, rms=0.692 (0.216%), neg=0, invalid=762
- 0013: dt=129.472000, rms=0.691 (0.206%), neg=0, invalid=762
- 0014: dt=129.472000, rms=0.689 (0.187%), neg=0, invalid=762
- 0015: dt=129.472000, rms=0.688 (0.181%), neg=0, invalid=762
- 0016: dt=129.472000, rms=0.687 (0.167%), neg=0, invalid=762
- 0017: dt=129.472000, rms=0.686 (0.176%), neg=0, invalid=762
- 0018: dt=129.472000, rms=0.685 (0.158%), neg=0, invalid=762
- 0019: dt=129.472000, rms=0.684 (0.148%), neg=0, invalid=762
- 0020: dt=129.472000, rms=0.683 (0.135%), neg=0, invalid=762
- 0021: dt=129.472000, rms=0.682 (0.108%), neg=0, invalid=762
- 0022: dt=129.472000, rms=0.681 (0.095%), neg=0, invalid=762
- 0023: dt=517.888000, rms=0.681 (0.051%), neg=0, invalid=762
- 0024: dt=517.888000, rms=0.680 (0.101%), neg=0, invalid=762
- 0025: dt=517.888000, rms=0.680 (-1.591%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.681, neg=0, invalid=762
- 0026: dt=110.976000, rms=0.679 (0.222%), neg=0, invalid=762
- 0027: dt=92.480000, rms=0.679 (0.016%), neg=0, invalid=762
- 0028: dt=92.480000, rms=0.679 (0.022%), neg=0, invalid=762
- 0029: dt=92.480000, rms=0.679 (0.026%), neg=0, invalid=762
- 0030: dt=92.480000, rms=0.678 (0.043%), neg=0, invalid=762
- 0031: dt=92.480000, rms=0.678 (0.069%), neg=0, invalid=762
- 0032: dt=92.480000, rms=0.677 (0.090%), neg=0, invalid=762
- 0033: dt=92.480000, rms=0.677 (0.092%), neg=0, invalid=762
- 0034: dt=92.480000, rms=0.676 (0.080%), neg=0, invalid=762
- 0035: dt=92.480000, rms=0.676 (0.063%), neg=0, invalid=762
- setting smoothness coefficient to 0.154
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.680, neg=0, invalid=762
- 0036: dt=92.307692, rms=0.675 (0.775%), neg=0, invalid=762
- 0037: dt=267.310751, rms=0.661 (1.974%), neg=0, invalid=762
- 0038: dt=48.905660, rms=0.658 (0.538%), neg=0, invalid=762
- 0039: dt=497.664000, rms=0.651 (1.078%), neg=0, invalid=762
- 0040: dt=77.913043, rms=0.644 (1.103%), neg=0, invalid=762
- 0041: dt=31.104000, rms=0.643 (0.042%), neg=0, invalid=762
- 0042: dt=31.104000, rms=0.643 (0.031%), neg=0, invalid=762
- 0043: dt=31.104000, rms=0.643 (0.066%), neg=0, invalid=762
- 0044: dt=31.104000, rms=0.642 (0.116%), neg=0, invalid=762
- 0045: dt=31.104000, rms=0.641 (0.189%), neg=0, invalid=762
- 0046: dt=31.104000, rms=0.639 (0.240%), neg=0, invalid=762
- 0047: dt=31.104000, rms=0.638 (0.255%), neg=0, invalid=762
- 0048: dt=31.104000, rms=0.636 (0.263%), neg=0, invalid=762
- 0049: dt=31.104000, rms=0.634 (0.256%), neg=0, invalid=762
- 0050: dt=31.104000, rms=0.633 (0.245%), neg=0, invalid=762
- 0051: dt=31.104000, rms=0.631 (0.235%), neg=0, invalid=762
- 0052: dt=31.104000, rms=0.630 (0.229%), neg=0, invalid=762
- 0053: dt=31.104000, rms=0.628 (0.220%), neg=0, invalid=762
- 0054: dt=31.104000, rms=0.627 (0.197%), neg=0, invalid=762
- 0055: dt=31.104000, rms=0.626 (0.184%), neg=0, invalid=762
- 0056: dt=31.104000, rms=0.625 (0.167%), neg=0, invalid=762
- 0057: dt=31.104000, rms=0.624 (0.159%), neg=0, invalid=762
- 0058: dt=31.104000, rms=0.623 (0.157%), neg=0, invalid=762
- 0059: dt=31.104000, rms=0.622 (0.141%), neg=0, invalid=762
- 0060: dt=31.104000, rms=0.621 (0.123%), neg=0, invalid=762
- 0061: dt=31.104000, rms=0.621 (0.116%), neg=0, invalid=762
- 0062: dt=145.152000, rms=0.620 (0.042%), neg=0, invalid=762
- 0063: dt=145.152000, rms=0.620 (-0.158%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.621, neg=0, invalid=762
- 0064: dt=66.237762, rms=0.619 (0.324%), neg=0, invalid=762
- 0065: dt=82.944000, rms=0.619 (0.085%), neg=0, invalid=762
- 0066: dt=82.944000, rms=0.618 (0.054%), neg=0, invalid=762
- 0067: dt=82.944000, rms=0.618 (0.076%), neg=0, invalid=762
- 0068: dt=82.944000, rms=0.618 (0.017%), neg=0, invalid=762
- 0069: dt=82.944000, rms=0.617 (0.036%), neg=0, invalid=762
- 0070: dt=82.944000, rms=0.617 (0.040%), neg=0, invalid=762
- 0071: dt=82.944000, rms=0.617 (0.051%), neg=0, invalid=762
- 0072: dt=82.944000, rms=0.617 (0.009%), neg=0, invalid=762
- 0073: dt=82.944000, rms=0.616 (0.057%), neg=0, invalid=762
- 0074: dt=62.208000, rms=0.616 (0.027%), neg=0, invalid=762
- setting smoothness coefficient to 0.588
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.635, neg=0, invalid=762
- 0075: dt=4.800000, rms=0.634 (0.107%), neg=0, invalid=762
- 0076: dt=2.000000, rms=0.634 (0.003%), neg=0, invalid=762
- 0077: dt=2.000000, rms=0.634 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.634, neg=0, invalid=762
- 0078: dt=0.000000, rms=0.634 (0.080%), neg=0, invalid=762
- 0079: dt=0.000000, rms=0.634 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 2.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.686, neg=0, invalid=762
- 0080: dt=5.775862, rms=0.670 (2.228%), neg=0, invalid=762
- 0081: dt=2.880000, rms=0.670 (0.085%), neg=0, invalid=762
- 0082: dt=2.880000, rms=0.670 (-0.015%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.670, neg=0, invalid=762
- 0083: dt=0.000000, rms=0.670 (0.064%), neg=0, invalid=762
- 0084: dt=0.000000, rms=0.670 (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=0.722, neg=0, invalid=762
- 0085: dt=0.448000, rms=0.720 (0.208%), neg=0, invalid=762
- 0086: dt=1.024000, rms=0.719 (0.189%), neg=0, invalid=762
- 0087: dt=1.024000, rms=0.717 (0.299%), neg=0, invalid=762
- 0088: dt=1.024000, rms=0.716 (0.161%), neg=0, invalid=762
- 0089: dt=1.024000, rms=0.716 (-0.259%), neg=0, invalid=762
- 0090: dt=1.792000, rms=0.715 (0.130%), neg=0, invalid=762
- 0091: dt=1.792000, rms=0.713 (0.188%), neg=0, invalid=762
- 0092: dt=0.000000, rms=0.713 (0.003%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.714, neg=0, invalid=762
- 0093: dt=0.448000, rms=0.713 (0.103%), neg=0, invalid=762
- 0094: dt=1.024000, rms=0.713 (0.030%), neg=0, invalid=762
- 0095: dt=1.024000, rms=0.713 (0.030%), neg=0, invalid=762
- 0096: dt=1.024000, rms=0.713 (-0.001%), 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=0.680, neg=0, invalid=762
- 0097: dt=0.804555, rms=0.664 (2.366%), neg=0, invalid=762
- 0098: dt=0.080000, rms=0.663 (0.142%), neg=0, invalid=762
- 0099: dt=0.080000, rms=0.663 (-0.075%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.663, neg=0, invalid=762
- 0100: dt=0.028000, rms=0.663 (0.092%), neg=0, invalid=762
- 0101: dt=0.020000, rms=0.663 (0.005%), neg=0, invalid=762
- 0102: dt=0.020000, rms=0.663 (-0.004%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.12091 (24)
- Left_Lateral_Ventricle (4): linear fit = 1.14 x + 0.0 (1031 voxels, overlap=0.812)
- Left_Lateral_Ventricle (4): linear fit = 1.14 x + 0.0 (1031 voxels, peak = 23), gca=22.9
- gca peak = 0.15565 (16)
- mri peak = 0.11057 (25)
- Right_Lateral_Ventricle (43): linear fit = 1.48 x + 0.0 (1180 voxels, overlap=0.471)
- Right_Lateral_Ventricle (43): linear fit = 1.48 x + 0.0 (1180 voxels, peak = 24), gca=23.6
- gca peak = 0.26829 (96)
- mri peak = 0.07828 (93)
- Right_Pallidum (52): linear fit = 0.95 x + 0.0 (622 voxels, overlap=0.740)
- Right_Pallidum (52): linear fit = 0.95 x + 0.0 (622 voxels, peak = 92), gca=91.7
- gca peak = 0.20183 (93)
- mri peak = 0.07371 (92)
- Left_Pallidum (13): linear fit = 0.95 x + 0.0 (526 voxels, overlap=0.679)
- Left_Pallidum (13): linear fit = 0.95 x + 0.0 (526 voxels, peak = 89), gca=88.8
- gca peak = 0.21683 (55)
- mri peak = 0.09206 (71)
- Right_Hippocampus (53): linear fit = 1.21 x + 0.0 (641 voxels, overlap=0.141)
- Right_Hippocampus (53): linear fit = 1.21 x + 0.0 (641 voxels, peak = 66), gca=66.3
- gca peak = 0.30730 (58)
- mri peak = 0.07674 (67)
- Left_Hippocampus (17): linear fit = 1.16 x + 0.0 (625 voxels, overlap=0.284)
- Left_Hippocampus (17): linear fit = 1.16 x + 0.0 (625 voxels, peak = 68), gca=67.6
- gca peak = 0.11430 (101)
- mri peak = 0.06924 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (52326 voxels, overlap=0.809)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (52326 voxels, peak = 105), gca=104.5
- gca peak = 0.12076 (102)
- mri peak = 0.07337 (105)
- Left_Cerebral_White_Matter (2): linear fit = 1.03 x + 0.0 (50225 voxels, overlap=0.779)
- Left_Cerebral_White_Matter (2): linear fit = 1.03 x + 0.0 (50225 voxels, peak = 106), gca=105.6
- gca peak = 0.14995 (59)
- mri peak = 0.04646 (70)
- Left_Cerebral_Cortex (3): linear fit = 1.20 x + 0.0 (18533 voxels, overlap=0.157)
- Left_Cerebral_Cortex (3): linear fit = 1.20 x + 0.0 (18533 voxels, peak = 71), gca=70.5
- gca peak = 0.15082 (58)
- mri peak = 0.04856 (70)
- Right_Cerebral_Cortex (42): linear fit = 1.20 x + 0.0 (19732 voxels, overlap=0.245)
- Right_Cerebral_Cortex (42): linear fit = 1.20 x + 0.0 (19732 voxels, peak = 69), gca=69.3
- gca peak = 0.14161 (67)
- mri peak = 0.08449 (76)
- Right_Caudate (50): linear fit = 1.12 x + 0.0 (721 voxels, overlap=0.562)
- Right_Caudate (50): linear fit = 1.12 x + 0.0 (721 voxels, peak = 75), gca=74.7
- gca peak = 0.15243 (71)
- mri peak = 0.08067 (76)
- Left_Caudate (11): linear fit = 1.03 x + 0.0 (721 voxels, overlap=0.963)
- Left_Caudate (11): linear fit = 1.03 x + 0.0 (721 voxels, peak = 73), gca=73.5
- gca peak = 0.13336 (57)
- mri peak = 0.05754 (63)
- Left_Cerebellum_Cortex (8): linear fit = 1.16 x + 0.0 (22326 voxels, overlap=0.442)
- Left_Cerebellum_Cortex (8): linear fit = 1.16 x + 0.0 (22326 voxels, peak = 66), gca=66.4
- gca peak = 0.13252 (56)
- mri peak = 0.05292 (64)
- Right_Cerebellum_Cortex (47): linear fit = 1.13 x + 0.0 (23979 voxels, overlap=0.670)
- Right_Cerebellum_Cortex (47): linear fit = 1.13 x + 0.0 (23979 voxels, peak = 64), gca=63.6
- gca peak = 0.18181 (84)
- mri peak = 0.05431 (86)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (7501 voxels, overlap=0.929)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (7501 voxels, peak = 86), gca=86.1
- gca peak = 0.20573 (83)
- mri peak = 0.05678 (83)
- Right_Cerebellum_White_Matter (46): linear fit = 0.99 x + 0.0 (7261 voxels, overlap=0.978)
- Right_Cerebellum_White_Matter (46): linear fit = 0.99 x + 0.0 (7261 voxels, peak = 82), gca=81.8
- gca peak = 0.21969 (57)
- mri peak = 0.08513 (62)
- Left_Amygdala (18): linear fit = 1.12 x + 0.0 (321 voxels, overlap=0.484)
- Left_Amygdala (18): linear fit = 1.12 x + 0.0 (321 voxels, peak = 64), gca=63.6
- gca peak = 0.39313 (56)
- mri peak = 0.07977 (63)
- Right_Amygdala (54): linear fit = 1.13 x + 0.0 (345 voxels, overlap=0.648)
- Right_Amygdala (54): linear fit = 1.13 x + 0.0 (345 voxels, peak = 64), gca=63.6
- gca peak = 0.14181 (85)
- mri peak = 0.05426 (89)
- Left_Thalamus_Proper (10): linear fit = 1.02 x + 0.0 (4628 voxels, overlap=0.923)
- Left_Thalamus_Proper (10): linear fit = 1.02 x + 0.0 (4628 voxels, peak = 87), gca=87.1
- gca peak = 0.11978 (83)
- mri peak = 0.05723 (89)
- Right_Thalamus_Proper (49): linear fit = 1.05 x + 0.0 (4097 voxels, overlap=0.852)
- Right_Thalamus_Proper (49): linear fit = 1.05 x + 0.0 (4097 voxels, peak = 88), gca=87.6
- gca peak = 0.13399 (79)
- mri peak = 0.07389 (79)
- Left_Putamen (12): linear fit = 1.05 x + 0.0 (1637 voxels, overlap=0.864)
- Left_Putamen (12): linear fit = 1.05 x + 0.0 (1637 voxels, peak = 83), gca=83.3
- gca peak = 0.14159 (79)
- mri peak = 0.06844 (79)
- Right_Putamen (51): linear fit = 1.04 x + 0.0 (1878 voxels, overlap=0.913)
- Right_Putamen (51): linear fit = 1.04 x + 0.0 (1878 voxels, peak = 83), gca=82.6
- gca peak = 0.10025 (80)
- mri peak = 0.09480 (82)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (8537 voxels, overlap=0.402)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (8537 voxels, peak = 88), gca=87.6
- gca peak = 0.13281 (86)
- mri peak = 0.07640 (89)
- Right_VentralDC (60): linear fit = 1.04 x + 0.0 (753 voxels, overlap=0.728)
- Right_VentralDC (60): linear fit = 1.04 x + 0.0 (753 voxels, peak = 90), gca=89.9
- gca peak = 0.12801 (89)
- mri peak = 0.07967 (89)
- Left_VentralDC (28): linear fit = 1.02 x + 0.0 (810 voxels, overlap=0.850)
- Left_VentralDC (28): linear fit = 1.02 x + 0.0 (810 voxels, peak = 91), gca=91.2
- gca peak = 0.20494 (23)
- mri peak = 1.00000 (40)
- gca peak = 0.15061 (21)
- mri peak = 0.08803 (25)
- Fourth_Ventricle (15): linear fit = 1.16 x + 0.0 (395 voxels, overlap=0.654)
- Fourth_Ventricle (15): linear fit = 1.16 x + 0.0 (395 voxels, peak = 24), gca=24.5
- 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 1.17 x + 0.0
- estimating mean wm scale to be 1.03 x + 0.0
- estimating mean csf scale to be 1.26 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=0.655, neg=0, invalid=762
- 0103: dt=92.480000, rms=0.647 (1.195%), neg=0, invalid=762
- 0104: dt=129.472000, rms=0.645 (0.307%), neg=0, invalid=762
- 0105: dt=369.920000, rms=0.643 (0.370%), neg=0, invalid=762
- 0106: dt=295.936000, rms=0.642 (0.203%), neg=0, invalid=762
- 0107: dt=73.984000, rms=0.641 (0.110%), neg=0, invalid=762
- 0108: dt=1479.680000, rms=0.638 (0.530%), neg=0, invalid=762
- 0109: dt=92.480000, rms=0.637 (0.082%), neg=0, invalid=762
- 0110: dt=369.920000, rms=0.637 (0.078%), neg=0, invalid=762
- 0111: dt=369.920000, rms=0.635 (0.227%), neg=0, invalid=762
- 0112: dt=32.368000, rms=0.635 (0.014%), neg=0, invalid=762
- 0113: dt=32.368000, rms=0.635 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.635, neg=0, invalid=762
- 0114: dt=55.488000, rms=0.635 (0.074%), neg=0, invalid=762
- 0115: dt=92.480000, rms=0.635 (0.017%), neg=0, invalid=762
- 0116: dt=92.480000, rms=0.635 (0.032%), neg=0, invalid=762
- 0117: dt=92.480000, rms=0.634 (0.043%), neg=0, invalid=762
- 0118: dt=92.480000, rms=0.634 (0.052%), neg=0, invalid=762
- 0119: dt=92.480000, rms=0.634 (0.058%), neg=0, invalid=762
- 0120: dt=92.480000, rms=0.633 (0.068%), neg=0, invalid=762
- 0121: dt=92.480000, rms=0.633 (0.063%), neg=0, invalid=762
- 0122: dt=92.480000, rms=0.633 (0.053%), neg=0, invalid=762
- 0123: dt=92.480000, rms=0.632 (0.046%), neg=0, invalid=762
- 0124: dt=92.480000, rms=0.632 (0.055%), neg=0, invalid=762
- 0125: dt=92.480000, rms=0.631 (0.070%), neg=0, invalid=762
- 0126: dt=92.480000, rms=0.631 (0.090%), neg=0, invalid=762
- 0127: dt=92.480000, rms=0.630 (0.096%), neg=0, invalid=762
- 0128: dt=92.480000, rms=0.630 (0.083%), neg=0, invalid=762
- 0129: dt=92.480000, rms=0.629 (0.066%), neg=0, invalid=762
- 0130: dt=92.480000, rms=0.629 (0.047%), neg=0, invalid=762
- 0131: dt=92.480000, rms=0.629 (0.039%), neg=0, invalid=762
- 0132: dt=92.480000, rms=0.628 (0.044%), neg=0, invalid=762
- 0133: dt=92.480000, rms=0.628 (0.049%), neg=0, invalid=762
- 0134: dt=92.480000, rms=0.628 (0.050%), neg=0, invalid=762
- 0135: dt=92.480000, rms=0.628 (0.050%), neg=0, invalid=762
- 0136: dt=92.480000, rms=0.627 (0.045%), neg=0, invalid=762
- 0137: dt=92.480000, rms=0.627 (0.043%), neg=0, invalid=762
- 0138: dt=92.480000, rms=0.627 (0.046%), neg=0, invalid=762
- 0139: dt=92.480000, rms=0.626 (0.053%), neg=0, invalid=762
- 0140: dt=92.480000, rms=0.626 (0.056%), neg=0, invalid=762
- 0141: dt=92.480000, rms=0.626 (0.055%), neg=0, invalid=762
- 0142: dt=92.480000, rms=0.625 (0.044%), neg=0, invalid=762
- 0143: dt=92.480000, rms=0.625 (0.040%), neg=0, invalid=762
- 0144: dt=92.480000, rms=0.625 (0.038%), neg=0, invalid=762
- 0145: dt=92.480000, rms=0.625 (0.037%), neg=0, invalid=762
- 0146: dt=92.480000, rms=0.624 (0.037%), neg=0, invalid=762
- 0147: dt=92.480000, rms=0.624 (0.037%), neg=0, invalid=762
- 0148: dt=92.480000, rms=0.624 (0.036%), neg=0, invalid=762
- 0149: dt=92.480000, rms=0.624 (0.033%), neg=0, invalid=762
- 0150: dt=92.480000, rms=0.624 (0.034%), neg=0, invalid=762
- 0151: dt=92.480000, rms=0.623 (0.038%), neg=0, invalid=762
- 0152: dt=92.480000, rms=0.623 (0.037%), neg=0, invalid=762
- 0153: dt=92.480000, rms=0.623 (0.032%), neg=0, invalid=762
- 0154: dt=92.480000, rms=0.623 (0.030%), neg=0, invalid=762
- 0155: dt=92.480000, rms=0.623 (0.029%), neg=0, invalid=762
- 0156: dt=92.480000, rms=0.622 (0.032%), neg=0, invalid=762
- 0157: dt=92.480000, rms=0.622 (0.033%), neg=0, invalid=762
- 0158: dt=92.480000, rms=0.622 (0.031%), neg=0, invalid=762
- 0159: dt=92.480000, rms=0.622 (0.026%), neg=0, invalid=762
- 0160: dt=92.480000, rms=0.622 (0.024%), neg=0, invalid=762
- 0161: dt=92.480000, rms=0.622 (0.020%), neg=0, invalid=762
- 0162: dt=2071.552000, rms=0.621 (0.044%), neg=0, invalid=762
- 0163: dt=23.120000, rms=0.621 (-0.006%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.622, neg=0, invalid=762
- 0164: dt=160.603774, rms=0.616 (0.939%), neg=0, invalid=762
- 0165: dt=129.665944, rms=0.609 (1.128%), neg=0, invalid=762
- 0166: dt=76.000000, rms=0.606 (0.464%), neg=0, invalid=762
- 0167: dt=92.790831, rms=0.603 (0.504%), neg=0, invalid=762
- 0168: dt=68.491228, rms=0.601 (0.356%), neg=0, invalid=762
- 0169: dt=124.416000, rms=0.599 (0.414%), neg=0, invalid=762
- 0170: dt=36.288000, rms=0.597 (0.276%), neg=0, invalid=762
- 0171: dt=580.608000, rms=0.591 (1.069%), neg=0, invalid=762
- 0172: dt=55.560440, rms=0.587 (0.658%), neg=0, invalid=762
- 0173: dt=103.680000, rms=0.586 (0.178%), neg=0, invalid=762
- 0174: dt=69.019608, rms=0.585 (0.176%), neg=0, invalid=762
- 0175: dt=103.680000, rms=0.584 (0.147%), neg=0, invalid=762
- 0176: dt=72.186047, rms=0.583 (0.158%), neg=0, invalid=762
- 0177: dt=103.680000, rms=0.582 (0.127%), neg=0, invalid=762
- 0178: dt=65.422222, rms=0.581 (0.152%), neg=0, invalid=762
- 0179: dt=103.680000, rms=0.581 (0.116%), neg=0, invalid=762
- 0180: dt=82.944000, rms=0.580 (0.131%), neg=0, invalid=762
- 0181: dt=62.208000, rms=0.579 (0.100%), neg=0, invalid=762
- 0182: dt=145.152000, rms=0.578 (0.158%), neg=0, invalid=762
- 0183: dt=36.288000, rms=0.578 (0.087%), neg=0, invalid=762
- 0184: dt=580.608000, rms=0.575 (0.530%), neg=0, invalid=762
- 0185: dt=36.288000, rms=0.574 (0.181%), neg=0, invalid=762
- 0186: dt=331.776000, rms=0.573 (0.163%), neg=0, invalid=762
- 0187: dt=36.288000, rms=0.572 (0.147%), neg=0, invalid=762
- 0188: dt=145.152000, rms=0.571 (0.095%), neg=0, invalid=762
- 0189: dt=82.944000, rms=0.571 (0.080%), neg=0, invalid=762
- 0190: dt=62.208000, rms=0.571 (0.046%), neg=0, invalid=762
- 0191: dt=62.208000, rms=0.570 (0.052%), neg=0, invalid=762
- 0192: dt=62.208000, rms=0.570 (0.078%), neg=0, invalid=762
- 0193: dt=62.208000, rms=0.569 (0.110%), neg=0, invalid=762
- 0194: dt=62.208000, rms=0.569 (0.138%), neg=0, invalid=762
- 0195: dt=62.208000, rms=0.568 (0.168%), neg=0, invalid=762
- 0196: dt=62.208000, rms=0.567 (0.176%), neg=0, invalid=762
- 0197: dt=62.208000, rms=0.566 (0.186%), neg=0, invalid=762
- 0198: dt=62.208000, rms=0.565 (0.186%), neg=0, invalid=762
- 0199: dt=62.208000, rms=0.564 (0.166%), neg=0, invalid=762
- 0200: dt=62.208000, rms=0.563 (0.162%), neg=0, invalid=762
- 0201: dt=62.208000, rms=0.562 (0.165%), neg=0, invalid=762
- 0202: dt=62.208000, rms=0.561 (0.173%), neg=0, invalid=762
- 0203: dt=62.208000, rms=0.560 (0.156%), neg=0, invalid=762
- 0204: dt=62.208000, rms=0.560 (0.021%), neg=0, invalid=762
- 0205: dt=62.208000, rms=0.560 (0.028%), neg=0, invalid=762
- 0206: dt=62.208000, rms=0.559 (0.044%), neg=0, invalid=762
- 0207: dt=62.208000, rms=0.559 (0.051%), neg=0, invalid=762
- 0208: dt=62.208000, rms=0.559 (0.059%), neg=0, invalid=762
- 0209: dt=62.208000, rms=0.558 (0.061%), neg=0, invalid=762
- 0210: dt=62.208000, rms=0.558 (0.076%), neg=0, invalid=762
- 0211: dt=62.208000, rms=0.558 (0.080%), neg=0, invalid=762
- 0212: dt=62.208000, rms=0.557 (0.091%), neg=0, invalid=762
- 0213: dt=31.104000, rms=0.557 (0.008%), neg=0, invalid=762
- 0214: dt=31.104000, rms=0.557 (0.008%), neg=0, invalid=762
- 0215: dt=1.944000, rms=0.557 (0.000%), neg=0, invalid=762
- 0216: dt=0.015187, rms=0.557 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.557, neg=0, invalid=762
- 0217: dt=103.680000, rms=0.556 (0.317%), neg=0, invalid=762
- 0218: dt=145.152000, rms=0.554 (0.236%), neg=0, invalid=762
- 0219: dt=36.288000, rms=0.554 (0.074%), neg=0, invalid=762
- 0220: dt=103.680000, rms=0.554 (0.034%), neg=0, invalid=762
- 0221: dt=103.680000, rms=0.553 (0.117%), neg=0, invalid=762
- 0222: dt=103.680000, rms=0.553 (0.111%), neg=0, invalid=762
- 0223: dt=103.680000, rms=0.552 (0.076%), neg=0, invalid=762
- 0224: dt=103.680000, rms=0.551 (0.143%), neg=0, invalid=762
- 0225: dt=103.680000, rms=0.551 (0.136%), neg=0, invalid=762
- 0226: dt=103.680000, rms=0.550 (0.103%), neg=0, invalid=762
- 0227: dt=103.680000, rms=0.549 (0.109%), neg=0, invalid=762
- 0228: dt=103.680000, rms=0.549 (0.133%), neg=0, invalid=762
- 0229: dt=103.680000, rms=0.548 (0.142%), neg=0, invalid=762
- 0230: dt=103.680000, rms=0.547 (0.121%), neg=0, invalid=762
- 0231: dt=103.680000, rms=0.547 (0.127%), neg=0, invalid=762
- 0232: dt=103.680000, rms=0.546 (0.129%), neg=0, invalid=762
- 0233: dt=103.680000, rms=0.545 (0.109%), neg=0, invalid=762
- 0234: dt=103.680000, rms=0.545 (0.105%), neg=0, invalid=762
- 0235: dt=103.680000, rms=0.544 (0.097%), neg=0, invalid=762
- 0236: dt=103.680000, rms=0.544 (0.096%), neg=0, invalid=762
- 0237: dt=103.680000, rms=0.543 (0.087%), neg=0, invalid=762
- 0238: dt=103.680000, rms=0.543 (0.071%), neg=0, invalid=762
- 0239: dt=103.680000, rms=0.542 (0.089%), neg=0, invalid=762
- 0240: dt=103.680000, rms=0.542 (0.085%), neg=0, invalid=762
- 0241: dt=103.680000, rms=0.541 (0.085%), neg=0, invalid=762
- 0242: dt=103.680000, rms=0.541 (0.092%), neg=0, invalid=762
- 0243: dt=103.680000, rms=0.540 (0.108%), neg=0, invalid=762
- 0244: dt=103.680000, rms=0.540 (0.102%), neg=0, invalid=762
- 0245: dt=103.680000, rms=0.539 (0.081%), neg=0, invalid=762
- 0246: dt=103.680000, rms=0.539 (0.083%), neg=0, invalid=762
- 0247: dt=103.680000, rms=0.538 (0.074%), neg=0, invalid=762
- 0248: dt=103.680000, rms=0.538 (0.072%), neg=0, invalid=762
- 0249: dt=103.680000, rms=0.538 (0.068%), neg=0, invalid=762
- 0250: dt=103.680000, rms=0.537 (0.068%), neg=0, invalid=762
- 0251: dt=103.680000, rms=0.537 (0.057%), neg=0, invalid=762
- 0252: dt=103.680000, rms=0.537 (0.046%), neg=0, invalid=762
- 0253: dt=103.680000, rms=0.537 (0.036%), neg=0, invalid=762
- 0254: dt=103.680000, rms=0.536 (0.049%), neg=0, invalid=762
- 0255: dt=103.680000, rms=0.536 (0.065%), neg=0, invalid=762
- 0256: dt=103.680000, rms=0.536 (0.046%), neg=0, invalid=762
- 0257: dt=103.680000, rms=0.535 (0.042%), neg=0, invalid=762
- 0258: dt=103.680000, rms=0.535 (0.006%), neg=0, invalid=762
- 0259: dt=103.680000, rms=0.535 (0.001%), neg=0, invalid=762
- 0260: dt=36.288000, rms=0.535 (0.010%), neg=0, invalid=762
- 0261: dt=36.288000, rms=0.535 (0.002%), neg=0, invalid=762
- 0262: dt=36.288000, rms=0.535 (0.001%), neg=0, invalid=762
- 0263: dt=18.144000, rms=0.535 (0.004%), neg=0, invalid=762
- 0264: dt=18.144000, rms=0.535 (-0.001%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.545, neg=0, invalid=762
- 0265: dt=32.000000, rms=0.543 (0.362%), neg=0, invalid=762
- 0266: dt=90.612245, rms=0.539 (0.620%), neg=0, invalid=762
- 0267: dt=44.800000, rms=0.537 (0.392%), neg=0, invalid=762
- 0268: dt=32.000000, rms=0.535 (0.374%), neg=0, invalid=762
- 0269: dt=32.000000, rms=0.534 (0.197%), neg=0, invalid=762
- 0270: dt=38.400000, rms=0.533 (0.241%), neg=0, invalid=762
- 0271: dt=25.600000, rms=0.532 (0.161%), neg=0, invalid=762
- 0272: dt=44.800000, rms=0.531 (0.225%), neg=0, invalid=762
- 0273: dt=25.600000, rms=0.530 (0.141%), neg=0, invalid=762
- 0274: dt=44.800000, rms=0.529 (0.205%), neg=0, invalid=762
- 0275: dt=25.600000, rms=0.528 (0.118%), neg=0, invalid=762
- 0276: dt=32.000000, rms=0.527 (0.149%), neg=0, invalid=762
- 0277: dt=8.000000, rms=0.527 (0.037%), neg=0, invalid=762
- 0278: dt=0.125000, rms=0.527 (0.002%), neg=0, invalid=762
- 0279: dt=0.031250, rms=0.527 (0.000%), neg=0, invalid=762
- 0280: dt=0.000977, rms=0.527 (0.000%), neg=0, invalid=762
- 0281: dt=0.000684, rms=0.527 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.528, neg=0, invalid=762
- 0282: dt=44.800000, rms=0.525 (0.519%), neg=0, invalid=762
- 0283: dt=44.800000, rms=0.523 (0.292%), neg=0, invalid=762
- 0284: dt=38.400000, rms=0.523 (0.104%), neg=0, invalid=762
- 0285: dt=44.800000, rms=0.522 (0.183%), neg=0, invalid=762
- 0286: dt=25.600000, rms=0.521 (0.087%), neg=0, invalid=762
- 0287: dt=76.800000, rms=0.521 (0.182%), neg=0, invalid=762
- 0288: dt=24.436364, rms=0.520 (0.109%), neg=0, invalid=762
- 0289: dt=44.800000, rms=0.519 (0.133%), neg=0, invalid=762
- 0290: dt=32.000000, rms=0.519 (0.077%), neg=0, invalid=762
- 0291: dt=38.400000, rms=0.518 (0.092%), neg=0, invalid=762
- 0292: dt=25.600000, rms=0.518 (0.058%), neg=0, invalid=762
- 0293: dt=44.800000, rms=0.518 (0.102%), neg=0, invalid=762
- 0294: dt=25.600000, rms=0.517 (0.043%), neg=0, invalid=762
- 0295: dt=25.600000, rms=0.517 (0.078%), neg=0, invalid=762
- 0296: dt=25.600000, rms=0.516 (0.095%), neg=0, invalid=762
- 0297: dt=25.600000, rms=0.516 (0.134%), neg=0, invalid=762
- 0298: dt=25.600000, rms=0.515 (0.152%), neg=0, invalid=762
- 0299: dt=25.600000, rms=0.514 (0.184%), neg=0, invalid=762
- 0300: dt=25.600000, rms=0.513 (0.187%), neg=0, invalid=762
- 0301: dt=25.600000, rms=0.512 (0.187%), neg=0, invalid=762
- 0302: dt=25.600000, rms=0.511 (0.184%), neg=0, invalid=762
- 0303: dt=25.600000, rms=0.510 (0.189%), neg=0, invalid=762
- 0304: dt=25.600000, rms=0.509 (0.183%), neg=0, invalid=762
- 0305: dt=25.600000, rms=0.508 (0.180%), neg=0, invalid=762
- 0306: dt=25.600000, rms=0.508 (0.037%), neg=0, invalid=762
- 0307: dt=25.600000, rms=0.508 (0.034%), neg=0, invalid=762
- 0308: dt=25.600000, rms=0.508 (0.040%), neg=0, invalid=762
- 0309: dt=25.600000, rms=0.508 (0.043%), neg=0, invalid=762
- 0310: dt=12.800000, rms=0.507 (0.011%), neg=0, invalid=762
- 0311: dt=3.200000, rms=0.507 (0.002%), neg=0, invalid=762
- 0312: dt=2.800000, rms=0.507 (0.002%), neg=0, invalid=762
- 0313: dt=0.350000, rms=0.507 (-0.001%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.526, neg=0, invalid=762
- 0314: dt=0.000000, rms=0.525 (0.084%), neg=0, invalid=762
- 0315: dt=0.000000, rms=0.525 (0.000%), neg=0, invalid=762
- 0316: dt=0.150000, rms=0.525 (-0.014%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.526, neg=0, invalid=762
- 0317: dt=0.000000, rms=0.525 (0.084%), neg=0, invalid=762
- 0318: dt=0.000000, rms=0.525 (0.000%), neg=0, invalid=762
- 0319: dt=0.150000, rms=0.525 (-0.016%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.562, neg=0, invalid=762
- 0320: dt=1.024000, rms=0.560 (0.367%), neg=0, invalid=762
- 0321: dt=0.112000, rms=0.560 (0.007%), neg=0, invalid=762
- 0322: dt=0.112000, rms=0.560 (0.002%), neg=0, invalid=762
- 0323: dt=0.112000, rms=0.560 (-0.008%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.560, neg=0, invalid=762
- 0324: dt=0.448000, rms=0.559 (0.145%), neg=0, invalid=762
- 0325: dt=0.384000, rms=0.559 (0.021%), neg=0, invalid=762
- 0326: dt=0.384000, rms=0.559 (-0.009%), 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=0.515, neg=0, invalid=762
- 0327: dt=0.448000, rms=0.501 (2.543%), neg=0, invalid=762
- 0328: dt=0.448000, rms=0.499 (0.557%), neg=0, invalid=762
- 0329: dt=0.448000, rms=0.497 (0.336%), neg=0, invalid=762
- 0330: dt=0.448000, rms=0.496 (0.203%), neg=0, invalid=762
- 0331: dt=0.458333, rms=0.495 (0.153%), neg=0, invalid=762
- 0332: dt=0.448000, rms=0.495 (0.109%), neg=0, invalid=762
- 0333: dt=0.448000, rms=0.494 (0.088%), neg=0, invalid=762
- 0334: dt=0.448000, rms=0.494 (0.070%), neg=0, invalid=762
- 0335: dt=0.448000, rms=0.494 (0.057%), neg=0, invalid=762
- 0336: dt=0.448000, rms=0.493 (0.046%), neg=0, invalid=762
- 0337: dt=0.448000, rms=0.493 (0.040%), neg=0, invalid=762
- 0338: dt=0.448000, rms=0.493 (0.068%), neg=0, invalid=762
- 0339: dt=0.448000, rms=0.493 (0.026%), neg=0, invalid=762
- 0340: dt=0.448000, rms=0.492 (0.043%), neg=0, invalid=762
- 0341: dt=0.448000, rms=0.492 (0.018%), neg=0, invalid=762
- 0342: dt=0.448000, rms=0.492 (0.026%), neg=0, invalid=762
- 0343: dt=0.448000, rms=0.492 (0.038%), neg=0, invalid=762
- 0344: dt=0.448000, rms=0.492 (0.042%), neg=0, invalid=762
- 0345: dt=0.448000, rms=0.492 (-0.001%), neg=0, invalid=762
- 0346: dt=0.256000, rms=0.492 (0.003%), neg=0, invalid=762
- 0347: dt=0.448000, rms=0.492 (0.008%), neg=0, invalid=762
- 0348: dt=0.256000, rms=0.492 (0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.492, neg=0, invalid=762
- 0349: dt=0.384000, rms=0.487 (1.051%), neg=0, invalid=762
- 0350: dt=0.448000, rms=0.486 (0.292%), neg=0, invalid=762
- 0351: dt=0.448000, rms=0.485 (0.054%), neg=0, invalid=762
- 0352: dt=0.448000, rms=0.485 (0.022%), neg=0, invalid=762
- 0353: dt=0.448000, rms=0.485 (0.005%), neg=0, invalid=762
- 0354: dt=0.448000, rms=0.485 (0.007%), neg=0, invalid=762
- 0355: dt=0.448000, rms=0.485 (-0.009%), 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=0.484, neg=0, invalid=762
- 0356: dt=-0.009615, rms=0.483 (0.098%), neg=0, invalid=762
- 0357: dt=0.000000, rms=0.483 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.484, neg=0, invalid=762
- 0358: dt=0.000000, rms=0.483 (0.098%), neg=0, invalid=762
- 0359: dt=0.000000, rms=0.483 (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=0.484, neg=0, invalid=762
- 0360: dt=31.104000, rms=0.483 (0.154%), neg=0, invalid=762
- 0361: dt=20.736000, rms=0.483 (0.010%), neg=0, invalid=762
- 0362: dt=20.736000, rms=0.483 (0.004%), neg=0, invalid=762
- 0363: dt=20.736000, rms=0.483 (-0.024%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.483, neg=0, invalid=762
- 0364: dt=75.392670, rms=0.482 (0.333%), neg=0, invalid=762
- 0365: dt=80.372093, rms=0.481 (0.232%), neg=0, invalid=762
- 0366: dt=80.372093, rms=0.481 (-0.179%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.481, neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0367: dt=30.997389, rms=0.478 (0.669%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 2 iterations, nbhd size=0, neg = 0
- 0368: dt=38.400000, rms=0.476 (0.314%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 2 iterations, nbhd size=0, neg = 0
- 0369: dt=23.787611, rms=0.476 (0.111%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0370: dt=23.787611, rms=0.475 (0.119%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 2 iterations, nbhd size=0, neg = 0
- 0371: dt=23.787611, rms=0.475 (0.071%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 2 iterations, nbhd size=0, neg = 0
- 0372: dt=23.787611, rms=0.475 (0.039%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 1 iterations, nbhd size=0, neg = 0
- 0373: dt=44.800000, rms=0.474 (0.088%), neg=0, invalid=762
- 0374: dt=11.200000, rms=0.474 (0.010%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.475, neg=0, invalid=762
- 0375: dt=53.807407, rms=0.469 (1.206%), neg=0, invalid=762
- 0376: dt=30.537143, rms=0.467 (0.488%), neg=0, invalid=762
- 0377: dt=25.600000, rms=0.466 (0.206%), neg=0, invalid=762
- 0378: dt=25.600000, rms=0.465 (0.183%), neg=0, invalid=762
- 0379: dt=25.600000, rms=0.464 (0.216%), neg=0, invalid=762
- 0380: dt=25.600000, rms=0.463 (0.203%), neg=0, invalid=762
- 0381: dt=25.600000, rms=0.462 (0.177%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0382: dt=25.600000, rms=0.461 (0.180%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0383: dt=25.600000, rms=0.460 (0.153%), neg=0, invalid=762
- 0384: dt=25.600000, rms=0.460 (0.138%), neg=0, invalid=762
- 0385: dt=25.600000, rms=0.459 (0.165%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0386: dt=25.600000, rms=0.458 (0.162%), neg=0, invalid=762
- 0387: dt=25.600000, rms=0.458 (0.171%), neg=0, invalid=762
- 0388: dt=25.600000, rms=0.457 (0.139%), neg=0, invalid=762
- 0389: dt=25.600000, rms=0.456 (0.136%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0390: dt=25.600000, rms=0.456 (0.117%), neg=0, invalid=762
- 0391: dt=25.600000, rms=0.455 (0.092%), neg=0, invalid=762
- 0392: dt=19.200000, rms=0.455 (0.031%), neg=0, invalid=762
- 0393: dt=19.200000, rms=0.455 (0.014%), neg=0, invalid=762
- 0394: dt=19.200000, rms=0.455 (0.013%), neg=0, invalid=762
- 0395: dt=19.200000, rms=0.455 (0.015%), neg=0, invalid=762
- 0396: dt=19.200000, rms=0.455 (0.009%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.460, neg=0, invalid=762
- 0397: dt=0.000141, rms=0.459 (0.104%), neg=0, invalid=762
- 0398: dt=0.000000, rms=0.459 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.460, neg=0, invalid=762
- 0399: dt=1.008000, rms=0.459 (0.107%), neg=0, invalid=762
- 0400: dt=0.576000, rms=0.459 (0.002%), neg=0, invalid=762
- 0401: dt=0.576000, rms=0.459 (-0.001%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.468, neg=0, invalid=762
- 0402: dt=0.448000, rms=0.467 (0.158%), neg=0, invalid=762
- 0403: dt=0.384000, rms=0.467 (0.015%), neg=0, invalid=762
- 0404: dt=0.384000, rms=0.467 (-0.011%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.467, neg=0, invalid=762
- 0405: dt=1.536000, rms=0.466 (0.315%), neg=0, invalid=762
- 0406: dt=0.768000, rms=0.466 (0.024%), neg=0, invalid=762
- 0407: dt=0.768000, rms=0.466 (-0.003%), neg=0, invalid=762
- resetting metric properties...
- setting smoothness coefficient to 2.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.459, neg=0, invalid=762
- iter 0, gcam->neg = 521
- after 12 iterations, nbhd size=1, neg = 0
- 0408: dt=2.000000, rms=0.434 (5.363%), neg=0, invalid=762
- 0409: dt=0.028000, rms=0.434 (0.026%), neg=0, invalid=762
- 0410: dt=0.028000, rms=0.434 (0.001%), neg=0, invalid=762
- 0411: dt=0.028000, rms=0.434 (-0.030%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.435, neg=0, invalid=762
- 0412: dt=0.096000, rms=0.434 (0.198%), neg=0, invalid=762
- 0413: dt=0.006000, rms=0.434 (-0.001%), neg=0, invalid=762
- label assignment complete, 0 changed (0.00%)
- label assignment complete, 0 changed (0.00%)
- ***************** morphing with label term set to 0 *******************************
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.008
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.422, neg=0, invalid=762
- 0414: dt=2.023000, rms=0.422 (0.000%), neg=0, invalid=762
- 0415: dt=0.090313, rms=0.422 (0.000%), neg=0, invalid=762
- 0416: dt=0.090313, rms=0.422 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.422, neg=0, invalid=762
- 0417: dt=23.120000, rms=0.422 (0.001%), neg=0, invalid=762
- 0418: dt=6.936000, rms=0.422 (0.000%), neg=0, invalid=762
- 0419: dt=6.936000, rms=0.422 (-0.000%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.422, neg=0, invalid=762
- 0420: dt=0.000000, rms=0.422 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.422, neg=0, invalid=762
- 0421: dt=36.288000, rms=0.422 (0.020%), neg=0, invalid=762
- 0422: dt=82.944000, rms=0.422 (0.017%), neg=0, invalid=762
- 0423: dt=82.944000, rms=0.422 (0.024%), neg=0, invalid=762
- 0424: dt=82.944000, rms=0.422 (0.021%), neg=0, invalid=762
- 0425: dt=82.944000, rms=0.422 (0.007%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.423, neg=0, invalid=762
- 0426: dt=2.800000, rms=0.422 (0.013%), neg=0, invalid=762
- 0427: dt=2.400000, rms=0.422 (0.004%), neg=0, invalid=762
- 0428: dt=2.400000, rms=0.422 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.422, neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0429: dt=102.400000, rms=0.420 (0.601%), neg=0, invalid=762
- 0430: dt=20.817204, rms=0.419 (0.165%), neg=0, invalid=762
- 0431: dt=20.817204, rms=0.419 (0.055%), neg=0, invalid=762
- 0432: dt=20.817204, rms=0.419 (0.062%), neg=0, invalid=762
- 0433: dt=20.817204, rms=0.418 (0.091%), neg=0, invalid=762
- 0434: dt=20.817204, rms=0.418 (0.109%), neg=0, invalid=762
- 0435: dt=20.817204, rms=0.417 (0.136%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0436: dt=20.817204, rms=0.417 (0.128%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 6 iterations, nbhd size=1, neg = 0
- 0437: dt=20.817204, rms=0.416 (0.104%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0438: dt=20.817204, rms=0.416 (0.094%), neg=0, invalid=762
- 0439: dt=44.800000, rms=0.416 (0.017%), neg=0, invalid=762
- 0440: dt=44.800000, rms=0.416 (0.020%), neg=0, invalid=762
- 0441: dt=44.800000, rms=0.416 (0.037%), neg=0, invalid=762
- 0442: dt=44.800000, rms=0.415 (0.048%), neg=0, invalid=762
- 0443: dt=44.800000, rms=0.415 (0.046%), neg=0, invalid=762
- 0444: dt=44.800000, rms=0.415 (0.060%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0445: dt=44.800000, rms=0.415 (0.068%), neg=0, invalid=762
- 0446: dt=44.800000, rms=0.414 (0.068%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.418, neg=0, invalid=762
- 0447: dt=0.000000, rms=0.418 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.418, neg=0, invalid=762
- 0448: dt=6.800000, rms=0.417 (0.056%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0449: dt=12.750000, rms=0.417 (0.064%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 11 iterations, nbhd size=1, neg = 0
- 0450: dt=49.116279, rms=0.416 (0.257%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 8 iterations, nbhd size=1, neg = 0
- 0451: dt=20.645161, rms=0.415 (0.178%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 11 iterations, nbhd size=1, neg = 0
- 0452: dt=20.645161, rms=0.415 (-0.124%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.420, neg=0, invalid=762
- 0453: dt=0.000050, rms=0.420 (0.000%), neg=0, invalid=762
- 0454: dt=0.000000, rms=0.420 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.420, neg=0, invalid=762
- 0455: dt=0.000000, rms=0.420 (0.000%), neg=0, invalid=762
- resetting metric properties...
- setting smoothness coefficient to 2.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.412, neg=0, invalid=762
- iter 0, gcam->neg = 402
- after 15 iterations, nbhd size=1, neg = 0
- 0456: dt=1.280000, rms=0.404 (2.032%), neg=0, invalid=762
- 0457: dt=0.000023, rms=0.404 (0.000%), neg=0, invalid=762
- 0458: dt=0.000023, rms=0.404 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.404, neg=0, invalid=762
- 0459: dt=0.112000, rms=0.403 (0.126%), neg=0, invalid=762
- 0460: dt=0.112000, rms=0.403 (0.066%), neg=0, invalid=762
- 0461: dt=0.112000, rms=0.403 (0.047%), neg=0, invalid=762
- 0462: dt=0.112000, rms=0.403 (0.017%), neg=0, invalid=762
- 0463: dt=0.112000, rms=0.403 (-0.063%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 2 hours, 17 minutes and 4 seconds.
- mri_ca_register utimesec 9062.624271
- mri_ca_register stimesec 10.716370
- mri_ca_register ru_maxrss 1348772
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 4691929
- mri_ca_register ru_majflt 0
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 0
- mri_ca_register ru_oublock 63720
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 8322
- mri_ca_register ru_nivcsw 35807
- FSRUNTIME@ mri_ca_register 2.2843 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Sat Oct 7 20:01:28 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-553
- 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-6.0.0/0051348/mri
- mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca aseg.auto_noCCseg.mgz
- == Number of threads available to mri_ca_label for OpenMP = 2 ==
- relabeling unlikely voxels with window_size = 9 and prior threshold 0.30
- using Gibbs prior factor = 0.500
- renormalizing sequences with structure alignment, equivalent to:
- -renormalize
- -renormalize_mean 0.500
- -regularize 0.500
- reading 1 input volumes
- reading classifier array from /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
- reading input volume from norm.mgz
- average std[0] = 7.3
- reading transform from transforms/talairach.m3z
- setting orig areas to linear transform determinant scaled 6.83
- 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 = 0.09618 (23)
- Left_Lateral_Ventricle (4): linear fit = 1.23 x + 0.0 (2614 voxels, overlap=0.944)
- Left_Lateral_Ventricle (4): linear fit = 1.23 x + 0.0 (2614 voxels, peak = 24), gca=24.5
- gca peak = 0.17677 (13)
- mri peak = 0.11519 (25)
- Right_Lateral_Ventricle (43): linear fit = 1.74 x + 0.0 (2414 voxels, overlap=0.414)
- Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (2414 voxels, peak = 23), gca=19.5
- gca peak = 0.28129 (95)
- mri peak = 0.09058 (93)
- Right_Pallidum (52): linear fit = 0.96 x + 0.0 (543 voxels, overlap=1.013)
- Right_Pallidum (52): linear fit = 0.96 x + 0.0 (543 voxels, peak = 92), gca=91.7
- gca peak = 0.16930 (96)
- mri peak = 0.10084 (92)
- Left_Pallidum (13): linear fit = 0.96 x + 0.0 (476 voxels, overlap=1.014)
- Left_Pallidum (13): linear fit = 0.96 x + 0.0 (476 voxels, peak = 93), gca=92.6
- gca peak = 0.24553 (55)
- mri peak = 0.09346 (67)
- Right_Hippocampus (53): linear fit = 1.21 x + 0.0 (687 voxels, overlap=0.164)
- Right_Hippocampus (53): linear fit = 1.21 x + 0.0 (687 voxels, peak = 66), gca=66.3
- gca peak = 0.30264 (59)
- mri peak = 0.08206 (67)
- Left_Hippocampus (17): linear fit = 1.17 x + 0.0 (715 voxels, overlap=0.437)
- Left_Hippocampus (17): linear fit = 1.17 x + 0.0 (715 voxels, peak = 69), gca=69.3
- gca peak = 0.07580 (103)
- mri peak = 0.07576 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (27031 voxels, overlap=0.784)
- Right_Cerebral_White_Matter (41): linear fit = 1.02 x + 0.0 (27031 voxels, peak = 106), gca=105.6
- gca peak = 0.07714 (104)
- mri peak = 0.08048 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (28977 voxels, overlap=0.704)
- Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (28977 voxels, peak = 107), gca=106.6
- gca peak = 0.09712 (58)
- mri peak = 0.05035 (69)
- Left_Cerebral_Cortex (3): linear fit = 1.18 x + 0.0 (27068 voxels, overlap=0.357)
- Left_Cerebral_Cortex (3): linear fit = 1.18 x + 0.0 (27068 voxels, peak = 69), gca=68.7
- gca peak = 0.11620 (58)
- mri peak = 0.04936 (69)
- Right_Cerebral_Cortex (42): linear fit = 1.18 x + 0.0 (27048 voxels, overlap=0.321)
- Right_Cerebral_Cortex (42): linear fit = 1.18 x + 0.0 (27048 voxels, peak = 69), gca=68.7
- gca peak = 0.30970 (66)
- mri peak = 0.07407 (80)
- Right_Caudate (50): linear fit = 1.14 x + 0.0 (982 voxels, overlap=0.380)
- Right_Caudate (50): linear fit = 1.14 x + 0.0 (982 voxels, peak = 76), gca=75.6
- gca peak = 0.15280 (69)
- mri peak = 0.07643 (76)
- Left_Caudate (11): linear fit = 1.02 x + 0.0 (942 voxels, overlap=1.006)
- Left_Caudate (11): linear fit = 1.02 x + 0.0 (942 voxels, peak = 71), gca=70.7
- gca peak = 0.13902 (56)
- mri peak = 0.06089 (63)
- Left_Cerebellum_Cortex (8): linear fit = 1.15 x + 0.0 (27656 voxels, overlap=0.608)
- Left_Cerebellum_Cortex (8): linear fit = 1.15 x + 0.0 (27656 voxels, peak = 65), gca=64.7
- gca peak = 0.14777 (55)
- mri peak = 0.05835 (64)
- Right_Cerebellum_Cortex (47): linear fit = 1.15 x + 0.0 (30163 voxels, overlap=0.721)
- Right_Cerebellum_Cortex (47): linear fit = 1.15 x + 0.0 (30163 voxels, peak = 64), gca=63.5
- gca peak = 0.16765 (84)
- mri peak = 0.07768 (85)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (4480 voxels, overlap=0.960)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (4480 voxels, peak = 86), gca=86.1
- gca peak = 0.18739 (84)
- mri peak = 0.08056 (83)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4864 voxels, overlap=0.983)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4864 voxels, peak = 84), gca=83.6
- gca peak = 0.29869 (57)
- mri peak = 0.10170 (70)
- Left_Amygdala (18): linear fit = 1.18 x + 0.0 (349 voxels, overlap=0.216)
- Left_Amygdala (18): linear fit = 1.18 x + 0.0 (349 voxels, peak = 68), gca=67.5
- gca peak = 0.33601 (57)
- mri peak = 0.07832 (67)
- Right_Amygdala (54): linear fit = 1.16 x + 0.0 (357 voxels, overlap=0.561)
- Right_Amygdala (54): linear fit = 1.16 x + 0.0 (357 voxels, peak = 66), gca=66.4
- gca peak = 0.11131 (90)
- mri peak = 0.06315 (84)
- Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (4166 voxels, overlap=0.997)
- Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (4166 voxels, peak = 88), gca=87.8
- gca peak = 0.11793 (83)
- mri peak = 0.05907 (83)
- Right_Thalamus_Proper (49): linear fit = 1.05 x + 0.0 (4116 voxels, overlap=0.921)
- Right_Thalamus_Proper (49): linear fit = 1.05 x + 0.0 (4116 voxels, peak = 88), gca=87.6
- gca peak = 0.08324 (81)
- mri peak = 0.07483 (80)
- Left_Putamen (12): linear fit = 1.04 x + 0.0 (1522 voxels, overlap=0.758)
- Left_Putamen (12): linear fit = 1.04 x + 0.0 (1522 voxels, peak = 85), gca=84.6
- gca peak = 0.10360 (77)
- mri peak = 0.06543 (82)
- Right_Putamen (51): linear fit = 1.05 x + 0.0 (1821 voxels, overlap=0.810)
- Right_Putamen (51): linear fit = 1.05 x + 0.0 (1821 voxels, peak = 81), gca=81.2
- gca peak = 0.08424 (78)
- mri peak = 0.08595 (84)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (8165 voxels, overlap=0.476)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (8165 voxels, peak = 83), gca=83.1
- gca peak = 0.12631 (89)
- mri peak = 0.07374 (89)
- Right_VentralDC (60): linear fit = 1.02 x + 0.0 (881 voxels, overlap=0.807)
- Right_VentralDC (60): linear fit = 1.02 x + 0.0 (881 voxels, peak = 91), gca=91.2
- gca peak = 0.14500 (87)
- mri peak = 0.07743 (89)
- Left_VentralDC (28): linear fit = 1.01 x + 0.0 (928 voxels, overlap=0.916)
- Left_VentralDC (28): linear fit = 1.01 x + 0.0 (928 voxels, peak = 88), gca=88.3
- gca peak = 0.14975 (24)
- mri peak = 0.07166 (19)
- gca peak = 0.19357 (14)
- mri peak = 0.09845 (22)
- Fourth_Ventricle (15): linear fit = 1.52 x + 0.0 (578 voxels, overlap=0.735)
- Fourth_Ventricle (15): linear fit = 1.52 x + 0.0 (578 voxels, peak = 21), gca=21.4
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16825 (27)
- gca peak Left_Thalamus = 1.00000 (94)
- gca peak Third_Ventricle = 0.14975 (24)
- gca peak Fourth_Ventricle = 0.19357 (14)
- gca peak CSF = 0.23379 (36)
- gca peak Left_Accumbens_area = 0.70037 (62)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.75997 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.24655 (23)
- gca peak Right_Accumbens_area = 0.45042 (65)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65475 (32)
- gca peak WM_hypointensities = 0.07854 (76)
- gca peak non_WM_hypointensities = 0.08491 (43)
- gca peak Optic_Chiasm = 0.71127 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.18 x + 0.0
- estimating mean wm scale to be 1.02 x + 0.0
- estimating mean csf scale to be 1.36 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.13931 (25)
- mri peak = 0.09618 (23)
- Left_Lateral_Ventricle (4): linear fit = 1.01 x + 0.0 (2614 voxels, overlap=0.862)
- Left_Lateral_Ventricle (4): linear fit = 1.01 x + 0.0 (2614 voxels, peak = 25), gca=25.4
- gca peak = 0.13758 (19)
- mri peak = 0.11519 (25)
- Right_Lateral_Ventricle (43): linear fit = 1.13 x + 0.0 (2414 voxels, overlap=0.742)
- Right_Lateral_Ventricle (43): linear fit = 1.13 x + 0.0 (2414 voxels, peak = 22), gca=21.6
- gca peak = 0.26757 (90)
- mri peak = 0.09058 (93)
- Right_Pallidum (52): linear fit = 1.01 x + 0.0 (543 voxels, overlap=1.011)
- Right_Pallidum (52): linear fit = 1.01 x + 0.0 (543 voxels, peak = 91), gca=91.3
- gca peak = 0.18617 (93)
- mri peak = 0.10084 (92)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (476 voxels, overlap=1.009)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (476 voxels, peak = 93), gca=92.5
- gca peak = 0.27943 (67)
- mri peak = 0.09346 (67)
- Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (687 voxels, overlap=1.003)
- Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (687 voxels, peak = 66), gca=66.0
- gca peak = 0.29154 (66)
- mri peak = 0.08206 (67)
- Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (715 voxels, overlap=1.007)
- Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (715 voxels, peak = 66), gca=66.0
- gca peak = 0.07614 (105)
- mri peak = 0.07576 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (27031 voxels, overlap=0.864)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (27031 voxels, peak = 104), gca=104.5
- gca peak = 0.07686 (107)
- mri peak = 0.08048 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (28977 voxels, overlap=0.807)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (28977 voxels, peak = 106), gca=106.5
- gca peak = 0.08206 (69)
- mri peak = 0.05035 (69)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (27068 voxels, overlap=0.962)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (27068 voxels, peak = 69), gca=69.0
- gca peak = 0.09961 (69)
- mri peak = 0.04936 (69)
- Right_Cerebral_Cortex (42): linear fit = 1.00 x + 0.0 (27048 voxels, overlap=0.956)
- Right_Cerebral_Cortex (42): linear fit = 1.00 x + 0.0 (27048 voxels, peak = 69), gca=69.0
- gca peak = 0.24442 (76)
- mri peak = 0.07407 (80)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (982 voxels, overlap=1.005)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (982 voxels, peak = 76), gca=76.0
- gca peak = 0.15167 (70)
- mri peak = 0.07643 (76)
- Left_Caudate (11): linear fit = 0.99 x + 0.0 (942 voxels, overlap=1.005)
- Left_Caudate (11): linear fit = 0.99 x + 0.0 (942 voxels, peak = 69), gca=69.0
- gca peak = 0.12579 (65)
- mri peak = 0.06089 (63)
- Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (27656 voxels, overlap=0.995)
- Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (27656 voxels, peak = 65), gca=65.0
- gca peak = 0.13049 (63)
- mri peak = 0.05835 (64)
- Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (30163 voxels, overlap=0.990)
- Right_Cerebellum_Cortex (47): linear fit = 0.99 x + 0.0 (30163 voxels, peak = 62), gca=62.1
- gca peak = 0.15819 (86)
- mri peak = 0.07768 (85)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4480 voxels, overlap=0.985)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4480 voxels, peak = 86), gca=85.6
- gca peak = 0.15632 (83)
- mri peak = 0.08056 (83)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4864 voxels, overlap=0.980)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4864 voxels, peak = 83), gca=82.6
- gca peak = 0.29148 (69)
- mri peak = 0.10170 (70)
- Left_Amygdala (18): linear fit = 1.00 x + 0.0 (349 voxels, overlap=1.016)
- Left_Amygdala (18): linear fit = 1.00 x + 0.0 (349 voxels, peak = 69), gca=69.0
- gca peak = 0.34643 (66)
- mri peak = 0.07832 (67)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (357 voxels, overlap=1.015)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (357 voxels, peak = 66), gca=66.0
- gca peak = 0.11483 (86)
- mri peak = 0.06315 (84)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (4166 voxels, overlap=0.973)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (4166 voxels, peak = 87), gca=87.3
- gca peak = 0.10619 (85)
- mri peak = 0.05907 (83)
- Right_Thalamus_Proper (49): linear fit = 0.98 x + 0.0 (4116 voxels, overlap=0.978)
- Right_Thalamus_Proper (49): linear fit = 0.98 x + 0.0 (4116 voxels, peak = 83), gca=82.9
- gca peak = 0.07460 (79)
- mri peak = 0.07483 (80)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1522 voxels, overlap=0.884)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1522 voxels, peak = 79), gca=78.6
- gca peak = 0.08162 (81)
- mri peak = 0.06543 (82)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (1821 voxels, overlap=0.957)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (1821 voxels, peak = 81), gca=80.6
- gca peak = 0.07275 (83)
- mri peak = 0.08595 (84)
- Brain_Stem (16): linear fit = 1.01 x + 0.0 (8165 voxels, overlap=0.726)
- Brain_Stem (16): linear fit = 1.01 x + 0.0 (8165 voxels, peak = 84), gca=84.2
- gca peak = 0.11391 (86)
- mri peak = 0.07374 (89)
- Right_VentralDC (60): linear fit = 0.98 x + 0.0 (881 voxels, overlap=0.831)
- Right_VentralDC (60): linear fit = 0.98 x + 0.0 (881 voxels, peak = 84), gca=83.8
- gca peak = 0.16107 (87)
- mri peak = 0.07743 (89)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (928 voxels, overlap=0.933)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (928 voxels, peak = 87), gca=86.6
- gca peak = 0.12335 (35)
- mri peak = 0.07166 (19)
- gca peak = 0.14598 (22)
- mri peak = 0.09845 (22)
- Fourth_Ventricle (15): linear fit = 1.12 x + 0.0 (578 voxels, overlap=0.835)
- Fourth_Ventricle (15): linear fit = 1.12 x + 0.0 (578 voxels, peak = 25), gca=24.8
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.14952 (38)
- gca peak Left_Thalamus = 0.64095 (104)
- gca peak Third_Ventricle = 0.12335 (35)
- gca peak CSF = 0.18746 (49)
- gca peak Left_Accumbens_area = 0.73514 (64)
- gca peak Left_undetermined = 0.96707 (28)
- gca peak Left_vessel = 0.75962 (52)
- gca peak Left_choroid_plexus = 0.12577 (35)
- gca peak Right_Inf_Lat_Vent = 0.24202 (28)
- gca peak Right_Accumbens_area = 0.29837 (74)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14507 (37)
- gca peak Fifth_Ventricle = 0.75707 (42)
- gca peak WM_hypointensities = 0.07984 (78)
- gca peak non_WM_hypointensities = 0.07502 (56)
- gca peak Optic_Chiasm = 0.70948 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.00 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 1.09 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- saving sequentially combined intensity scales to aseg.auto_noCCseg.label_intensities.txt
- 85735 voxels changed in iteration 0 of unlikely voxel relabeling
- 369 voxels changed in iteration 1 of unlikely voxel relabeling
- 11 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 61499 gm and wm labels changed (%34 to gray, %66 to white out of all changed labels)
- 454 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 85068 changed. image ll: -2.107, PF=0.500
- pass 2: 20626 changed. image ll: -2.105, PF=0.500
- pass 3: 5426 changed.
- pass 4: 1722 changed.
- 48787 voxels changed in iteration 0 of unlikely voxel relabeling
- 481 voxels changed in iteration 1 of unlikely voxel relabeling
- 22 voxels changed in iteration 2 of unlikely voxel relabeling
- 2 voxels changed in iteration 3 of unlikely voxel relabeling
- 0 voxels changed in iteration 4 of unlikely voxel relabeling
- 8522 voxels changed in iteration 0 of unlikely voxel relabeling
- 177 voxels changed in iteration 1 of unlikely voxel relabeling
- 4 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 6345 voxels changed in iteration 0 of unlikely voxel relabeling
- 71 voxels changed in iteration 1 of unlikely voxel relabeling
- 0 voxels changed in iteration 2 of unlikely voxel relabeling
- 4833 voxels changed in iteration 0 of unlikely voxel relabeling
- 23 voxels changed in iteration 1 of unlikely voxel relabeling
- 0 voxels changed in iteration 2 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 3762.974940
- mri_ca_label stimesec 2.082683
- mri_ca_label ru_maxrss 2093732
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 743105
- mri_ca_label ru_majflt 0
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 63712
- mri_ca_label ru_oublock 488
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 351
- mri_ca_label ru_nivcsw 7278
- auto-labeling took 61 minutes and 56 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/transforms/cc_up.lta 0051348
- 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-6.0.0/0051348/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/norm.mgz
- 97373 voxels in left wm, 102901 in right wm, xrange [115, 134]
- searching rotation angles z=[ 2 16], y=[-9 5]
-
searching scale 1 Z rot 1.7
searching scale 1 Z rot 1.9
searching scale 1 Z rot 2.2
searching scale 1 Z rot 2.4
searching scale 1 Z rot 2.7
searching scale 1 Z rot 2.9
searching scale 1 Z rot 3.2
searching scale 1 Z rot 3.4
searching scale 1 Z rot 3.7
searching scale 1 Z rot 3.9
searching scale 1 Z rot 4.2
searching scale 1 Z rot 4.4
searching scale 1 Z rot 4.7
searching scale 1 Z rot 4.9
searching scale 1 Z rot 5.2
searching scale 1 Z rot 5.4
searching scale 1 Z rot 5.7
searching scale 1 Z rot 5.9
searching scale 1 Z rot 6.2
searching scale 1 Z rot 6.4
searching scale 1 Z rot 6.7
searching scale 1 Z rot 6.9
searching scale 1 Z rot 7.2
searching scale 1 Z rot 7.4
searching scale 1 Z rot 7.7
searching scale 1 Z rot 7.9
searching scale 1 Z rot 8.2
searching scale 1 Z rot 8.4
searching scale 1 Z rot 8.7
searching scale 1 Z rot 8.9
searching scale 1 Z rot 9.2
searching scale 1 Z rot 9.4
searching scale 1 Z rot 9.7
searching scale 1 Z rot 9.9
searching scale 1 Z rot 10.2
searching scale 1 Z rot 10.4
searching scale 1 Z rot 10.7
searching scale 1 Z rot 10.9
searching scale 1 Z rot 11.2
searching scale 1 Z rot 11.4
searching scale 1 Z rot 11.7
searching scale 1 Z rot 11.9
searching scale 1 Z rot 12.2
searching scale 1 Z rot 12.4
searching scale 1 Z rot 12.7
searching scale 1 Z rot 12.9
searching scale 1 Z rot 13.2
searching scale 1 Z rot 13.4
searching scale 1 Z rot 13.7
searching scale 1 Z rot 13.9
searching scale 1 Z rot 14.2
searching scale 1 Z rot 14.4
searching scale 1 Z rot 14.7
searching scale 1 Z rot 14.9
searching scale 1 Z rot 15.2
searching scale 1 Z rot 15.4 global minimum found at slice 123.2, rotations (-2.01, 8.66)
- final transformation (x=123.2, yr=-2.008, zr=8.656):
- 0.98800 -0.15051 -0.03463 21.84634;
- 0.15042 0.98861 -0.00527 35.97475;
- 0.03503 -0.00000 0.99939 -0.24051;
- 0.00000 0.00000 0.00000 1.00000;
- updating x range to be [126, 131] in xformed coordinates
- best xformed slice 129
- cc center is found at 129 75 124
- eigenvectors:
- -0.00218 -0.00035 1.00000;
- 0.36356 -0.93157 0.00047;
- 0.93157 0.36356 0.00216;
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/aseg.auto.mgz...
- corpus callosum segmentation took 2.5 minutes
- #--------------------------------------
- #@# Merge ASeg Sat Oct 7 21:05:56 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Sat Oct 7 21:05:56 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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...
- 1791 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 107
- gm peak at 73 (73), valley at 29 (29)
- csf peak at 37, setting threshold to 61
- 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 71 (71), valley at 31 (31)
- csf peak at 36, setting threshold to 59
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to brain.mgz
- 3D bias adjustment took 3 minutes and 31 seconds.
- #--------------------------------------------
- #@# Mask BFS Sat Oct 7 21:09:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1569126 voxels in mask (pct= 9.35)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Sat Oct 7 21:09:30 CEST 2017
- mri_segment -mprage brain.mgz wm.seg.mgz
- doing initial intensity segmentation...
- using local statistics to label ambiguous voxels...
- computing class statistics for intensity windows...
- WM (104.0): 103.9 +- 6.9 [79.0 --> 125.0]
- GM (72.0) : 70.0 +- 9.3 [30.0 --> 95.0]
- setting bottom of white matter range to 79.3
- setting top of gray matter range to 88.5
- 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...
- 21923 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 5506 filled
- 610 bright non-wm voxels segmented.
- 9130 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 0.55 minutes
- reading wm segmentation from wm.seg.mgz...
- 622 voxels added to wm to prevent paths from MTL structures to cortex
- 3325 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 58961 voxels turned on, 26453 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+): 39 found - 39 modified | TOTAL: 39
- pass 2 (xy+): 0 found - 39 modified | TOTAL: 39
- pass 1 (xy-): 44 found - 44 modified | TOTAL: 83
- pass 2 (xy-): 0 found - 44 modified | TOTAL: 83
- pass 1 (yz+): 53 found - 53 modified | TOTAL: 136
- pass 2 (yz+): 0 found - 53 modified | TOTAL: 136
- pass 1 (yz-): 44 found - 44 modified | TOTAL: 180
- pass 2 (yz-): 0 found - 44 modified | TOTAL: 180
- pass 1 (xz+): 43 found - 43 modified | TOTAL: 223
- pass 2 (xz+): 0 found - 43 modified | TOTAL: 223
- pass 1 (xz-): 39 found - 39 modified | TOTAL: 262
- pass 2 (xz-): 0 found - 39 modified | TOTAL: 262
- Iteration Number : 1
- pass 1 (+++): 66 found - 66 modified | TOTAL: 66
- pass 2 (+++): 0 found - 66 modified | TOTAL: 66
- pass 1 (+++): 104 found - 104 modified | TOTAL: 170
- pass 2 (+++): 0 found - 104 modified | TOTAL: 170
- pass 1 (+++): 73 found - 73 modified | TOTAL: 243
- pass 2 (+++): 0 found - 73 modified | TOTAL: 243
- pass 1 (+++): 61 found - 61 modified | TOTAL: 304
- pass 2 (+++): 0 found - 61 modified | TOTAL: 304
- Iteration Number : 1
- pass 1 (++): 365 found - 365 modified | TOTAL: 365
- pass 2 (++): 0 found - 365 modified | TOTAL: 365
- pass 1 (+-): 349 found - 349 modified | TOTAL: 714
- pass 2 (+-): 1 found - 350 modified | TOTAL: 715
- pass 3 (+-): 0 found - 350 modified | TOTAL: 715
- pass 1 (--): 261 found - 261 modified | TOTAL: 976
- pass 2 (--): 0 found - 261 modified | TOTAL: 976
- pass 1 (-+): 316 found - 316 modified | TOTAL: 1292
- pass 2 (-+): 0 found - 316 modified | TOTAL: 1292
- Iteration Number : 2
- pass 1 (xy+): 32 found - 32 modified | TOTAL: 32
- pass 2 (xy+): 0 found - 32 modified | TOTAL: 32
- pass 1 (xy-): 23 found - 23 modified | TOTAL: 55
- pass 2 (xy-): 0 found - 23 modified | TOTAL: 55
- pass 1 (yz+): 32 found - 32 modified | TOTAL: 87
- pass 2 (yz+): 0 found - 32 modified | TOTAL: 87
- pass 1 (yz-): 38 found - 38 modified | TOTAL: 125
- pass 2 (yz-): 0 found - 38 modified | TOTAL: 125
- pass 1 (xz+): 40 found - 40 modified | TOTAL: 165
- pass 2 (xz+): 0 found - 40 modified | TOTAL: 165
- pass 1 (xz-): 42 found - 42 modified | TOTAL: 207
- pass 2 (xz-): 0 found - 42 modified | TOTAL: 207
- Iteration Number : 2
- pass 1 (+++): 16 found - 16 modified | TOTAL: 16
- pass 2 (+++): 0 found - 16 modified | TOTAL: 16
- pass 1 (+++): 10 found - 10 modified | TOTAL: 26
- pass 2 (+++): 0 found - 10 modified | TOTAL: 26
- pass 1 (+++): 10 found - 10 modified | TOTAL: 36
- pass 2 (+++): 0 found - 10 modified | TOTAL: 36
- pass 1 (+++): 10 found - 10 modified | TOTAL: 46
- pass 2 (+++): 0 found - 10 modified | TOTAL: 46
- Iteration Number : 2
- pass 1 (++): 18 found - 18 modified | TOTAL: 18
- pass 2 (++): 0 found - 18 modified | TOTAL: 18
- pass 1 (+-): 18 found - 18 modified | TOTAL: 36
- pass 2 (+-): 0 found - 18 modified | TOTAL: 36
- pass 1 (--): 10 found - 10 modified | TOTAL: 46
- pass 2 (--): 0 found - 10 modified | TOTAL: 46
- pass 1 (-+): 13 found - 13 modified | TOTAL: 59
- pass 2 (-+): 0 found - 13 modified | TOTAL: 59
- Iteration Number : 3
- pass 1 (xy+): 2 found - 2 modified | TOTAL: 2
- pass 2 (xy+): 0 found - 2 modified | TOTAL: 2
- pass 1 (xy-): 3 found - 3 modified | TOTAL: 5
- pass 2 (xy-): 0 found - 3 modified | TOTAL: 5
- pass 1 (yz+): 7 found - 7 modified | TOTAL: 12
- pass 2 (yz+): 0 found - 7 modified | TOTAL: 12
- pass 1 (yz-): 4 found - 4 modified | TOTAL: 16
- pass 2 (yz-): 0 found - 4 modified | TOTAL: 16
- pass 1 (xz+): 3 found - 3 modified | TOTAL: 19
- pass 2 (xz+): 0 found - 3 modified | TOTAL: 19
- pass 1 (xz-): 8 found - 8 modified | TOTAL: 27
- pass 2 (xz-): 0 found - 8 modified | TOTAL: 27
- Iteration Number : 3
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 3
- pass 1 (++): 4 found - 4 modified | TOTAL: 4
- pass 2 (++): 0 found - 4 modified | TOTAL: 4
- pass 1 (+-): 4 found - 4 modified | TOTAL: 8
- pass 2 (+-): 0 found - 4 modified | TOTAL: 8
- pass 1 (--): 2 found - 2 modified | TOTAL: 10
- pass 2 (--): 0 found - 2 modified | TOTAL: 10
- pass 1 (-+): 5 found - 5 modified | TOTAL: 15
- pass 2 (-+): 0 found - 5 modified | TOTAL: 15
- Iteration Number : 4
- pass 1 (xy+): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy+): 0 found - 1 modified | TOTAL: 1
- pass 1 (xy-): 2 found - 2 modified | TOTAL: 3
- pass 2 (xy-): 0 found - 2 modified | TOTAL: 3
- pass 1 (yz+): 2 found - 2 modified | TOTAL: 5
- pass 2 (yz+): 0 found - 2 modified | TOTAL: 5
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 5
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 5
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 5
- Iteration Number : 4
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 4
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 1 found - 1 modified | TOTAL: 1
- pass 2 (+-): 0 found - 1 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 5
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 5
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 5
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 2218 (out of 506982: 0.437491)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Sat Oct 7 21:11:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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
- 1.10694 -0.11683 -0.05557 4.51487;
- 0.09651 1.05813 -0.16529 24.88748;
- 0.07125 0.15034 0.96326 -33.22720;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 1.10694 -0.11683 -0.05557 4.51487;
- 0.09651 1.05813 -0.16529 24.88748;
- 0.07125 0.15034 0.96326 -33.22720;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 1888 (min = 350, max = 1400), aspect = 1.00 (min = 0.10, max = 0.75)
- need search nearby
- using seed (127, 108, 84), TAL = (1.0, -44.0, 20.0)
- talairach voxel to voxel transform
- 0.89135 0.08894 0.06669 -4.02203;
- -0.08942 0.91365 0.15162 -17.29690;
- -0.05197 -0.14918 1.00954 37.49169;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (127, 108, 84) --> (1.0, -44.0, 20.0)
- done.
- writing output to filled.mgz...
- filling took 0.7 minutes
- talairach cc position changed to (1.00, -44.00, 20.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(19.00, -44.00, 20.00) SRC: (108.34, 84.37, 100.52)
- search lh wm seed point around talairach space (-17.00, -44.00, 20.00), SRC: (140.43, 81.15, 98.65)
- 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 21:12:37 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz
- Iteration Number : 1
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 7 found - 7 modified | TOTAL: 7
- pass 2 (xy-): 0 found - 7 modified | TOTAL: 7
- pass 1 (yz+): 4 found - 4 modified | TOTAL: 11
- pass 2 (yz+): 0 found - 4 modified | TOTAL: 11
- pass 1 (yz-): 1 found - 1 modified | TOTAL: 12
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 12
- pass 1 (xz+): 3 found - 3 modified | TOTAL: 15
- pass 2 (xz+): 0 found - 3 modified | TOTAL: 15
- pass 1 (xz-): 2 found - 2 modified | TOTAL: 17
- pass 2 (xz-): 0 found - 2 modified | TOTAL: 17
- 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 (++): 2 found - 2 modified | TOTAL: 2
- pass 2 (++): 0 found - 2 modified | TOTAL: 2
- pass 1 (+-): 3 found - 3 modified | TOTAL: 5
- pass 2 (+-): 0 found - 3 modified | TOTAL: 5
- pass 1 (--): 0 found - 0 modified | TOTAL: 5
- pass 1 (-+): 0 found - 0 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+): 1 found - 1 modified | TOTAL: 1
- pass 2 (yz+): 0 found - 1 modified | TOTAL: 1
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 3
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 3
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 3
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 23 (out of 249465: 0.009220)
- 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: 758 vertices, 835 faces
- slice 50: 5212 vertices, 5403 faces
- slice 60: 12128 vertices, 12392 faces
- slice 70: 20621 vertices, 20953 faces
- slice 80: 31026 vertices, 31414 faces
- slice 90: 42561 vertices, 43001 faces
- slice 100: 54980 vertices, 55528 faces
- slice 110: 68985 vertices, 69548 faces
- slice 120: 83680 vertices, 84282 faces
- slice 130: 97696 vertices, 98335 faces
- slice 140: 110287 vertices, 110917 faces
- slice 150: 121039 vertices, 121639 faces
- slice 160: 130249 vertices, 130870 faces
- slice 170: 139387 vertices, 139994 faces
- slice 180: 146447 vertices, 146976 faces
- slice 190: 152290 vertices, 152829 faces
- slice 200: 157246 vertices, 157700 faces
- slice 210: 158764 vertices, 159108 faces
- slice 220: 158764 vertices, 159108 faces
- slice 230: 158764 vertices, 159108 faces
- slice 240: 158764 vertices, 159108 faces
- slice 250: 158764 vertices, 159108 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...
- 158764 voxel in cpt #1: X=-344 [v=158764,e=477324,f=318216] located at (-22.184683, -10.576838, 45.570080)
- For the whole surface: X=-344 [v=158764,e=477324,f=318216]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Tessellate rh Sat Oct 7 21:12:43 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz
- Iteration Number : 1
- pass 1 (xy+): 2 found - 2 modified | TOTAL: 2
- pass 2 (xy+): 0 found - 2 modified | TOTAL: 2
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 2
- pass 1 (yz+): 3 found - 3 modified | TOTAL: 5
- pass 2 (yz+): 0 found - 3 modified | TOTAL: 5
- pass 1 (yz-): 1 found - 1 modified | TOTAL: 6
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 6
- pass 1 (xz+): 1 found - 1 modified | TOTAL: 7
- pass 2 (xz+): 0 found - 1 modified | TOTAL: 7
- pass 1 (xz-): 2 found - 2 modified | TOTAL: 9
- pass 2 (xz-): 0 found - 2 modified | TOTAL: 9
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 1 found - 1 modified | TOTAL: 1
- pass 2 (++): 0 found - 1 modified | TOTAL: 1
- pass 1 (+-): 0 found - 0 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 2 found - 2 modified | TOTAL: 3
- pass 2 (-+): 0 found - 2 modified | TOTAL: 3
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 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 = 12 (out of 243199: 0.004934)
- Ambiguous edge configurations...
- mri_pretess done
- mri_tessellate ../mri/filled-pretess127.mgz 127 ../surf/rh.orig.nofix
- $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- slice 50: 2070 vertices, 2233 faces
- slice 60: 7445 vertices, 7668 faces
- slice 70: 14539 vertices, 14800 faces
- slice 80: 23078 vertices, 23457 faces
- slice 90: 33633 vertices, 34067 faces
- slice 100: 45557 vertices, 45994 faces
- slice 110: 57848 vertices, 58340 faces
- slice 120: 71660 vertices, 72211 faces
- slice 130: 85280 vertices, 85855 faces
- slice 140: 99795 vertices, 100465 faces
- slice 150: 112081 vertices, 112657 faces
- slice 160: 121869 vertices, 122374 faces
- slice 170: 130685 vertices, 131226 faces
- slice 180: 139306 vertices, 139795 faces
- slice 190: 146471 vertices, 146965 faces
- slice 200: 152245 vertices, 152670 faces
- slice 210: 154026 vertices, 154320 faces
- slice 220: 154026 vertices, 154320 faces
- slice 230: 154026 vertices, 154320 faces
- slice 240: 154026 vertices, 154320 faces
- slice 250: 154026 vertices, 154320 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...
- 154026 voxel in cpt #1: X=-294 [v=154026,e=462960,f=308640] located at (28.407425, -4.730974, 37.019054)
- For the whole surface: X=-294 [v=154026,e=462960,f=308640]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Sat Oct 7 21:12:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Sat Oct 7 21:12:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 28760 of (28760 28763) to complete...
- Waiting for PID 28763 of (28760 28763) 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 (28760 28763) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Sat Oct 7 21:12:58 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Sat Oct 7 21:12:58 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 28811 of (28811 28814) to complete...
- Waiting for PID 28814 of (28811 28814) to complete...
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- Not saving sulc
- Reading ../surf/lh.smoothwm.nofix
- avg radius = 47.9 mm, total surface area = 79608 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 0.8 minutes
-
step 000: RMS=0.179 (target=0.015)
step 005: RMS=0.139 (target=0.015)
step 010: RMS=0.113 (target=0.015)
step 015: RMS=0.101 (target=0.015)
step 020: RMS=0.093 (target=0.015)
step 025: RMS=0.088 (target=0.015)
step 030: RMS=0.083 (target=0.015)
step 035: RMS=0.081 (target=0.015)
step 040: RMS=0.079 (target=0.015)
step 045: RMS=0.078 (target=0.015)
step 050: RMS=0.076 (target=0.015)
step 055: RMS=0.076 (target=0.015)
step 060: RMS=0.075 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 49.802428
- mris_inflate stimesec 0.116982
- mris_inflate ru_maxrss 233884
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 34391
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 11200
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2053
- mris_inflate ru_nivcsw 3496
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 46.7 mm, total surface area = 77385 mm^2
- writing inflated surface to ../surf/rh.inflated.nofix
- inflation took 0.8 minutes
-
step 000: RMS=0.177 (target=0.015)
step 005: RMS=0.136 (target=0.015)
step 010: RMS=0.111 (target=0.015)
step 015: RMS=0.100 (target=0.015)
step 020: RMS=0.094 (target=0.015)
step 025: RMS=0.090 (target=0.015)
step 030: RMS=0.086 (target=0.015)
step 035: RMS=0.082 (target=0.015)
step 040: RMS=0.078 (target=0.015)
step 045: RMS=0.076 (target=0.015)
step 050: RMS=0.075 (target=0.015)
step 055: RMS=0.073 (target=0.015)
step 060: RMS=0.072 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 48.837575
- mris_inflate stimesec 0.112982
- mris_inflate ru_maxrss 226636
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 33089
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 10848
- mris_inflate ru_oublock 10864
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2310
- mris_inflate ru_nivcsw 3540
- PIDs (28811 28814) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Sat Oct 7 21:13:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Sat Oct 7 21:13:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 28866 of (28866 28870) to complete...
- Waiting for PID 28870 of (28866 28870) 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 +- 0.60 (0.00-->7.90) (max @ vno 61838 --> 63181)
- face area 0.02 +- 0.03 (-0.35-->0.53)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.292...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=177.239, avgs=0
- 005/300: dt: 0.9000, rms radial error=176.982, avgs=0
- 010/300: dt: 0.9000, rms radial error=176.432, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.708, avgs=0
- 020/300: dt: 0.9000, rms radial error=174.883, avgs=0
- 025/300: dt: 0.9000, rms radial error=174.001, avgs=0
- 030/300: dt: 0.9000, rms radial error=173.087, avgs=0
- 035/300: dt: 0.9000, rms radial error=172.151, avgs=0
- 040/300: dt: 0.9000, rms radial error=171.207, avgs=0
- 045/300: dt: 0.9000, rms radial error=170.260, avgs=0
- 050/300: dt: 0.9000, rms radial error=169.313, avgs=0
- 055/300: dt: 0.9000, rms radial error=168.369, avgs=0
- 060/300: dt: 0.9000, rms radial error=167.427, avgs=0
- 065/300: dt: 0.9000, rms radial error=166.487, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.551, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.619, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.693, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.773, avgs=0
- 090/300: dt: 0.9000, rms radial error=161.858, avgs=0
- 095/300: dt: 0.9000, rms radial error=160.947, avgs=0
- 100/300: dt: 0.9000, rms radial error=160.042, avgs=0
- 105/300: dt: 0.9000, rms radial error=159.144, avgs=0
- 110/300: dt: 0.9000, rms radial error=158.250, avgs=0
- 115/300: dt: 0.9000, rms radial error=157.361, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.476, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.597, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.722, avgs=0
- 135/300: dt: 0.9000, rms radial error=153.852, avgs=0
- 140/300: dt: 0.9000, rms radial error=152.987, avgs=0
- 145/300: dt: 0.9000, rms radial error=152.126, avgs=0
- 150/300: dt: 0.9000, rms radial error=151.270, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.420, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.574, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.733, avgs=0
- 170/300: dt: 0.9000, rms radial error=147.896, avgs=0
- 175/300: dt: 0.9000, rms radial error=147.064, avgs=0
- 180/300: dt: 0.9000, rms radial error=146.236, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.413, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.595, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.781, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.971, avgs=0
- 205/300: dt: 0.9000, rms radial error=142.166, avgs=0
- 210/300: dt: 0.9000, rms radial error=141.365, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.569, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.777, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.989, avgs=0
- 230/300: dt: 0.9000, rms radial error=138.206, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.427, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.653, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.883, avgs=0
- 250/300: dt: 0.9000, rms radial error=135.118, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.357, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.600, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.848, avgs=0
- 270/300: dt: 0.9000, rms radial error=132.100, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.357, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.617, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.882, avgs=0
- 290/300: dt: 0.9000, rms radial error=129.151, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.423, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.700, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 19177.71
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00010
- epoch 2 (K=40.0), pass 1, starting sse = 3502.03
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00003
- epoch 3 (K=160.0), pass 1, starting sse = 465.95
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.03/10 = 0.00298
- epoch 4 (K=640.0), pass 1, starting sse = 58.39
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.06/11 = 0.00527
- final distance error %30.63
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.08 hours
- mris_sphere utimesec 285.245636
- mris_sphere stimesec 0.257960
- mris_sphere ru_maxrss 234084
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 33928
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 11184
- mris_sphere ru_oublock 11224
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 8273
- mris_sphere ru_nivcsw 20221
- FSRUNTIME@ mris_sphere 0.0789 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 0.92 +- 0.58 (0.00-->8.27) (max @ vno 50224 --> 50233)
- face area 0.02 +- 0.03 (-0.15-->0.64)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.296...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=177.101, avgs=0
- 005/300: dt: 0.9000, rms radial error=176.843, avgs=0
- 010/300: dt: 0.9000, rms radial error=176.290, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.562, avgs=0
- 020/300: dt: 0.9000, rms radial error=174.730, avgs=0
- 025/300: dt: 0.9000, rms radial error=173.840, avgs=0
- 030/300: dt: 0.9000, rms radial error=172.918, avgs=0
- 035/300: dt: 0.9000, rms radial error=171.980, avgs=0
- 040/300: dt: 0.9000, rms radial error=171.033, avgs=0
- 045/300: dt: 0.9000, rms radial error=170.084, avgs=0
- 050/300: dt: 0.9000, rms radial error=169.135, avgs=0
- 055/300: dt: 0.9000, rms radial error=168.188, avgs=0
- 060/300: dt: 0.9000, rms radial error=167.249, avgs=0
- 065/300: dt: 0.9000, rms radial error=166.315, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.385, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.459, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.539, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.624, avgs=0
- 090/300: dt: 0.9000, rms radial error=161.714, avgs=0
- 095/300: dt: 0.9000, rms radial error=160.809, avgs=0
- 100/300: dt: 0.9000, rms radial error=159.908, avgs=0
- 105/300: dt: 0.9000, rms radial error=159.013, avgs=0
- 110/300: dt: 0.9000, rms radial error=158.122, avgs=0
- 115/300: dt: 0.9000, rms radial error=157.236, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.355, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.478, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.606, avgs=0
- 135/300: dt: 0.9000, rms radial error=153.739, avgs=0
- 140/300: dt: 0.9000, rms radial error=152.877, avgs=0
- 145/300: dt: 0.9000, rms radial error=152.019, avgs=0
- 150/300: dt: 0.9000, rms radial error=151.166, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.317, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.473, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.634, avgs=0
- 170/300: dt: 0.9000, rms radial error=147.798, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.968, avgs=0
- 180/300: dt: 0.9000, rms radial error=146.142, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.320, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.503, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.691, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.882, avgs=0
- 205/300: dt: 0.9000, rms radial error=142.079, avgs=0
- 210/300: dt: 0.9000, rms radial error=141.280, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.485, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.694, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.908, avgs=0
- 230/300: dt: 0.9000, rms radial error=138.127, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.349, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.576, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.807, avgs=0
- 250/300: dt: 0.9000, rms radial error=135.043, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.283, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.526, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.775, avgs=0
- 270/300: dt: 0.9000, rms radial error=132.027, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.283, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.544, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.809, avgs=0
- 290/300: dt: 0.9000, rms radial error=129.078, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.351, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.628, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 18474.20
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00009
- epoch 2 (K=40.0), pass 1, starting sse = 3281.54
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00009
- epoch 3 (K=160.0), pass 1, starting sse = 410.60
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.04/10 = 0.00396
- epoch 4 (K=640.0), pass 1, starting sse = 44.98
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.08/12 = 0.00633
- final distance error %28.42
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.08 hours
- mris_sphere utimesec 280.674331
- mris_sphere stimesec 0.157975
- mris_sphere ru_maxrss 226836
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 32626
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10888
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 8395
- mris_sphere ru_nivcsw 19808
- FSRUNTIME@ mris_sphere 0.0780 hours 1 threads
- PIDs (28866 28870) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Sat Oct 7 21:18:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Sat Oct 7 21:18:33 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Sat Oct 7 21:18:33 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051348 lh
- #@# Fix Topology rh Sat Oct 7 21:18:33 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051348 rh
- Waiting for PID 29128 of (29128 29131) to complete...
- Waiting for PID 29131 of (29128 29131) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051348 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=-344 (nv=158764, nf=318216, ne=477324, g=173)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 9 iterations
- marking ambiguous vertices...
- 28132 ambiguous faces found in tessellation
- segmenting defects...
- 126 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 55 into 47
- -merging segment 69 into 64
- -merging segment 70 into 65
- -merging segment 79 into 76
- -merging segment 83 into 82
- -merging segment 104 into 111
- 120 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.4356 (-4.7178)
- -vertex loglikelihood: -6.2727 (-3.1363)
- -normal dot loglikelihood: -3.5893 (-3.5893)
- -quad curv loglikelihood: -6.1361 (-3.0681)
- Total Loglikelihood : -25.4338
- CORRECTING DEFECT 0 (vertices=183, convex hull=140, v0=280)
- After retessellation of defect 0 (v0=280), euler #=-114 (142578,422848,280156) : difference with theory (-117) = -3
- CORRECTING DEFECT 1 (vertices=13, convex hull=21, v0=2532)
- After retessellation of defect 1 (v0=2532), euler #=-113 (142579,422860,280168) : difference with theory (-116) = -3
- CORRECTING DEFECT 2 (vertices=31, convex hull=63, v0=4193)
- After retessellation of defect 2 (v0=4193), euler #=-112 (142594,422930,280224) : difference with theory (-115) = -3
- CORRECTING DEFECT 3 (vertices=33, convex hull=62, v0=14515)
- After retessellation of defect 3 (v0=14515), euler #=-111 (142615,423021,280295) : difference with theory (-114) = -3
- CORRECTING DEFECT 4 (vertices=37, convex hull=82, v0=14552)
- After retessellation of defect 4 (v0=14552), euler #=-110 (142633,423110,280367) : difference with theory (-113) = -3
- CORRECTING DEFECT 5 (vertices=4678, convex hull=1805, v0=15315)
- XL defect detected...
- After retessellation of defect 5 (v0=15315), euler #=-110 (143285,426027,282632) : difference with theory (-112) = -2
- CORRECTING DEFECT 6 (vertices=41, convex hull=68, v0=16122)
- After retessellation of defect 6 (v0=16122), euler #=-109 (143294,426080,282677) : difference with theory (-111) = -2
- CORRECTING DEFECT 7 (vertices=23, convex hull=31, v0=16738)
- After retessellation of defect 7 (v0=16738), euler #=-108 (143297,426096,282691) : difference with theory (-110) = -2
- CORRECTING DEFECT 8 (vertices=54, convex hull=31, v0=16906)
- After retessellation of defect 8 (v0=16906), euler #=-107 (143300,426113,282706) : difference with theory (-109) = -2
- CORRECTING DEFECT 9 (vertices=54, convex hull=42, v0=18343)
- After retessellation of defect 9 (v0=18343), euler #=-106 (143306,426147,282735) : difference with theory (-108) = -2
- CORRECTING DEFECT 10 (vertices=24, convex hull=51, v0=22129)
- After retessellation of defect 10 (v0=22129), euler #=-105 (143316,426193,282772) : difference with theory (-107) = -2
- CORRECTING DEFECT 11 (vertices=58, convex hull=55, v0=22488)
- After retessellation of defect 11 (v0=22488), euler #=-104 (143331,426264,282829) : difference with theory (-106) = -2
- CORRECTING DEFECT 12 (vertices=20, convex hull=56, v0=22608)
- After retessellation of defect 12 (v0=22608), euler #=-103 (143342,426316,282871) : difference with theory (-105) = -2
- CORRECTING DEFECT 13 (vertices=64, convex hull=90, v0=23346)
- After retessellation of defect 13 (v0=23346), euler #=-102 (143383,426480,282995) : difference with theory (-104) = -2
- CORRECTING DEFECT 14 (vertices=48, convex hull=72, v0=28181)
- After retessellation of defect 14 (v0=28181), euler #=-101 (143404,426572,283067) : difference with theory (-103) = -2
- CORRECTING DEFECT 15 (vertices=84, convex hull=119, v0=30544)
- After retessellation of defect 15 (v0=30544), euler #=-100 (143451,426765,283214) : difference with theory (-102) = -2
- CORRECTING DEFECT 16 (vertices=10, convex hull=13, v0=32493)
- After retessellation of defect 16 (v0=32493), euler #=-99 (143453,426773,283221) : difference with theory (-101) = -2
- CORRECTING DEFECT 17 (vertices=60, convex hull=100, v0=33251)
- After retessellation of defect 17 (v0=33251), euler #=-98 (143484,426906,283324) : difference with theory (-100) = -2
- CORRECTING DEFECT 18 (vertices=42, convex hull=73, v0=36702)
- After retessellation of defect 18 (v0=36702), euler #=-97 (143498,426979,283384) : difference with theory (-99) = -2
- CORRECTING DEFECT 19 (vertices=17, convex hull=18, v0=40244)
- After retessellation of defect 19 (v0=40244), euler #=-96 (143500,426990,283394) : difference with theory (-98) = -2
- CORRECTING DEFECT 20 (vertices=6, convex hull=20, v0=40606)
- After retessellation of defect 20 (v0=40606), euler #=-95 (143501,426999,283403) : difference with theory (-97) = -2
- CORRECTING DEFECT 21 (vertices=51, convex hull=85, v0=42209)
- After retessellation of defect 21 (v0=42209), euler #=-94 (143510,427064,283460) : difference with theory (-96) = -2
- CORRECTING DEFECT 22 (vertices=41, convex hull=68, v0=43148)
- After retessellation of defect 22 (v0=43148), euler #=-93 (143530,427149,283526) : difference with theory (-95) = -2
- CORRECTING DEFECT 23 (vertices=11, convex hull=21, v0=43808)
- After retessellation of defect 23 (v0=43808), euler #=-92 (143531,427158,283535) : difference with theory (-94) = -2
- CORRECTING DEFECT 24 (vertices=72, convex hull=109, v0=43819)
- After retessellation of defect 24 (v0=43819), euler #=-91 (143540,427233,283602) : difference with theory (-93) = -2
- CORRECTING DEFECT 25 (vertices=35, convex hull=46, v0=46369)
- After retessellation of defect 25 (v0=46369), euler #=-90 (143546,427270,283634) : difference with theory (-92) = -2
- CORRECTING DEFECT 26 (vertices=63, convex hull=31, v0=46734)
- After retessellation of defect 26 (v0=46734), euler #=-89 (143553,427302,283660) : difference with theory (-91) = -2
- CORRECTING DEFECT 27 (vertices=122, convex hull=193, v0=50700)
- After retessellation of defect 27 (v0=50700), euler #=-88 (143565,427429,283776) : difference with theory (-90) = -2
- CORRECTING DEFECT 28 (vertices=156, convex hull=132, v0=50981)
- After retessellation of defect 28 (v0=50981), euler #=-87 (143627,427667,283953) : difference with theory (-89) = -2
- CORRECTING DEFECT 29 (vertices=5, convex hull=21, v0=51623)
- After retessellation of defect 29 (v0=51623), euler #=-86 (143628,427676,283962) : difference with theory (-88) = -2
- CORRECTING DEFECT 30 (vertices=86, convex hull=60, v0=54980)
- After retessellation of defect 30 (v0=54980), euler #=-85 (143651,427771,284035) : difference with theory (-87) = -2
- CORRECTING DEFECT 31 (vertices=87, convex hull=84, v0=57266)
- After retessellation of defect 31 (v0=57266), euler #=-84 (143670,427863,284109) : difference with theory (-86) = -2
- CORRECTING DEFECT 32 (vertices=35, convex hull=53, v0=58363)
- After retessellation of defect 32 (v0=58363), euler #=-83 (143685,427929,284161) : difference with theory (-85) = -2
- CORRECTING DEFECT 33 (vertices=23, convex hull=54, v0=58941)
- After retessellation of defect 33 (v0=58941), euler #=-82 (143697,427987,284208) : difference with theory (-84) = -2
- CORRECTING DEFECT 34 (vertices=154, convex hull=31, v0=59136)
- After retessellation of defect 34 (v0=59136), euler #=-81 (143704,428017,284232) : difference with theory (-83) = -2
- CORRECTING DEFECT 35 (vertices=19, convex hull=34, v0=60479)
- After retessellation of defect 35 (v0=60479), euler #=-80 (143708,428040,284252) : difference with theory (-82) = -2
- CORRECTING DEFECT 36 (vertices=30, convex hull=85, v0=61693)
- After retessellation of defect 36 (v0=61693), euler #=-79 (143725,428122,284318) : difference with theory (-81) = -2
- CORRECTING DEFECT 37 (vertices=23, convex hull=49, v0=63274)
- After retessellation of defect 37 (v0=63274), euler #=-78 (143734,428168,284356) : difference with theory (-80) = -2
- CORRECTING DEFECT 38 (vertices=35, convex hull=43, v0=68767)
- After retessellation of defect 38 (v0=68767), euler #=-77 (143741,428203,284385) : difference with theory (-79) = -2
- CORRECTING DEFECT 39 (vertices=51, convex hull=54, v0=68969)
- After retessellation of defect 39 (v0=68969), euler #=-76 (143752,428257,284429) : difference with theory (-78) = -2
- CORRECTING DEFECT 40 (vertices=132, convex hull=85, v0=69230)
- After retessellation of defect 40 (v0=69230), euler #=-75 (143789,428405,284541) : difference with theory (-77) = -2
- CORRECTING DEFECT 41 (vertices=53, convex hull=82, v0=69774)
- After retessellation of defect 41 (v0=69774), euler #=-74 (143816,428521,284631) : difference with theory (-76) = -2
- CORRECTING DEFECT 42 (vertices=123, convex hull=120, v0=72986)
- After retessellation of defect 42 (v0=72986), euler #=-73 (143862,428729,284794) : difference with theory (-75) = -2
- CORRECTING DEFECT 43 (vertices=17, convex hull=49, v0=73944)
- After retessellation of defect 43 (v0=73944), euler #=-72 (143871,428775,284832) : difference with theory (-74) = -2
- CORRECTING DEFECT 44 (vertices=78, convex hull=135, v0=74123)
- After retessellation of defect 44 (v0=74123), euler #=-71 (143889,428891,284931) : difference with theory (-73) = -2
- CORRECTING DEFECT 45 (vertices=43, convex hull=33, v0=76075)
- After retessellation of defect 45 (v0=76075), euler #=-70 (143895,428921,284956) : difference with theory (-72) = -2
- CORRECTING DEFECT 46 (vertices=27, convex hull=64, v0=76758)
- After retessellation of defect 46 (v0=76758), euler #=-69 (143907,428978,285002) : difference with theory (-71) = -2
- CORRECTING DEFECT 47 (vertices=617, convex hull=231, v0=77766)
- After retessellation of defect 47 (v0=77766), euler #=-68 (144014,429412,285330) : difference with theory (-70) = -2
- CORRECTING DEFECT 48 (vertices=29, convex hull=48, v0=80186)
- After retessellation of defect 48 (v0=80186), euler #=-67 (144022,429455,285366) : difference with theory (-69) = -2
- CORRECTING DEFECT 49 (vertices=46, convex hull=42, v0=81787)
- After retessellation of defect 49 (v0=81787), euler #=-66 (144028,429487,285393) : difference with theory (-68) = -2
- CORRECTING DEFECT 50 (vertices=20, convex hull=58, v0=82150)
- After retessellation of defect 50 (v0=82150), euler #=-65 (144041,429545,285439) : difference with theory (-67) = -2
- CORRECTING DEFECT 51 (vertices=233, convex hull=148, v0=85097)
- After retessellation of defect 51 (v0=85097), euler #=-64 (144071,429712,285577) : difference with theory (-66) = -2
- CORRECTING DEFECT 52 (vertices=61, convex hull=86, v0=86538)
- After retessellation of defect 52 (v0=86538), euler #=-64 (144085,429792,285643) : difference with theory (-65) = -1
- CORRECTING DEFECT 53 (vertices=7, convex hull=19, v0=87374)
- After retessellation of defect 53 (v0=87374), euler #=-63 (144086,429800,285651) : difference with theory (-64) = -1
- CORRECTING DEFECT 54 (vertices=9, convex hull=21, v0=89105)
- After retessellation of defect 54 (v0=89105), euler #=-62 (144088,429814,285664) : difference with theory (-63) = -1
- CORRECTING DEFECT 55 (vertices=63, convex hull=75, v0=89394)
- After retessellation of defect 55 (v0=89394), euler #=-61 (144103,429895,285731) : difference with theory (-62) = -1
- CORRECTING DEFECT 56 (vertices=31, convex hull=58, v0=90341)
- After retessellation of defect 56 (v0=90341), euler #=-60 (144122,429973,285791) : difference with theory (-61) = -1
- CORRECTING DEFECT 57 (vertices=9, convex hull=27, v0=90516)
- After retessellation of defect 57 (v0=90516), euler #=-59 (144124,429986,285803) : difference with theory (-60) = -1
- CORRECTING DEFECT 58 (vertices=39, convex hull=51, v0=90697)
- After retessellation of defect 58 (v0=90697), euler #=-58 (144135,430039,285846) : difference with theory (-59) = -1
- CORRECTING DEFECT 59 (vertices=21, convex hull=53, v0=91464)
- After retessellation of defect 59 (v0=91464), euler #=-57 (144144,430084,285883) : difference with theory (-58) = -1
- CORRECTING DEFECT 60 (vertices=56, convex hull=82, v0=92002)
- After retessellation of defect 60 (v0=92002), euler #=-56 (144174,430210,285980) : difference with theory (-57) = -1
- CORRECTING DEFECT 61 (vertices=31, convex hull=31, v0=92552)
- After retessellation of defect 61 (v0=92552), euler #=-55 (144177,430231,285999) : difference with theory (-56) = -1
- CORRECTING DEFECT 62 (vertices=15, convex hull=26, v0=94755)
- After retessellation of defect 62 (v0=94755), euler #=-54 (144181,430249,286014) : difference with theory (-55) = -1
- CORRECTING DEFECT 63 (vertices=106, convex hull=117, v0=95865)
- After retessellation of defect 63 (v0=95865), euler #=-52 (144234,430464,286178) : difference with theory (-54) = -2
- CORRECTING DEFECT 64 (vertices=151, convex hull=233, v0=96121)
- After retessellation of defect 64 (v0=96121), euler #=-50 (144272,430681,286359) : difference with theory (-53) = -3
- CORRECTING DEFECT 65 (vertices=125, convex hull=110, v0=96322)
- After retessellation of defect 65 (v0=96322), euler #=-49 (144287,430780,286444) : difference with theory (-52) = -3
- CORRECTING DEFECT 66 (vertices=26, convex hull=61, v0=96715)
- After retessellation of defect 66 (v0=96715), euler #=-48 (144296,430829,286485) : difference with theory (-51) = -3
- CORRECTING DEFECT 67 (vertices=242, convex hull=243, v0=97159)
- After retessellation of defect 67 (v0=97159), euler #=-47 (144381,431203,286775) : difference with theory (-50) = -3
- CORRECTING DEFECT 68 (vertices=373, convex hull=55, v0=100083)
- After retessellation of defect 68 (v0=100083), euler #=-46 (144398,431275,286831) : difference with theory (-49) = -3
- CORRECTING DEFECT 69 (vertices=24, convex hull=32, v0=100468)
- After retessellation of defect 69 (v0=100468), euler #=-45 (144400,431294,286849) : difference with theory (-48) = -3
- CORRECTING DEFECT 70 (vertices=17, convex hull=65, v0=102841)
- After retessellation of defect 70 (v0=102841), euler #=-44 (144411,431351,286896) : difference with theory (-47) = -3
- CORRECTING DEFECT 71 (vertices=43, convex hull=26, v0=102920)
- After retessellation of defect 71 (v0=102920), euler #=-43 (144416,431374,286915) : difference with theory (-46) = -3
- CORRECTING DEFECT 72 (vertices=9, convex hull=18, v0=104250)
- After retessellation of defect 72 (v0=104250), euler #=-42 (144417,431381,286922) : difference with theory (-45) = -3
- CORRECTING DEFECT 73 (vertices=145, convex hull=129, v0=107535)
- After retessellation of defect 73 (v0=107535), euler #=-40 (144454,431563,287069) : difference with theory (-44) = -4
- CORRECTING DEFECT 74 (vertices=23, convex hull=60, v0=107824)
- After retessellation of defect 74 (v0=107824), euler #=-39 (144469,431629,287121) : difference with theory (-43) = -4
- CORRECTING DEFECT 75 (vertices=32, convex hull=64, v0=108064)
- After retessellation of defect 75 (v0=108064), euler #=-38 (144491,431718,287189) : difference with theory (-42) = -4
- CORRECTING DEFECT 76 (vertices=1750, convex hull=572, v0=108846)
- XL defect detected...
- After retessellation of defect 76 (v0=108846), euler #=-39 (144892,433230,288299) : difference with theory (-41) = -2
- CORRECTING DEFECT 77 (vertices=23, convex hull=44, v0=109051)
- After retessellation of defect 77 (v0=109051), euler #=-38 (144894,433255,288323) : difference with theory (-40) = -2
- CORRECTING DEFECT 78 (vertices=163, convex hull=79, v0=111380)
- After retessellation of defect 78 (v0=111380), euler #=-36 (144918,433363,288409) : difference with theory (-39) = -3
- CORRECTING DEFECT 79 (vertices=8, convex hull=23, v0=111649)
- After retessellation of defect 79 (v0=111649), euler #=-35 (144919,433373,288419) : difference with theory (-38) = -3
- CORRECTING DEFECT 80 (vertices=61, convex hull=98, v0=113734)
- After retessellation of defect 80 (v0=113734), euler #=-34 (144950,433510,288526) : difference with theory (-37) = -3
- CORRECTING DEFECT 81 (vertices=188, convex hull=105, v0=115170)
- After retessellation of defect 81 (v0=115170), euler #=-33 (144963,433595,288599) : difference with theory (-36) = -3
- CORRECTING DEFECT 82 (vertices=571, convex hull=163, v0=116032)
- After retessellation of defect 82 (v0=116032), euler #=-33 (145049,433935,288853) : difference with theory (-35) = -2
- CORRECTING DEFECT 83 (vertices=32, convex hull=41, v0=116655)
- After retessellation of defect 83 (v0=116655), euler #=-32 (145056,433969,288881) : difference with theory (-34) = -2
- CORRECTING DEFECT 84 (vertices=20, convex hull=63, v0=116872)
- After retessellation of defect 84 (v0=116872), euler #=-31 (145070,434029,288928) : difference with theory (-33) = -2
- CORRECTING DEFECT 85 (vertices=19, convex hull=49, v0=117148)
- After retessellation of defect 85 (v0=117148), euler #=-30 (145080,434074,288964) : difference with theory (-32) = -2
- CORRECTING DEFECT 86 (vertices=14, convex hull=29, v0=118718)
- After retessellation of defect 86 (v0=118718), euler #=-29 (145082,434085,288974) : difference with theory (-31) = -2
- CORRECTING DEFECT 87 (vertices=7, convex hull=21, v0=118732)
- After retessellation of defect 87 (v0=118732), euler #=-28 (145083,434093,288982) : difference with theory (-30) = -2
- CORRECTING DEFECT 88 (vertices=23, convex hull=56, v0=119551)
- After retessellation of defect 88 (v0=119551), euler #=-27 (145093,434142,289022) : difference with theory (-29) = -2
- CORRECTING DEFECT 89 (vertices=28, convex hull=70, v0=119858)
- After retessellation of defect 89 (v0=119858), euler #=-26 (145102,434199,289071) : difference with theory (-28) = -2
- CORRECTING DEFECT 90 (vertices=7, convex hull=18, v0=120656)
- After retessellation of defect 90 (v0=120656), euler #=-25 (145103,434207,289079) : difference with theory (-27) = -2
- CORRECTING DEFECT 91 (vertices=31, convex hull=24, v0=121984)
- After retessellation of defect 91 (v0=121984), euler #=-24 (145104,434219,289091) : difference with theory (-26) = -2
- CORRECTING DEFECT 92 (vertices=40, convex hull=19, v0=122257)
- After retessellation of defect 92 (v0=122257), euler #=-23 (145104,434228,289101) : difference with theory (-25) = -2
- CORRECTING DEFECT 93 (vertices=45, convex hull=76, v0=124358)
- After retessellation of defect 93 (v0=124358), euler #=-22 (145113,434289,289154) : difference with theory (-24) = -2
- CORRECTING DEFECT 94 (vertices=43, convex hull=43, v0=126648)
- After retessellation of defect 94 (v0=126648), euler #=-21 (145129,434353,289203) : difference with theory (-23) = -2
- CORRECTING DEFECT 95 (vertices=81, convex hull=22, v0=126882)
- After retessellation of defect 95 (v0=126882), euler #=-20 (145131,434364,289213) : difference with theory (-22) = -2
- CORRECTING DEFECT 96 (vertices=142, convex hull=132, v0=131182)
- After retessellation of defect 96 (v0=131182), euler #=-19 (145164,434522,289339) : difference with theory (-21) = -2
- CORRECTING DEFECT 97 (vertices=65, convex hull=36, v0=132358)
- After retessellation of defect 97 (v0=132358), euler #=-19 (145169,434556,289368) : difference with theory (-20) = -1
- CORRECTING DEFECT 98 (vertices=59, convex hull=34, v0=134230)
- After retessellation of defect 98 (v0=134230), euler #=-18 (145174,434584,289392) : difference with theory (-19) = -1
- CORRECTING DEFECT 99 (vertices=30, convex hull=81, v0=137988)
- After retessellation of defect 99 (v0=137988), euler #=-17 (145189,434664,289458) : difference with theory (-18) = -1
- CORRECTING DEFECT 100 (vertices=77, convex hull=112, v0=139495)
- After retessellation of defect 100 (v0=139495), euler #=-16 (145235,434854,289603) : difference with theory (-17) = -1
- CORRECTING DEFECT 101 (vertices=6, convex hull=35, v0=140961)
- After retessellation of defect 101 (v0=140961), euler #=-15 (145236,434867,289616) : difference with theory (-16) = -1
- CORRECTING DEFECT 102 (vertices=62, convex hull=104, v0=142366)
- After retessellation of defect 102 (v0=142366), euler #=-14 (145257,434978,289707) : difference with theory (-15) = -1
- CORRECTING DEFECT 103 (vertices=31, convex hull=68, v0=142836)
- After retessellation of defect 103 (v0=142836), euler #=-13 (145267,435035,289755) : difference with theory (-14) = -1
- CORRECTING DEFECT 104 (vertices=31, convex hull=28, v0=145003)
- After retessellation of defect 104 (v0=145003), euler #=-12 (145268,435051,289771) : difference with theory (-13) = -1
- CORRECTING DEFECT 105 (vertices=1213, convex hull=509, v0=145849)
- L defect detected...
- After retessellation of defect 105 (v0=145849), euler #=-12 (145559,436188,290617) : difference with theory (-12) = 0
- CORRECTING DEFECT 106 (vertices=59, convex hull=101, v0=147878)
- After retessellation of defect 106 (v0=147878), euler #=-11 (145593,436334,290730) : difference with theory (-11) = 0
- CORRECTING DEFECT 107 (vertices=51, convex hull=79, v0=148682)
- After retessellation of defect 107 (v0=148682), euler #=-10 (145615,436431,290806) : difference with theory (-10) = 0
- CORRECTING DEFECT 108 (vertices=121, convex hull=106, v0=149185)
- After retessellation of defect 108 (v0=149185), euler #=-9 (145656,436595,290930) : difference with theory (-9) = 0
- CORRECTING DEFECT 109 (vertices=597, convex hull=136, v0=150154)
- After retessellation of defect 109 (v0=150154), euler #=-8 (145722,436856,291126) : difference with theory (-8) = 0
- CORRECTING DEFECT 110 (vertices=109, convex hull=121, v0=150331)
- After retessellation of defect 110 (v0=150331), euler #=-7 (145747,436986,291232) : difference with theory (-7) = 0
- CORRECTING DEFECT 111 (vertices=23, convex hull=30, v0=150759)
- After retessellation of defect 111 (v0=150759), euler #=-6 (145748,437002,291248) : difference with theory (-6) = 0
- CORRECTING DEFECT 112 (vertices=188, convex hull=48, v0=152908)
- After retessellation of defect 112 (v0=152908), euler #=-5 (145756,437045,291284) : difference with theory (-5) = 0
- CORRECTING DEFECT 113 (vertices=59, convex hull=109, v0=154521)
- After retessellation of defect 113 (v0=154521), euler #=-4 (145774,437143,291365) : difference with theory (-4) = 0
- CORRECTING DEFECT 114 (vertices=30, convex hull=70, v0=155588)
- After retessellation of defect 114 (v0=155588), euler #=-3 (145786,437207,291418) : difference with theory (-3) = 0
- CORRECTING DEFECT 115 (vertices=28, convex hull=70, v0=156064)
- After retessellation of defect 115 (v0=156064), euler #=-2 (145795,437257,291460) : difference with theory (-2) = 0
- CORRECTING DEFECT 116 (vertices=146, convex hull=95, v0=156326)
- After retessellation of defect 116 (v0=156326), euler #=-1 (145837,437423,291585) : difference with theory (-1) = 0
- CORRECTING DEFECT 117 (vertices=100, convex hull=115, v0=157744)
- After retessellation of defect 117 (v0=157744), euler #=0 (145854,437523,291669) : difference with theory (0) = 0
- CORRECTING DEFECT 118 (vertices=43, convex hull=69, v0=158331)
- After retessellation of defect 118 (v0=158331), euler #=1 (145873,437606,291734) : difference with theory (1) = 0
- CORRECTING DEFECT 119 (vertices=13, convex hull=19, v0=158749)
- After retessellation of defect 119 (v0=158749), euler #=2 (145874,437616,291744) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.30 (0.04-->11.86) (max @ vno 44778 --> 56635)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.30 (0.04-->11.86) (max @ vno 44778 --> 56635)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 444 mutations (35.0%), 823 crossovers (65.0%), 1501 vertices were eliminated
- building final representation...
- 12890 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=145874, nf=291744, ne=437616, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 184.1 minutes
- 0 defective edges
- removing intersecting faces
- 000: 1288 intersecting
- 001: 113 intersecting
- 002: 31 intersecting
- 003: 9 intersecting
- 004: 6 intersecting
- 005: 3 intersecting
- mris_fix_topology utimesec 11050.300099
- mris_fix_topology stimesec 1.940704
- mris_fix_topology ru_maxrss 640620
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 126325
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 33552
- mris_fix_topology ru_oublock 14704
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 732
- mris_fix_topology ru_nivcsw 20545
- FSRUNTIME@ mris_fix_topology lh 3.0684 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051348 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=-294 (nv=154026, nf=308640, ne=462960, g=148)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 11 iterations
- marking ambiguous vertices...
- 18613 ambiguous faces found in tessellation
- segmenting defects...
- 147 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 4 into 3
- -merging segment 56 into 62
- -merging segment 74 into 66
- -merging segment 88 into 71
- -merging segment 77 into 76
- -merging segment 96 into 92
- -merging segment 134 into 133
- -merging segment 137 into 133
- -merging segment 142 into 141
- -merging segment 145 into 141
- 137 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.3764 (-4.6882)
- -vertex loglikelihood: -6.2514 (-3.1257)
- -normal dot loglikelihood: -3.5644 (-3.5644)
- -quad curv loglikelihood: -6.0734 (-3.0367)
- Total Loglikelihood : -25.2656
- CORRECTING DEFECT 0 (vertices=154, convex hull=46, v0=586)
- After retessellation of defect 0 (v0=586), euler #=-140 (142688,423487,280659) : difference with theory (-134) = 6
- CORRECTING DEFECT 1 (vertices=29, convex hull=70, v0=1312)
- After retessellation of defect 1 (v0=1312), euler #=-139 (142700,423547,280708) : difference with theory (-133) = 6
- CORRECTING DEFECT 2 (vertices=27, convex hull=62, v0=7191)
- After retessellation of defect 2 (v0=7191), euler #=-138 (142710,423598,280750) : difference with theory (-132) = 6
- CORRECTING DEFECT 3 (vertices=41, convex hull=64, v0=8063)
- After retessellation of defect 3 (v0=8063), euler #=-136 (142720,423656,280800) : difference with theory (-131) = 5
- CORRECTING DEFECT 4 (vertices=28, convex hull=51, v0=11207)
- After retessellation of defect 4 (v0=11207), euler #=-135 (142736,423725,280854) : difference with theory (-130) = 5
- CORRECTING DEFECT 5 (vertices=63, convex hull=55, v0=16474)
- After retessellation of defect 5 (v0=16474), euler #=-134 (142745,423773,280894) : difference with theory (-129) = 5
- CORRECTING DEFECT 6 (vertices=83, convex hull=74, v0=16739)
- After retessellation of defect 6 (v0=16739), euler #=-133 (142776,423895,280986) : difference with theory (-128) = 5
- CORRECTING DEFECT 7 (vertices=72, convex hull=97, v0=16802)
- After retessellation of defect 7 (v0=16802), euler #=-132 (142809,424037,281096) : difference with theory (-127) = 5
- CORRECTING DEFECT 8 (vertices=36, convex hull=45, v0=19250)
- After retessellation of defect 8 (v0=19250), euler #=-131 (142822,424096,281143) : difference with theory (-126) = 5
- CORRECTING DEFECT 9 (vertices=48, convex hull=46, v0=19759)
- After retessellation of defect 9 (v0=19759), euler #=-130 (142830,424135,281175) : difference with theory (-125) = 5
- CORRECTING DEFECT 10 (vertices=8, convex hull=26, v0=20111)
- After retessellation of defect 10 (v0=20111), euler #=-129 (142830,424142,281183) : difference with theory (-124) = 5
- CORRECTING DEFECT 11 (vertices=59, convex hull=50, v0=24782)
- After retessellation of defect 11 (v0=24782), euler #=-128 (142839,424190,281223) : difference with theory (-123) = 5
- CORRECTING DEFECT 12 (vertices=31, convex hull=19, v0=25066)
- After retessellation of defect 12 (v0=25066), euler #=-127 (142845,424213,281241) : difference with theory (-122) = 5
- CORRECTING DEFECT 13 (vertices=46, convex hull=51, v0=27961)
- After retessellation of defect 13 (v0=27961), euler #=-126 (142849,424244,281269) : difference with theory (-121) = 5
- CORRECTING DEFECT 14 (vertices=40, convex hull=81, v0=28025)
- After retessellation of defect 14 (v0=28025), euler #=-125 (142877,424361,281359) : difference with theory (-120) = 5
- CORRECTING DEFECT 15 (vertices=72, convex hull=87, v0=29203)
- After retessellation of defect 15 (v0=29203), euler #=-124 (142906,424487,281457) : difference with theory (-119) = 5
- CORRECTING DEFECT 16 (vertices=1289, convex hull=771, v0=30574)
- XL defect detected...
- After retessellation of defect 16 (v0=30574), euler #=-124 (143310,426145,282711) : difference with theory (-118) = 6
- CORRECTING DEFECT 17 (vertices=29, convex hull=25, v0=33155)
- After retessellation of defect 17 (v0=33155), euler #=-123 (143314,426163,282726) : difference with theory (-117) = 6
- CORRECTING DEFECT 18 (vertices=25, convex hull=62, v0=35960)
- After retessellation of defect 18 (v0=35960), euler #=-122 (143323,426215,282770) : difference with theory (-116) = 6
- CORRECTING DEFECT 19 (vertices=26, convex hull=54, v0=36109)
- After retessellation of defect 19 (v0=36109), euler #=-121 (143340,426287,282826) : difference with theory (-115) = 6
- CORRECTING DEFECT 20 (vertices=46, convex hull=91, v0=38390)
- After retessellation of defect 20 (v0=38390), euler #=-120 (143352,426357,282885) : difference with theory (-114) = 6
- CORRECTING DEFECT 21 (vertices=31, convex hull=78, v0=39139)
- After retessellation of defect 21 (v0=39139), euler #=-119 (143361,426415,282935) : difference with theory (-113) = 6
- CORRECTING DEFECT 22 (vertices=32, convex hull=59, v0=42109)
- After retessellation of defect 22 (v0=42109), euler #=-118 (143378,426486,282990) : difference with theory (-112) = 6
- CORRECTING DEFECT 23 (vertices=37, convex hull=96, v0=43262)
- After retessellation of defect 23 (v0=43262), euler #=-117 (143399,426589,283073) : difference with theory (-111) = 6
- CORRECTING DEFECT 24 (vertices=29, convex hull=77, v0=44238)
- After retessellation of defect 24 (v0=44238), euler #=-116 (143417,426674,283141) : difference with theory (-110) = 6
- CORRECTING DEFECT 25 (vertices=12, convex hull=23, v0=44389)
- After retessellation of defect 25 (v0=44389), euler #=-115 (143418,426685,283152) : difference with theory (-109) = 6
- CORRECTING DEFECT 26 (vertices=113, convex hull=137, v0=45118)
- After retessellation of defect 26 (v0=45118), euler #=-114 (143453,426851,283284) : difference with theory (-108) = 6
- CORRECTING DEFECT 27 (vertices=87, convex hull=127, v0=47018)
- After retessellation of defect 27 (v0=47018), euler #=-113 (143495,427033,283425) : difference with theory (-107) = 6
- CORRECTING DEFECT 28 (vertices=25, convex hull=26, v0=47579)
- After retessellation of defect 28 (v0=47579), euler #=-112 (143501,427057,283444) : difference with theory (-106) = 6
- CORRECTING DEFECT 29 (vertices=293, convex hull=214, v0=49064)
- After retessellation of defect 29 (v0=49064), euler #=-111 (143544,427284,283629) : difference with theory (-105) = 6
- CORRECTING DEFECT 30 (vertices=30, convex hull=67, v0=50715)
- After retessellation of defect 30 (v0=50715), euler #=-110 (143566,427377,283701) : difference with theory (-104) = 6
- CORRECTING DEFECT 31 (vertices=20, convex hull=31, v0=52966)
- After retessellation of defect 31 (v0=52966), euler #=-109 (143567,427391,283715) : difference with theory (-103) = 6
- CORRECTING DEFECT 32 (vertices=37, convex hull=104, v0=53534)
- After retessellation of defect 32 (v0=53534), euler #=-108 (143581,427474,283785) : difference with theory (-102) = 6
- CORRECTING DEFECT 33 (vertices=35, convex hull=23, v0=54178)
- After retessellation of defect 33 (v0=54178), euler #=-107 (143584,427491,283800) : difference with theory (-101) = 6
- CORRECTING DEFECT 34 (vertices=44, convex hull=34, v0=58407)
- After retessellation of defect 34 (v0=58407), euler #=-106 (143592,427525,283827) : difference with theory (-100) = 6
- CORRECTING DEFECT 35 (vertices=23, convex hull=18, v0=62220)
- After retessellation of defect 35 (v0=62220), euler #=-105 (143596,427541,283840) : difference with theory (-99) = 6
- CORRECTING DEFECT 36 (vertices=139, convex hull=93, v0=63142)
- After retessellation of defect 36 (v0=63142), euler #=-104 (143635,427694,283955) : difference with theory (-98) = 6
- CORRECTING DEFECT 37 (vertices=49, convex hull=68, v0=64450)
- After retessellation of defect 37 (v0=64450), euler #=-103 (143670,427826,284053) : difference with theory (-97) = 6
- CORRECTING DEFECT 38 (vertices=6, convex hull=17, v0=67531)
- After retessellation of defect 38 (v0=67531), euler #=-102 (143670,427830,284058) : difference with theory (-96) = 6
- CORRECTING DEFECT 39 (vertices=29, convex hull=24, v0=67634)
- After retessellation of defect 39 (v0=67634), euler #=-101 (143675,427851,284075) : difference with theory (-95) = 6
- CORRECTING DEFECT 40 (vertices=57, convex hull=58, v0=67801)
- After retessellation of defect 40 (v0=67801), euler #=-100 (143694,427932,284138) : difference with theory (-94) = 6
- CORRECTING DEFECT 41 (vertices=46, convex hull=71, v0=68776)
- After retessellation of defect 41 (v0=68776), euler #=-99 (143707,428003,284197) : difference with theory (-93) = 6
- CORRECTING DEFECT 42 (vertices=138, convex hull=44, v0=71332)
- After retessellation of defect 42 (v0=71332), euler #=-98 (143718,428050,284234) : difference with theory (-92) = 6
- CORRECTING DEFECT 43 (vertices=47, convex hull=29, v0=72996)
- After retessellation of defect 43 (v0=72996), euler #=-97 (143723,428076,284256) : difference with theory (-91) = 6
- CORRECTING DEFECT 44 (vertices=29, convex hull=58, v0=73159)
- After retessellation of defect 44 (v0=73159), euler #=-96 (143734,428129,284299) : difference with theory (-90) = 6
- CORRECTING DEFECT 45 (vertices=45, convex hull=75, v0=74167)
- After retessellation of defect 45 (v0=74167), euler #=-95 (143762,428244,284387) : difference with theory (-89) = 6
- CORRECTING DEFECT 46 (vertices=30, convex hull=63, v0=74483)
- After retessellation of defect 46 (v0=74483), euler #=-94 (143771,428296,284431) : difference with theory (-88) = 6
- CORRECTING DEFECT 47 (vertices=27, convex hull=66, v0=74829)
- After retessellation of defect 47 (v0=74829), euler #=-93 (143786,428366,284487) : difference with theory (-87) = 6
- CORRECTING DEFECT 48 (vertices=199, convex hull=130, v0=79933)
- After retessellation of defect 48 (v0=79933), euler #=-92 (143796,428450,284562) : difference with theory (-86) = 6
- CORRECTING DEFECT 49 (vertices=66, convex hull=68, v0=79956)
- After retessellation of defect 49 (v0=79956), euler #=-91 (143805,428504,284608) : difference with theory (-85) = 6
- CORRECTING DEFECT 50 (vertices=38, convex hull=48, v0=80972)
- After retessellation of defect 50 (v0=80972), euler #=-90 (143826,428587,284671) : difference with theory (-84) = 6
- CORRECTING DEFECT 51 (vertices=36, convex hull=66, v0=83762)
- After retessellation of defect 51 (v0=83762), euler #=-89 (143851,428687,284747) : difference with theory (-83) = 6
- CORRECTING DEFECT 52 (vertices=105, convex hull=64, v0=85254)
- After retessellation of defect 52 (v0=85254), euler #=-88 (143860,428741,284793) : difference with theory (-82) = 6
- CORRECTING DEFECT 53 (vertices=63, convex hull=60, v0=86364)
- After retessellation of defect 53 (v0=86364), euler #=-87 (143871,428797,284839) : difference with theory (-81) = 6
- CORRECTING DEFECT 54 (vertices=22, convex hull=34, v0=86689)
- After retessellation of defect 54 (v0=86689), euler #=-86 (143875,428819,284858) : difference with theory (-80) = 6
- CORRECTING DEFECT 55 (vertices=44, convex hull=92, v0=88212)
- After retessellation of defect 55 (v0=88212), euler #=-85 (143884,428886,284917) : difference with theory (-79) = 6
- CORRECTING DEFECT 56 (vertices=89, convex hull=138, v0=88578)
- After retessellation of defect 56 (v0=88578), euler #=-84 (143929,429081,285068) : difference with theory (-78) = 6
- CORRECTING DEFECT 57 (vertices=32, convex hull=60, v0=88704)
- After retessellation of defect 57 (v0=88704), euler #=-83 (143950,429168,285135) : difference with theory (-77) = 6
- CORRECTING DEFECT 58 (vertices=23, convex hull=60, v0=89385)
- After retessellation of defect 58 (v0=89385), euler #=-82 (143962,429226,285182) : difference with theory (-76) = 6
- CORRECTING DEFECT 59 (vertices=39, convex hull=59, v0=89521)
- After retessellation of defect 59 (v0=89521), euler #=-81 (143975,429287,285231) : difference with theory (-75) = 6
- CORRECTING DEFECT 60 (vertices=51, convex hull=63, v0=90368)
- After retessellation of defect 60 (v0=90368), euler #=-79 (143984,429337,285274) : difference with theory (-74) = 5
- CORRECTING DEFECT 61 (vertices=42, convex hull=75, v0=91294)
- After retessellation of defect 61 (v0=91294), euler #=-78 (144009,429446,285359) : difference with theory (-73) = 5
- CORRECTING DEFECT 62 (vertices=42, convex hull=20, v0=91925)
- After retessellation of defect 62 (v0=91925), euler #=-77 (144016,429471,285378) : difference with theory (-72) = 5
- CORRECTING DEFECT 63 (vertices=11, convex hull=30, v0=91960)
- After retessellation of defect 63 (v0=91960), euler #=-76 (144018,429486,285392) : difference with theory (-71) = 5
- CORRECTING DEFECT 64 (vertices=429, convex hull=284, v0=92053)
- After retessellation of defect 64 (v0=92053), euler #=-74 (144123,429946,285749) : difference with theory (-70) = 4
- CORRECTING DEFECT 65 (vertices=25, convex hull=47, v0=92055)
- After retessellation of defect 65 (v0=92055), euler #=-74 (144138,430010,285798) : difference with theory (-69) = 5
- CORRECTING DEFECT 66 (vertices=12, convex hull=27, v0=94792)
- After retessellation of defect 66 (v0=94792), euler #=-73 (144141,430027,285813) : difference with theory (-68) = 5
- CORRECTING DEFECT 67 (vertices=30, convex hull=78, v0=95053)
- After retessellation of defect 67 (v0=95053), euler #=-72 (144152,430093,285869) : difference with theory (-67) = 5
- CORRECTING DEFECT 68 (vertices=11, convex hull=13, v0=96319)
- After retessellation of defect 68 (v0=96319), euler #=-71 (144154,430101,285876) : difference with theory (-66) = 5
- CORRECTING DEFECT 69 (vertices=518, convex hull=205, v0=96712)
- After retessellation of defect 69 (v0=96712), euler #=-69 (144192,430312,286051) : difference with theory (-65) = 4
- CORRECTING DEFECT 70 (vertices=104, convex hull=57, v0=98239)
- After retessellation of defect 70 (v0=98239), euler #=-68 (144215,430402,286119) : difference with theory (-64) = 4
- CORRECTING DEFECT 71 (vertices=62, convex hull=103, v0=98631)
- After retessellation of defect 71 (v0=98631), euler #=-67 (144253,430559,286239) : difference with theory (-63) = 4
- CORRECTING DEFECT 72 (vertices=172, convex hull=140, v0=99979)
- After retessellation of defect 72 (v0=99979), euler #=-66 (144304,430785,286415) : difference with theory (-62) = 4
- CORRECTING DEFECT 73 (vertices=84, convex hull=155, v0=100320)
- After retessellation of defect 73 (v0=100320), euler #=-64 (144334,430947,286549) : difference with theory (-61) = 3
- CORRECTING DEFECT 74 (vertices=70, convex hull=111, v0=100489)
- After retessellation of defect 74 (v0=100489), euler #=-63 (144371,431103,286669) : difference with theory (-60) = 3
- CORRECTING DEFECT 75 (vertices=54, convex hull=102, v0=100822)
- After retessellation of defect 75 (v0=100822), euler #=-62 (144411,431266,286793) : difference with theory (-59) = 3
- CORRECTING DEFECT 76 (vertices=111, convex hull=52, v0=101004)
- After retessellation of defect 76 (v0=101004), euler #=-61 (144420,431315,286834) : difference with theory (-58) = 3
- CORRECTING DEFECT 77 (vertices=28, convex hull=51, v0=102487)
- After retessellation of defect 77 (v0=102487), euler #=-61 (144432,431372,286879) : difference with theory (-57) = 4
- CORRECTING DEFECT 78 (vertices=31, convex hull=24, v0=103509)
- After retessellation of defect 78 (v0=103509), euler #=-60 (144438,431397,286899) : difference with theory (-56) = 4
- CORRECTING DEFECT 79 (vertices=61, convex hull=83, v0=104653)
- After retessellation of defect 79 (v0=104653), euler #=-59 (144459,431495,286977) : difference with theory (-55) = 4
- CORRECTING DEFECT 80 (vertices=21, convex hull=52, v0=104745)
- After retessellation of defect 80 (v0=104745), euler #=-58 (144469,431545,287018) : difference with theory (-54) = 4
- CORRECTING DEFECT 81 (vertices=31, convex hull=46, v0=104754)
- After retessellation of defect 81 (v0=104754), euler #=-57 (144479,431591,287055) : difference with theory (-53) = 4
- CORRECTING DEFECT 82 (vertices=32, convex hull=70, v0=105306)
- After retessellation of defect 82 (v0=105306), euler #=-56 (144491,431655,287108) : difference with theory (-52) = 4
- CORRECTING DEFECT 83 (vertices=22, convex hull=50, v0=106005)
- After retessellation of defect 83 (v0=106005), euler #=-55 (144500,431703,287148) : difference with theory (-51) = 4
- CORRECTING DEFECT 84 (vertices=19, convex hull=24, v0=106928)
- After retessellation of defect 84 (v0=106928), euler #=-54 (144504,431722,287164) : difference with theory (-50) = 4
- CORRECTING DEFECT 85 (vertices=86, convex hull=87, v0=108991)
- After retessellation of defect 85 (v0=108991), euler #=-53 (144537,431855,287265) : difference with theory (-49) = 4
- CORRECTING DEFECT 86 (vertices=42, convex hull=61, v0=109890)
- After retessellation of defect 86 (v0=109890), euler #=-52 (144546,431908,287310) : difference with theory (-48) = 4
- CORRECTING DEFECT 87 (vertices=85, convex hull=100, v0=109910)
- After retessellation of defect 87 (v0=109910), euler #=-50 (144568,432018,287400) : difference with theory (-47) = 3
- CORRECTING DEFECT 88 (vertices=39, convex hull=39, v0=110684)
- After retessellation of defect 88 (v0=110684), euler #=-49 (144575,432050,287426) : difference with theory (-46) = 3
- CORRECTING DEFECT 89 (vertices=67, convex hull=67, v0=110802)
- After retessellation of defect 89 (v0=110802), euler #=-48 (144593,432131,287490) : difference with theory (-45) = 3
- CORRECTING DEFECT 90 (vertices=6, convex hull=24, v0=111002)
- After retessellation of defect 90 (v0=111002), euler #=-47 (144593,432139,287499) : difference with theory (-44) = 3
- CORRECTING DEFECT 91 (vertices=110, convex hull=117, v0=111339)
- After retessellation of defect 91 (v0=111339), euler #=-46 (144636,432320,287638) : difference with theory (-43) = 3
- CORRECTING DEFECT 92 (vertices=21, convex hull=27, v0=111848)
- After retessellation of defect 92 (v0=111848), euler #=-45 (144641,432342,287656) : difference with theory (-42) = 3
- CORRECTING DEFECT 93 (vertices=28, convex hull=40, v0=112559)
- After retessellation of defect 93 (v0=112559), euler #=-44 (144646,432371,287681) : difference with theory (-41) = 3
- CORRECTING DEFECT 94 (vertices=537, convex hull=225, v0=113084)
- normal vector of length zero at vertex 150191 with 3 faces
- normal vector of length zero at vertex 150191 with 3 faces
- normal vector of length zero at vertex 150191 with 3 faces
- normal vector of length zero at vertex 150191 with 3 faces
- After retessellation of defect 94 (v0=113084), euler #=-43 (144757,432817,288017) : difference with theory (-40) = 3
- CORRECTING DEFECT 95 (vertices=73, convex hull=42, v0=114242)
- After retessellation of defect 95 (v0=114242), euler #=-42 (144774,432886,288070) : difference with theory (-39) = 3
- CORRECTING DEFECT 96 (vertices=69, convex hull=133, v0=114895)
- After retessellation of defect 96 (v0=114895), euler #=-41 (144794,433006,288171) : difference with theory (-38) = 3
- CORRECTING DEFECT 97 (vertices=73, convex hull=121, v0=116201)
- After retessellation of defect 97 (v0=116201), euler #=-40 (144818,433134,288276) : difference with theory (-37) = 3
- CORRECTING DEFECT 98 (vertices=33, convex hull=60, v0=116405)
- After retessellation of defect 98 (v0=116405), euler #=-39 (144836,433218,288343) : difference with theory (-36) = 3
- CORRECTING DEFECT 99 (vertices=226, convex hull=139, v0=116445)
- After retessellation of defect 99 (v0=116445), euler #=-38 (144881,433424,288505) : difference with theory (-35) = 3
- CORRECTING DEFECT 100 (vertices=14, convex hull=23, v0=116480)
- After retessellation of defect 100 (v0=116480), euler #=-37 (144882,433436,288517) : difference with theory (-34) = 3
- CORRECTING DEFECT 101 (vertices=137, convex hull=120, v0=118265)
- After retessellation of defect 101 (v0=118265), euler #=-36 (144901,433561,288624) : difference with theory (-33) = 3
- CORRECTING DEFECT 102 (vertices=527, convex hull=179, v0=119213)
- After retessellation of defect 102 (v0=119213), euler #=-36 (144978,433896,288882) : difference with theory (-32) = 4
- CORRECTING DEFECT 103 (vertices=17, convex hull=41, v0=122457)
- After retessellation of defect 103 (v0=122457), euler #=-35 (144987,433934,288912) : difference with theory (-31) = 4
- CORRECTING DEFECT 104 (vertices=40, convex hull=25, v0=126513)
- After retessellation of defect 104 (v0=126513), euler #=-34 (144994,433961,288933) : difference with theory (-30) = 4
- CORRECTING DEFECT 105 (vertices=113, convex hull=93, v0=126817)
- After retessellation of defect 105 (v0=126817), euler #=-33 (145014,434060,289013) : difference with theory (-29) = 4
- CORRECTING DEFECT 106 (vertices=22, convex hull=30, v0=129456)
- After retessellation of defect 106 (v0=129456), euler #=-32 (145017,434078,289029) : difference with theory (-28) = 4
- CORRECTING DEFECT 107 (vertices=108, convex hull=41, v0=132428)
- After retessellation of defect 107 (v0=132428), euler #=-31 (145025,434121,289065) : difference with theory (-27) = 4
- CORRECTING DEFECT 108 (vertices=27, convex hull=30, v0=132484)
- After retessellation of defect 108 (v0=132484), euler #=-30 (145028,434138,289080) : difference with theory (-26) = 4
- CORRECTING DEFECT 109 (vertices=52, convex hull=89, v0=134728)
- After retessellation of defect 109 (v0=134728), euler #=-29 (145055,434256,289172) : difference with theory (-25) = 4
- CORRECTING DEFECT 110 (vertices=65, convex hull=87, v0=134872)
- After retessellation of defect 110 (v0=134872), euler #=-28 (145081,434373,289264) : difference with theory (-24) = 4
- CORRECTING DEFECT 111 (vertices=61, convex hull=97, v0=136600)
- After retessellation of defect 111 (v0=136600), euler #=-27 (145098,434463,289338) : difference with theory (-23) = 4
- CORRECTING DEFECT 112 (vertices=51, convex hull=66, v0=137839)
- After retessellation of defect 112 (v0=137839), euler #=-26 (145126,434572,289420) : difference with theory (-22) = 4
- CORRECTING DEFECT 113 (vertices=19, convex hull=49, v0=139020)
- After retessellation of defect 113 (v0=139020), euler #=-25 (145136,434622,289461) : difference with theory (-21) = 4
- CORRECTING DEFECT 114 (vertices=6, convex hull=29, v0=139209)
- After retessellation of defect 114 (v0=139209), euler #=-24 (145137,434633,289472) : difference with theory (-20) = 4
- CORRECTING DEFECT 115 (vertices=59, convex hull=70, v0=139874)
- After retessellation of defect 115 (v0=139874), euler #=-23 (145155,434717,289539) : difference with theory (-19) = 4
- CORRECTING DEFECT 116 (vertices=119, convex hull=53, v0=141308)
- After retessellation of defect 116 (v0=141308), euler #=-22 (145164,434769,289583) : difference with theory (-18) = 4
- CORRECTING DEFECT 117 (vertices=125, convex hull=43, v0=142100)
- After retessellation of defect 117 (v0=142100), euler #=-21 (145171,434808,289616) : difference with theory (-17) = 4
- CORRECTING DEFECT 118 (vertices=63, convex hull=36, v0=142143)
- After retessellation of defect 118 (v0=142143), euler #=-20 (145175,434829,289634) : difference with theory (-16) = 4
- CORRECTING DEFECT 119 (vertices=41, convex hull=34, v0=142227)
- After retessellation of defect 119 (v0=142227), euler #=-19 (145175,434840,289646) : difference with theory (-15) = 4
- CORRECTING DEFECT 120 (vertices=180, convex hull=84, v0=144328)
- After retessellation of defect 120 (v0=144328), euler #=-18 (145207,434977,289752) : difference with theory (-14) = 4
- CORRECTING DEFECT 121 (vertices=56, convex hull=32, v0=145369)
- After retessellation of defect 121 (v0=145369), euler #=-17 (145210,434997,289770) : difference with theory (-13) = 4
- CORRECTING DEFECT 122 (vertices=115, convex hull=74, v0=146482)
- After retessellation of defect 122 (v0=146482), euler #=-16 (145219,435052,289817) : difference with theory (-12) = 4
- CORRECTING DEFECT 123 (vertices=29, convex hull=37, v0=146612)
- After retessellation of defect 123 (v0=146612), euler #=-15 (145221,435074,289838) : difference with theory (-11) = 4
- CORRECTING DEFECT 124 (vertices=57, convex hull=84, v0=147091)
- After retessellation of defect 124 (v0=147091), euler #=-14 (145244,435180,289922) : difference with theory (-10) = 4
- CORRECTING DEFECT 125 (vertices=6, convex hull=26, v0=147513)
- After retessellation of defect 125 (v0=147513), euler #=-13 (145244,435188,289931) : difference with theory (-9) = 4
- CORRECTING DEFECT 126 (vertices=142, convex hull=98, v0=147692)
- After retessellation of defect 126 (v0=147692), euler #=-12 (145274,435323,290037) : difference with theory (-8) = 4
- CORRECTING DEFECT 127 (vertices=214, convex hull=210, v0=147848)
- After retessellation of defect 127 (v0=147848), euler #=-9 (145326,435579,290244) : difference with theory (-7) = 2
- CORRECTING DEFECT 128 (vertices=147, convex hull=117, v0=148708)
- After retessellation of defect 128 (v0=148708), euler #=-8 (145359,435732,290365) : difference with theory (-6) = 2
- CORRECTING DEFECT 129 (vertices=163, convex hull=126, v0=149039)
- After retessellation of defect 129 (v0=149039), euler #=-7 (145404,435925,290514) : difference with theory (-5) = 2
- CORRECTING DEFECT 130 (vertices=28, convex hull=64, v0=149523)
- After retessellation of defect 130 (v0=149523), euler #=-6 (145413,435977,290558) : difference with theory (-4) = 2
- CORRECTING DEFECT 131 (vertices=8, convex hull=17, v0=150026)
- After retessellation of defect 131 (v0=150026), euler #=-5 (145414,435986,290567) : difference with theory (-3) = 2
- CORRECTING DEFECT 132 (vertices=38, convex hull=88, v0=150190)
- After retessellation of defect 132 (v0=150190), euler #=-4 (145432,436074,290638) : difference with theory (-2) = 2
- CORRECTING DEFECT 133 (vertices=286, convex hull=263, v0=151449)
- After retessellation of defect 133 (v0=151449), euler #=-1 (145550,436569,291018) : difference with theory (-1) = 0
- CORRECTING DEFECT 134 (vertices=39, convex hull=54, v0=152043)
- After retessellation of defect 134 (v0=152043), euler #=0 (145553,436600,291047) : difference with theory (0) = 0
- CORRECTING DEFECT 135 (vertices=67, convex hull=89, v0=152163)
- After retessellation of defect 135 (v0=152163), euler #=1 (145576,436709,291134) : difference with theory (1) = 0
- CORRECTING DEFECT 136 (vertices=31, convex hull=40, v0=153056)
- After retessellation of defect 136 (v0=153056), euler #=2 (145578,436728,291152) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.28 (0.02-->12.46) (max @ vno 74883 --> 87903)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.28 (0.02-->12.46) (max @ vno 74883 --> 87903)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 446 mutations (34.2%), 857 crossovers (65.8%), 669 vertices were eliminated
- building final representation...
- 8448 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=145578, nf=291152, ne=436728, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 87.8 minutes
- 0 defective edges
- removing intersecting faces
- 000: 1107 intersecting
- 001: 72 intersecting
- 002: 22 intersecting
- 003: 17 intersecting
- 004: 6 intersecting
- mris_fix_topology utimesec 5268.424077
- mris_fix_topology stimesec 0.213967
- mris_fix_topology ru_maxrss 496532
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 59963
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 0
- mris_fix_topology ru_oublock 14584
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 746
- mris_fix_topology ru_nivcsw 11799
- FSRUNTIME@ mris_fix_topology rh 1.4628 hours 1 threads
- PIDs (29128 29131) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 145874 - 437616 + 291744 = 2 --> 0 holes
- F =2V-4: 291744 = 291748-4 (0)
- 2E=3F: 875232 = 875232 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 145578 - 436728 + 291152 = 2 --> 0 holes
- F =2V-4: 291152 = 291156-4 (0)
- 2E=3F: 873456 = 873456 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 382 intersecting
- 001: 66 intersecting
- 002: 19 intersecting
- 003: 9 intersecting
- 004: 6 intersecting
- 005: 4 intersecting
- 006: 3 intersecting
- expanding nbhd size to 2
- 007: 3 intersecting
- expanding nbhd size to 3
- 008: 6 intersecting
- 009: 3 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 199 intersecting
- 001: 42 intersecting
- 002: 3 intersecting
- expanding nbhd size to 2
- 003: 3 intersecting
- 004: 2 intersecting
- expanding nbhd size to 3
- 005: 2 intersecting
- expanding nbhd size to 4
- 006: 8 intersecting
- 007: 5 intersecting
- expanding nbhd size to 5
- 008: 8 intersecting
- 009: 2 intersecting
- expanding nbhd size to 6
- 010: 2 intersecting
- expanding nbhd size to 7
- 011: 2 intersecting
- expanding nbhd size to 8
- 012: 2 intersecting
- expanding nbhd size to 9
- 013: 6 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Sun Oct 8 00:23:09 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051348 lh
- #--------------------------------------------
- #@# Make White Surf rh Sun Oct 8 00:23:09 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051348 rh
- Waiting for PID 3867 of (3867 3870) to complete...
- Waiting for PID 3870 of (3867 3870) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051348 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-6.0.0/0051348/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- 34293 bright wm thresholded.
- 656 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.orig...
- computing class statistics...
- border white: 276628 voxels (1.65%)
- border gray 335243 voxels (2.00%)
- WM (96.0): 96.6 +- 8.7 [70.0 --> 110.0]
- GM (73.0) : 72.5 +- 10.1 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 61.9 (was 70)
- setting MAX_BORDER_WHITE to 110.7 (was 105)
- setting MIN_BORDER_WHITE to 72.0 (was 85)
- setting MAX_CSF to 51.7 (was 40)
- setting MAX_GRAY to 93.3 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 61.9 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 41.6 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.81 +- 0.25 (0.03-->5.62) (max @ vno 41855 --> 52144)
- face area 0.27 +- 0.14 (0.00-->5.85)
- mean absolute distance = 0.65 +- 0.81
- 3822 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=102+-8.7, GM=72+-6.1
- mean inside = 93.0, mean outside = 76.3
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- mean border=81.6, 301 (301) missing vertices, mean dist 0.2 [0.6 (%37.9)->0.7 (%62.1))]
- %72 local maxima, %22 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 0.89 +- 0.27 (0.03-->5.73) (max @ vno 41855 --> 52144)
- face area 0.27 +- 0.14 (0.00-->5.29)
- mean absolute distance = 0.37 +- 0.55
- 3910 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2594127.8, rms=8.379
- 001: dt: 0.5000, sse=1495255.6, rms=5.770 (31.143%)
- 002: dt: 0.5000, sse=1111286.5, rms=4.422 (23.361%)
- 003: dt: 0.5000, sse=965084.5, rms=3.804 (13.980%)
- 004: dt: 0.5000, sse=902894.1, rms=3.512 (7.663%)
- 005: dt: 0.5000, sse=878662.6, rms=3.378 (3.817%)
- 006: dt: 0.5000, sse=863832.9, rms=3.304 (2.192%)
- rms = 3.27, time step reduction 1 of 3 to 0.250...
- 007: dt: 0.5000, sse=863070.2, rms=3.274 (0.912%)
- 008: dt: 0.2500, sse=727426.4, rms=2.337 (28.629%)
- 009: dt: 0.2500, sse=698040.1, rms=2.095 (10.358%)
- rms = 2.05, time step reduction 2 of 3 to 0.125...
- 010: dt: 0.2500, sse=693159.5, rms=2.050 (2.119%)
- 011: dt: 0.1250, sse=686558.6, rms=1.996 (2.635%)
- rms = 1.99, time step reduction 3 of 3 to 0.062...
- 012: dt: 0.1250, sse=686173.8, rms=1.990 (0.318%)
- positioning took 1.3 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=84.9, 249 (95) missing vertices, mean dist -0.2 [0.4 (%75.1)->0.3 (%24.9))]
- %83 local maxima, %11 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 +- 0.27 (0.09-->5.67) (max @ vno 41855 --> 52144)
- face area 0.33 +- 0.17 (0.00-->6.78)
- mean absolute distance = 0.26 +- 0.38
- 3868 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1253677.5, rms=4.461
- 013: dt: 0.5000, sse=948499.9, rms=2.868 (35.696%)
- rms = 2.93, time step reduction 1 of 3 to 0.250...
- 014: dt: 0.2500, sse=851385.1, rms=2.290 (20.148%)
- 015: dt: 0.2500, sse=806170.1, rms=1.914 (16.453%)
- 016: dt: 0.2500, sse=795726.5, rms=1.766 (7.696%)
- rms = 1.72, time step reduction 2 of 3 to 0.125...
- 017: dt: 0.2500, sse=788819.3, rms=1.719 (2.674%)
- rms = 1.67, time step reduction 3 of 3 to 0.062...
- 018: dt: 0.1250, sse=782337.2, rms=1.671 (2.790%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=86.6, 278 (64) missing vertices, mean dist -0.1 [0.3 (%65.3)->0.2 (%34.7))]
- %88 local maxima, % 7 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.88 +- 0.27 (0.09-->5.58) (max @ vno 41855 --> 52144)
- face area 0.32 +- 0.17 (0.00-->6.75)
- mean absolute distance = 0.23 +- 0.33
- 3308 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=897526.2, rms=2.732
- 019: dt: 0.5000, sse=884461.6, rms=2.518 (7.810%)
- rms = 2.79, time step reduction 1 of 3 to 0.250...
- 020: dt: 0.2500, sse=794124.9, rms=1.881 (25.296%)
- 021: dt: 0.2500, sse=768843.8, rms=1.611 (14.349%)
- 022: dt: 0.2500, sse=774989.6, rms=1.558 (3.311%)
- rms = 1.55, time step reduction 2 of 3 to 0.125...
- 023: dt: 0.2500, sse=781992.4, rms=1.552 (0.352%)
- rms = 1.51, time step reduction 3 of 3 to 0.062...
- 024: dt: 0.1250, sse=757646.4, rms=1.510 (2.763%)
- positioning took 0.7 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- mean border=87.2, 357 (46) missing vertices, mean dist -0.0 [0.2 (%54.0)->0.2 (%46.0))]
- %89 local maxima, % 6 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=768535.2, rms=1.694
- 025: dt: 0.5000, sse=770753.4, rms=1.642 (3.048%)
- rms = 2.41, time step reduction 1 of 3 to 0.250...
- 026: dt: 0.2500, sse=729075.9, rms=1.245 (24.195%)
- rms = 1.25, time step reduction 2 of 3 to 0.125...
- rms = 1.21, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=725656.4, rms=1.212 (2.615%)
- positioning took 0.5 minutes
- generating cortex label...
- 12 non-cortical segments detected
- only using segment with 8271 vertices
- erasing segment 1 (vno[0] = 55077)
- erasing segment 2 (vno[0] = 80379)
- erasing segment 3 (vno[0] = 91230)
- erasing segment 4 (vno[0] = 95168)
- erasing segment 5 (vno[0] = 97325)
- erasing segment 6 (vno[0] = 99430)
- erasing segment 7 (vno[0] = 100465)
- erasing segment 8 (vno[0] = 102306)
- erasing segment 9 (vno[0] = 103750)
- erasing segment 10 (vno[0] = 105689)
- erasing segment 11 (vno[0] = 109031)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.area
- vertex spacing 0.88 +- 0.27 (0.04-->5.57) (max @ vno 41855 --> 52144)
- face area 0.32 +- 0.17 (0.00-->6.58)
- refinement took 5.2 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051348 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-6.0.0/0051348/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- 34293 bright wm thresholded.
- 656 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.orig...
- computing class statistics...
- border white: 276628 voxels (1.65%)
- border gray 335243 voxels (2.00%)
- WM (96.0): 96.6 +- 8.7 [70.0 --> 110.0]
- GM (73.0) : 72.5 +- 10.1 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 62.9 (was 70)
- setting MAX_BORDER_WHITE to 108.7 (was 105)
- setting MIN_BORDER_WHITE to 73.0 (was 85)
- setting MAX_CSF to 52.7 (was 40)
- setting MAX_GRAY to 91.3 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 62.9 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 42.6 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.80 +- 0.24 (0.02-->4.80) (max @ vno 74884 --> 86646)
- face area 0.27 +- 0.14 (0.00-->3.84)
- mean absolute distance = 0.65 +- 0.83
- 4031 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=100+-7.8, GM=73+-6.1
- mean inside = 92.5, mean outside = 76.6
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- mean border=82.2, 202 (202) missing vertices, mean dist 0.2 [0.6 (%39.9)->0.7 (%60.1))]
- %71 local maxima, %24 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 0.89 +- 0.26 (0.04-->5.98) (max @ vno 35333 --> 143154)
- face area 0.27 +- 0.14 (0.00-->3.23)
- mean absolute distance = 0.37 +- 0.56
- 4218 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2377997.2, rms=7.900
- 001: dt: 0.5000, sse=1386108.2, rms=5.430 (31.271%)
- 002: dt: 0.5000, sse=1047858.4, rms=4.199 (22.677%)
- 003: dt: 0.5000, sse=933180.9, rms=3.646 (13.165%)
- 004: dt: 0.5000, sse=882892.8, rms=3.403 (6.654%)
- 005: dt: 0.5000, sse=869807.1, rms=3.293 (3.237%)
- 006: dt: 0.5000, sse=853364.4, rms=3.237 (1.697%)
- rms = 3.19, time step reduction 1 of 3 to 0.250...
- 007: dt: 0.5000, sse=843710.1, rms=3.195 (1.313%)
- 008: dt: 0.2500, sse=714812.8, rms=2.291 (28.292%)
- 009: dt: 0.2500, sse=690878.7, rms=2.057 (10.189%)
- rms = 2.02, time step reduction 2 of 3 to 0.125...
- 010: dt: 0.2500, sse=702278.2, rms=2.016 (2.021%)
- rms = 1.97, time step reduction 3 of 3 to 0.062...
- 011: dt: 0.1250, sse=680809.0, rms=1.968 (2.364%)
- positioning took 1.2 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- mean border=85.2, 241 (46) missing vertices, mean dist -0.2 [0.4 (%73.4)->0.3 (%26.6))]
- %82 local maxima, %14 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.88 +- 0.26 (0.01-->6.23) (max @ vno 35333 --> 143154)
- face area 0.33 +- 0.17 (0.00-->3.51)
- mean absolute distance = 0.27 +- 0.40
- 3686 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1170159.5, rms=4.138
- 012: dt: 0.5000, sse=924853.6, rms=2.799 (32.345%)
- rms = 2.84, time step reduction 1 of 3 to 0.250...
- 013: dt: 0.2500, sse=837667.1, rms=2.256 (19.410%)
- 014: dt: 0.2500, sse=804004.9, rms=1.906 (15.518%)
- 015: dt: 0.2500, sse=786238.7, rms=1.779 (6.655%)
- rms = 1.73, time step reduction 2 of 3 to 0.125...
- 016: dt: 0.2500, sse=783844.8, rms=1.730 (2.753%)
- rms = 1.68, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=782531.1, rms=1.684 (2.676%)
- positioning took 0.7 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=86.8, 238 (23) missing vertices, mean dist -0.1 [0.3 (%63.5)->0.2 (%36.5))]
- %86 local maxima, % 9 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 (0.04-->6.25) (max @ vno 35333 --> 143154)
- face area 0.32 +- 0.17 (0.00-->3.64)
- mean absolute distance = 0.24 +- 0.35
- 3828 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=878056.4, rms=2.582
- 018: dt: 0.5000, sse=872984.1, rms=2.436 (5.660%)
- rms = 2.65, time step reduction 1 of 3 to 0.250...
- 019: dt: 0.2500, sse=794855.9, rms=1.869 (23.274%)
- 020: dt: 0.2500, sse=771151.7, rms=1.620 (13.316%)
- rms = 1.57, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=762816.8, rms=1.575 (2.793%)
- rms = 1.53, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=751332.1, rms=1.532 (2.714%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=87.4, 325 (18) missing vertices, mean dist -0.0 [0.3 (%53.3)->0.2 (%46.7))]
- %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-6.0.0/0051348/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=760450.4, rms=1.685
- 023: dt: 0.5000, sse=765409.2, rms=1.604 (4.785%)
- rms = 2.31, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=728589.2, rms=1.253 (21.906%)
- rms = 1.26, time step reduction 2 of 3 to 0.125...
- rms = 1.22, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=719645.2, rms=1.223 (2.342%)
- positioning took 0.5 minutes
- generating cortex label...
- 10 non-cortical segments detected
- only using segment with 7425 vertices
- erasing segment 1 (vno[0] = 54668)
- erasing segment 2 (vno[0] = 74790)
- erasing segment 3 (vno[0] = 78775)
- erasing segment 4 (vno[0] = 96968)
- erasing segment 5 (vno[0] = 98092)
- erasing segment 6 (vno[0] = 100203)
- erasing segment 7 (vno[0] = 103185)
- erasing segment 8 (vno[0] = 106167)
- erasing segment 9 (vno[0] = 106209)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.area
- vertex spacing 0.88 +- 0.27 (0.04-->6.49) (max @ vno 35333 --> 143154)
- face area 0.32 +- 0.16 (0.00-->3.43)
- refinement took 4.8 minutes
- PIDs (3867 3870) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Sun Oct 8 00:28:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Sun Oct 8 00:28:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 4165 of (4165 4168) to complete...
- Waiting for PID 4168 of (4165 4168) 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 (4165 4168) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Sun Oct 8 00:28:26 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Sun Oct 8 00:28:26 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 4209 of (4209 4212) to complete...
- Waiting for PID 4212 of (4209 4212) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 47.3 mm, total surface area = 84438 mm^2
- writing inflated surface to ../surf/lh.inflated
- writing sulcal depths to ../surf/lh.sulc
-
step 000: RMS=0.188 (target=0.015)
step 005: RMS=0.132 (target=0.015)
step 010: RMS=0.103 (target=0.015)
step 015: RMS=0.086 (target=0.015)
step 020: RMS=0.074 (target=0.015)
step 025: RMS=0.063 (target=0.015)
step 030: RMS=0.054 (target=0.015)
step 035: RMS=0.047 (target=0.015)
step 040: RMS=0.041 (target=0.015)
step 045: RMS=0.036 (target=0.015)
step 050: RMS=0.033 (target=0.015)
step 055: RMS=0.031 (target=0.015)
step 060: RMS=0.029 (target=0.015)
- inflation complete.
- inflation took 0.8 minutes
- mris_inflate utimesec 47.679751
- mris_inflate stimesec 0.120981
- mris_inflate ru_maxrss 215248
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 31393
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 11424
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2066
- mris_inflate ru_nivcsw 3590
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 46.3 mm, total surface area = 83700 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.188 (target=0.015)
step 005: RMS=0.131 (target=0.015)
step 010: RMS=0.103 (target=0.015)
step 015: RMS=0.088 (target=0.015)
step 020: RMS=0.077 (target=0.015)
step 025: RMS=0.066 (target=0.015)
step 030: RMS=0.056 (target=0.015)
step 035: RMS=0.047 (target=0.015)
step 040: RMS=0.042 (target=0.015)
step 045: RMS=0.038 (target=0.015)
step 050: RMS=0.035 (target=0.015)
step 055: RMS=0.031 (target=0.015)
step 060: RMS=0.029 (target=0.015)
- inflation complete.
- inflation took 1.0 minutes
- mris_inflate utimesec 63.951277
- mris_inflate stimesec 0.106983
- mris_inflate ru_maxrss 214468
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 31197
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 11408
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2125
- mris_inflate ru_nivcsw 3649
- PIDs (4209 4212) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Sun Oct 8 00:29:27 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf
- mris_curvature -w lh.white.preaparc
- rm -f lh.white.H
- ln -s lh.white.preaparc.H lh.white.H
- rm -f lh.white.K
- ln -s lh.white.preaparc.K lh.white.K
- mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated
- #--------------------------------------------
- #@# Curv .H and .K rh Sun Oct 8 00:29:27 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 4311 of (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) to complete...
- Waiting for PID 4314 of (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) to complete...
- Waiting for PID 4317 of (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) to complete...
- Waiting for PID 4320 of (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) to complete...
- Waiting for PID 4323 of (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) to complete...
- Waiting for PID 4326 of (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) to complete...
- Waiting for PID 4329 of (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) to complete...
- Waiting for PID 4332 of (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) to complete...
- Waiting for PID 4335 of (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) to complete...
- Waiting for PID 4338 of (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) to complete...
- Waiting for PID 4341 of (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) to complete...
- Waiting for PID 4345 of (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = 31.185*4pi (391.885) --> -30 handles
- ICI = 266.7, FI = 2345.5, variation=38079.671
- 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
- 168 vertices thresholded to be in k1 ~ [-0.52 0.37], k2 ~ [-0.15 0.10]
- total integrated curvature = 0.381*4pi (4.787) --> 1 handles
- ICI = 1.4, FI = 11.2, variation=181.055
- 158 vertices thresholded to be in [-0.03 0.03]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 126 vertices thresholded to be in [-0.21 0.11]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.018, std = 0.024
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = 23.705*4pi (297.882) --> -23 handles
- ICI = 266.7, FI = 2247.7, variation=37002.831
- 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
- 179 vertices thresholded to be in k1 ~ [-0.38 0.27], k2 ~ [-0.18 0.10]
- total integrated curvature = 0.294*4pi (3.693) --> 1 handles
- ICI = 1.4, FI = 11.4, variation=187.106
- 160 vertices thresholded to be in [-0.02 0.03]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 127 vertices thresholded to be in [-0.18 0.12]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.018, std = 0.025
- done.
- PIDs (4311 4314 4317 4320 4323 4326 4329 4332 4335 4338 4341 4345) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Sun Oct 8 00:31:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0051348 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 [ 0051348/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 [ 299 ]
- Gb_filter = 0
- WARN: S lookup min: -0.304746
- WARN: S explicit min: 0.000000 vertex = 49
- #-----------------------------------------
- #@# Curvature Stats rh Sun Oct 8 00:31:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0051348 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 [ 0051348/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 [ 290 ]
- Gb_filter = 0
- WARN: S lookup min: -0.113278
- WARN: S explicit min: 0.000000 vertex = 55
- #--------------------------------------------
- #@# Sphere lh Sun Oct 8 00:31:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Sun Oct 8 00:31:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 4702 of (4702 4706) to complete...
- Waiting for PID 4706 of (4702 4706) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0.276...
- 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 %19.87
- pass 1: epoch 2 of 3 starting distance error %19.84
- unfolding complete - removing small folds...
- starting distance error %19.72
- removing remaining folds...
- final distance error %19.75
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 497 negative triangles
- 200: dt=0.9900, 497 negative triangles
- 201: dt=0.9900, 249 negative triangles
- 202: dt=0.9900, 150 negative triangles
- 203: dt=0.9900, 128 negative triangles
- 204: dt=0.9900, 105 negative triangles
- 205: dt=0.9900, 109 negative triangles
- 206: dt=0.9900, 94 negative triangles
- 207: dt=0.9900, 109 negative triangles
- 208: dt=0.9900, 98 negative triangles
- 209: dt=0.9900, 75 negative triangles
- 210: dt=0.9900, 77 negative triangles
- 211: dt=0.9900, 80 negative triangles
- 212: dt=0.9900, 65 negative triangles
- 213: dt=0.9900, 58 negative triangles
- 214: dt=0.9900, 49 negative triangles
- 215: dt=0.9900, 45 negative triangles
- 216: dt=0.9900, 36 negative triangles
- 217: dt=0.9900, 41 negative triangles
- 218: dt=0.9900, 37 negative triangles
- 219: dt=0.9900, 33 negative triangles
- 220: dt=0.9900, 31 negative triangles
- 221: dt=0.9900, 27 negative triangles
- 222: dt=0.9900, 24 negative triangles
- 223: dt=0.9900, 24 negative triangles
- 224: dt=0.9900, 23 negative triangles
- 225: dt=0.9900, 16 negative triangles
- 226: dt=0.9900, 16 negative triangles
- 227: dt=0.9900, 18 negative triangles
- 228: dt=0.9900, 19 negative triangles
- 229: dt=0.9900, 7 negative triangles
- 230: dt=0.9900, 9 negative triangles
- 231: dt=0.9900, 4 negative triangles
- 232: dt=0.9900, 4 negative triangles
- 233: dt=0.9900, 5 negative triangles
- 234: dt=0.9900, 3 negative triangles
- 235: dt=0.9900, 1 negative triangles
- 236: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 1.08 hours
- mris_sphere utimesec 3874.372005
- mris_sphere stimesec 1.644749
- mris_sphere ru_maxrss 300416
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 52819
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10312
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 135768
- mris_sphere ru_nivcsw 318891
- FSRUNTIME@ mris_sphere 1.0760 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0.280...
- 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 %20.01
- pass 1: epoch 2 of 3 starting distance error %19.95
- unfolding complete - removing small folds...
- starting distance error %19.81
- removing remaining folds...
- final distance error %19.85
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 288 negative triangles
- 293: dt=0.9900, 288 negative triangles
- 294: dt=0.9900, 111 negative triangles
- 295: dt=0.9900, 94 negative triangles
- 296: dt=0.9900, 80 negative triangles
- 297: dt=0.9900, 63 negative triangles
- 298: dt=0.9900, 68 negative triangles
- 299: dt=0.9900, 65 negative triangles
- 300: dt=0.9900, 64 negative triangles
- 301: dt=0.9900, 52 negative triangles
- 302: dt=0.9900, 59 negative triangles
- 303: dt=0.9900, 48 negative triangles
- 304: dt=0.9900, 54 negative triangles
- 305: dt=0.9900, 52 negative triangles
- 306: dt=0.9900, 46 negative triangles
- 307: dt=0.9900, 44 negative triangles
- 308: dt=0.9900, 42 negative triangles
- 309: dt=0.9900, 41 negative triangles
- 310: dt=0.9900, 38 negative triangles
- 311: dt=0.9900, 43 negative triangles
- 312: dt=0.9900, 39 negative triangles
- 313: dt=0.9900, 37 negative triangles
- 314: dt=0.9900, 38 negative triangles
- 315: dt=0.9900, 31 negative triangles
- 316: dt=0.9900, 35 negative triangles
- 317: dt=0.9900, 34 negative triangles
- 318: dt=0.9900, 26 negative triangles
- 319: dt=0.9900, 31 negative triangles
- 320: dt=0.9900, 26 negative triangles
- 321: dt=0.9900, 22 negative triangles
- 322: dt=0.9900, 22 negative triangles
- 323: dt=0.9900, 15 negative triangles
- 324: dt=0.9900, 17 negative triangles
- 325: dt=0.9900, 16 negative triangles
- 326: dt=0.9900, 19 negative triangles
- 327: dt=0.9900, 12 negative triangles
- 328: dt=0.9900, 18 negative triangles
- 329: dt=0.9900, 16 negative triangles
- 330: dt=0.9900, 16 negative triangles
- 331: dt=0.9900, 16 negative triangles
- 332: dt=0.9900, 17 negative triangles
- 333: dt=0.9900, 16 negative triangles
- 334: dt=0.9900, 10 negative triangles
- 335: dt=0.9900, 10 negative triangles
- 336: dt=0.9900, 11 negative triangles
- 337: dt=0.9900, 6 negative triangles
- 338: dt=0.9900, 8 negative triangles
- 339: dt=0.9900, 10 negative triangles
- 340: dt=0.9900, 8 negative triangles
- 341: dt=0.9900, 7 negative triangles
- 342: dt=0.9900, 9 negative triangles
- 343: dt=0.9900, 5 negative triangles
- 344: dt=0.9900, 5 negative triangles
- 345: dt=0.9900, 2 negative triangles
- 346: dt=0.9900, 4 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 1.15 hours
- mris_sphere utimesec 4302.337945
- mris_sphere stimesec 1.346795
- mris_sphere ru_maxrss 299540
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 53112
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10288
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 150372
- mris_sphere ru_nivcsw 314300
- FSRUNTIME@ mris_sphere 1.1499 hours 1 threads
- PIDs (4702 4706) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Sun Oct 8 01:40:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 01:40:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 10574 of (10574 10577) to complete...
- Waiting for PID 10577 of (10574 10577) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 = 5.397
- curvature mean = 0.042, std = 0.822
- curvature mean = 0.024, std = 0.863
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (16.00, 0.00, 16.00) sse = 349481.3, tmin=1.1258
- d=32.00 min @ (-8.00, 0.00, 8.00) sse = 255635.6, tmin=2.2899
- d=16.00 min @ (4.00, 4.00, -4.00) sse = 230553.5, tmin=3.4594
- d=8.00 min @ (-2.00, 0.00, 2.00) sse = 214545.4, tmin=4.6626
- d=1.00 min @ (0.25, 0.25, -0.25) sse = 214239.8, tmin=8.2937
- d=0.50 min @ (0.00, -0.12, 0.00) sse = 214222.4, tmin=9.4774
- tol=1.0e+00, sigma=0.5, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
- using quadratic fit line minimization
- MRISrigidBodyAlignGlobal() done 9.48 min
- curvature mean = -0.003, std = 0.836
- curvature mean = 0.008, std = 0.948
- curvature mean = -0.009, std = 0.845
- curvature mean = 0.003, std = 0.979
- curvature mean = -0.010, std = 0.847
- curvature mean = 0.000, std = 0.992
- 2 Reading smoothwm
- curvature mean = -0.042, std = 0.410
- curvature mean = 0.036, std = 0.249
- curvature mean = 0.076, std = 0.244
- curvature mean = 0.028, std = 0.307
- curvature mean = 0.051, std = 0.378
- curvature mean = 0.027, std = 0.334
- curvature mean = 0.031, std = 0.494
- curvature mean = 0.027, std = 0.345
- curvature mean = 0.012, std = 0.605
- MRISregister() return, current seed 0
- -01: dt=0.0000, 162 negative triangles
- 114: dt=0.9900, 162 negative triangles
- expanding nbhd size to 1
- 115: dt=0.9900, 222 negative triangles
- 116: dt=0.9900, 151 negative triangles
- 117: dt=0.9900, 139 negative triangles
- 118: dt=0.9900, 145 negative triangles
- 119: dt=0.9900, 142 negative triangles
- 120: dt=0.9900, 132 negative triangles
- 121: dt=0.9900, 114 negative triangles
- 122: dt=0.9900, 108 negative triangles
- 123: dt=0.9900, 89 negative triangles
- 124: dt=0.9900, 82 negative triangles
- 125: dt=0.9900, 75 negative triangles
- 126: dt=0.9900, 72 negative triangles
- 127: dt=0.9900, 65 negative triangles
- 128: dt=0.9900, 61 negative triangles
- 129: dt=0.9900, 55 negative triangles
- 130: dt=0.9900, 53 negative triangles
- 131: dt=0.9900, 47 negative triangles
- 132: dt=0.9900, 42 negative triangles
- 133: dt=0.9900, 35 negative triangles
- 134: dt=0.9900, 27 negative triangles
- 135: dt=0.9900, 29 negative triangles
- 136: dt=0.9900, 29 negative triangles
- 137: dt=0.9900, 28 negative triangles
- 138: dt=0.9900, 25 negative triangles
- 139: dt=0.9900, 18 negative triangles
- 140: dt=0.9900, 20 negative triangles
- 141: dt=0.9900, 21 negative triangles
- 142: dt=0.9900, 19 negative triangles
- 143: dt=0.9900, 17 negative triangles
- 144: dt=0.9900, 15 negative triangles
- 145: dt=0.9900, 18 negative triangles
- 146: dt=0.9900, 22 negative triangles
- 147: dt=0.9900, 16 negative triangles
- 148: dt=0.9900, 16 negative triangles
- 149: dt=0.9900, 15 negative triangles
- 150: dt=0.9900, 11 negative triangles
- 151: dt=0.9900, 9 negative triangles
- 152: dt=0.9900, 9 negative triangles
- 153: dt=0.9900, 7 negative triangles
- 154: dt=0.9900, 6 negative triangles
- 155: dt=0.9900, 8 negative triangles
- 156: dt=0.9900, 5 negative triangles
- 157: dt=0.9900, 5 negative triangles
- 158: dt=0.9900, 3 negative triangles
- 159: dt=0.9900, 3 negative triangles
- 160: dt=0.9900, 3 negative triangles
- 161: dt=0.9900, 2 negative triangles
- 162: dt=0.9900, 1 negative triangles
- 163: dt=0.9900, 1 negative triangles
- 164: dt=0.9900, 1 negative triangles
- 165: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 1.10 hours
- mris_register utimesec 3959.446072
- mris_register stimesec 2.863564
- mris_register ru_maxrss 268916
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 39473
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 10264
- mris_register ru_oublock 10352
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 283323
- mris_register ru_nivcsw 187665
- FSRUNTIME@ mris_register 1.1001 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 = 5.530
- curvature mean = 0.037, std = 0.806
- curvature mean = 0.023, std = 0.865
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (16.00, 0.00, 32.00) sse = 330577.3, tmin=1.7733
- d=32.00 min @ (-8.00, -8.00, 0.00) sse = 325806.0, tmin=3.5554
- d=16.00 min @ (4.00, 4.00, -4.00) sse = 283991.1, tmin=5.2201
- d=8.00 min @ (0.00, 0.00, 2.00) sse = 283094.7, tmin=6.8810
- d=4.00 min @ (0.00, 0.00, -1.00) sse = 282233.6, tmin=8.5878
- d=2.00 min @ (-0.50, 0.00, 0.00) sse = 281958.2, tmin=10.2638
- d=1.00 min @ (0.25, 0.25, 0.00) sse = 281944.8, tmin=11.9313
- d=0.50 min @ (-0.12, -0.12, 0.12) sse = 281916.7, tmin=13.4244
- 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 13.42 min
- curvature mean = 0.010, std = 0.830
- curvature mean = 0.008, std = 0.950
- curvature mean = 0.006, std = 0.841
- curvature mean = 0.003, std = 0.979
- curvature mean = 0.005, std = 0.843
- curvature mean = 0.001, std = 0.992
- 2 Reading smoothwm
- curvature mean = -0.041, std = 0.399
- curvature mean = 0.034, std = 0.241
- curvature mean = 0.075, std = 0.251
- curvature mean = 0.027, std = 0.300
- curvature mean = 0.050, std = 0.385
- curvature mean = 0.026, std = 0.326
- curvature mean = 0.030, std = 0.506
- curvature mean = 0.026, std = 0.338
- curvature mean = 0.010, std = 0.654
- MRISregister() return, current seed 0
- -01: dt=0.0000, 182 negative triangles
- 121: dt=0.9900, 182 negative triangles
- expanding nbhd size to 1
- 122: dt=0.9900, 232 negative triangles
- 123: dt=0.9900, 166 negative triangles
- 124: dt=0.9900, 170 negative triangles
- 125: dt=0.9900, 164 negative triangles
- 126: dt=0.9900, 159 negative triangles
- 127: dt=0.9900, 156 negative triangles
- 128: dt=0.9900, 152 negative triangles
- 129: dt=0.9900, 144 negative triangles
- 130: dt=0.9900, 130 negative triangles
- 131: dt=0.9900, 126 negative triangles
- 132: dt=0.9900, 127 negative triangles
- 133: dt=0.9900, 133 negative triangles
- 134: dt=0.9900, 116 negative triangles
- 135: dt=0.9900, 110 negative triangles
- 136: dt=0.9900, 112 negative triangles
- 137: dt=0.9900, 98 negative triangles
- 138: dt=0.9900, 94 negative triangles
- 139: dt=0.9900, 97 negative triangles
- 140: dt=0.9900, 91 negative triangles
- 141: dt=0.9900, 90 negative triangles
- 142: dt=0.9900, 85 negative triangles
- 143: dt=0.9900, 87 negative triangles
- 144: dt=0.9900, 80 negative triangles
- 145: dt=0.9900, 75 negative triangles
- 146: dt=0.9900, 75 negative triangles
- 147: dt=0.9900, 68 negative triangles
- 148: dt=0.9900, 70 negative triangles
- 149: dt=0.9900, 67 negative triangles
- 150: dt=0.9900, 64 negative triangles
- 151: dt=0.9900, 61 negative triangles
- 152: dt=0.9900, 59 negative triangles
- 153: dt=0.9900, 65 negative triangles
- 154: dt=0.9900, 59 negative triangles
- 155: dt=0.9900, 59 negative triangles
- 156: dt=0.9900, 58 negative triangles
- 157: dt=0.9900, 53 negative triangles
- 158: dt=0.9900, 53 negative triangles
- 159: dt=0.9900, 51 negative triangles
- 160: dt=0.9900, 51 negative triangles
- 161: dt=0.9900, 47 negative triangles
- 162: dt=0.9900, 49 negative triangles
- 163: dt=0.9900, 41 negative triangles
- 164: dt=0.9900, 36 negative triangles
- 165: dt=0.9900, 43 negative triangles
- 166: dt=0.9900, 37 negative triangles
- 167: dt=0.9900, 30 negative triangles
- 168: dt=0.9900, 26 negative triangles
- 169: dt=0.9900, 28 negative triangles
- 170: dt=0.9900, 29 negative triangles
- 171: dt=0.9900, 23 negative triangles
- 172: dt=0.9900, 21 negative triangles
- 173: dt=0.9900, 21 negative triangles
- 174: dt=0.9900, 14 negative triangles
- 175: dt=0.9900, 11 negative triangles
- 176: dt=0.9900, 12 negative triangles
- 177: dt=0.9900, 14 negative triangles
- 178: dt=0.9900, 10 negative triangles
- 179: dt=0.9900, 8 negative triangles
- 180: dt=0.9900, 6 negative triangles
- 181: dt=0.9900, 9 negative triangles
- 182: dt=0.9900, 4 negative triangles
- 183: dt=0.9900, 5 negative triangles
- 184: dt=0.9900, 4 negative triangles
- 185: dt=0.9900, 4 negative triangles
- 186: dt=0.9900, 3 negative triangles
- 187: dt=0.9900, 6 negative triangles
- 188: dt=0.9900, 3 negative triangles
- 189: dt=0.9900, 4 negative triangles
- 190: dt=0.9900, 2 negative triangles
- 191: dt=0.9900, 4 negative triangles
- 192: dt=0.9900, 2 negative triangles
- 193: dt=0.9900, 1 negative triangles
- 194: dt=0.9900, 2 negative triangles
- 195: dt=0.9900, 2 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- registration took 1.88 hours
- mris_register utimesec 8524.866023
- mris_register stimesec 3.690438
- mris_register ru_maxrss 269536
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 38253
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 0
- mris_register ru_oublock 10352
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 260532
- mris_register ru_nivcsw 239105
- FSRUNTIME@ mris_register 1.8789 hours 1 threads
- PIDs (10574 10577) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Sun Oct 8 03:33:09 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Sun Oct 8 03:33:09 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 17075 of (17075 17078) to complete...
- Waiting for PID 17078 of (17075 17078) 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 (17075 17078) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Sun Oct 8 03:33:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 03:33:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 17119 of (17119 17122) to complete...
- Waiting for PID 17122 of (17119 17122) 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 (17119 17122) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Sun Oct 8 03:33:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051348 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 03:33:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051348 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 17165 of (17165 17168) to complete...
- Waiting for PID 17168 of (17165 17168) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051348 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...
- 2010 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3488 changed, 145874 examined...
- 001: 774 changed, 14441 examined...
- 002: 196 changed, 4263 examined...
- 003: 83 changed, 1167 examined...
- 004: 22 changed, 511 examined...
- 005: 6 changed, 142 examined...
- 006: 1 changed, 35 examined...
- 007: 1 changed, 7 examined...
- 008: 1 changed, 5 examined...
- 009: 0 changed, 8 examined...
- 302 labels changed using aseg
- 000: 158 total segments, 115 labels (487 vertices) changed
- 001: 41 total segments, 1 labels (3 vertices) changed
- 002: 40 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 17 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 2035 vertices marked for relabeling...
- 2035 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 17 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051348 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...
- 1297 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2958 changed, 145578 examined...
- 001: 712 changed, 12719 examined...
- 002: 205 changed, 4034 examined...
- 003: 72 changed, 1225 examined...
- 004: 32 changed, 429 examined...
- 005: 14 changed, 171 examined...
- 006: 6 changed, 77 examined...
- 007: 4 changed, 26 examined...
- 008: 2 changed, 21 examined...
- 009: 1 changed, 14 examined...
- 010: 1 changed, 9 examined...
- 011: 0 changed, 7 examined...
- 198 labels changed using aseg
- 000: 117 total segments, 80 labels (361 vertices) changed
- 001: 40 total segments, 3 labels (6 vertices) changed
- 002: 37 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 9 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1846 vertices marked for relabeling...
- 1846 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 16 seconds.
- PIDs (17165 17168) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Sun Oct 8 03:33:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051348 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Sun Oct 8 03:33:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051348 rh
- Waiting for PID 17210 of (17210 17213) to complete...
- Waiting for PID 17213 of (17210 17213) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051348 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-6.0.0/0051348/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- 34293 bright wm thresholded.
- 656 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.orig...
- computing class statistics...
- border white: 276628 voxels (1.65%)
- border gray 335243 voxels (2.00%)
- WM (96.0): 96.6 +- 8.7 [70.0 --> 110.0]
- GM (73.0) : 72.5 +- 10.1 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 61.9 (was 70)
- setting MAX_BORDER_WHITE to 110.7 (was 105)
- setting MIN_BORDER_WHITE to 72.0 (was 85)
- setting MAX_CSF to 51.7 (was 40)
- setting MAX_GRAY to 93.3 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 61.9 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 41.6 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=102+-8.7, GM=72+-6.1
- mean inside = 93.0, mean outside = 76.3
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.88 +- 0.27 (0.04-->5.57) (max @ vno 41855 --> 52144)
- face area 0.32 +- 0.17 (0.00-->6.60)
- mean absolute distance = 0.61 +- 0.80
- 3617 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 14 points - only 0.00% unknown
- deleting segment 4 with 336 points - only 0.00% unknown
- deleting segment 5 with 47 points - only 0.00% unknown
- deleting segment 6 with 119 points - only 3.36% unknown
- deleting segment 7 with 9 points - only 0.00% unknown
- deleting segment 8 with 77 points - only 0.00% unknown
- deleting segment 9 with 70 points - only 0.00% unknown
- deleting segment 10 with 5 points - only 0.00% unknown
- deleting segment 11 with 12 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 12 with 2 points - only 0.00% unknown
- mean border=81.4, 389 (389) missing vertices, mean dist 0.4 [0.9 (%12.3)->0.6 (%87.7))]
- %71 local maxima, %24 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 +- 0.28 (0.04-->5.51) (max @ vno 144523 --> 99492)
- face area 0.32 +- 0.17 (0.00-->6.09)
- mean absolute distance = 0.36 +- 0.55
- 3645 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2198188.2, rms=7.356
- 001: dt: 0.5000, sse=1208734.9, rms=4.308 (41.429%)
- 002: dt: 0.5000, sse=992092.4, rms=3.339 (22.513%)
- 003: dt: 0.5000, sse=972265.1, rms=3.236 (3.073%)
- 004: dt: 0.5000, sse=945914.4, rms=3.096 (4.314%)
- rms = 3.21, time step reduction 1 of 3 to 0.250...
- 005: dt: 0.2500, sse=846407.2, rms=2.426 (21.663%)
- 006: dt: 0.2500, sse=812834.5, rms=2.121 (12.566%)
- 007: dt: 0.2500, sse=806034.5, rms=2.045 (3.584%)
- rms = 2.02, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=804031.2, rms=2.022 (1.109%)
- rms = 1.98, time step reduction 3 of 3 to 0.062...
- 009: dt: 0.1250, sse=798708.2, rms=1.983 (1.957%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 6 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 2 with 135 points - only 0.00% unknown
- deleting segment 3 with 37 points - only 0.00% unknown
- deleting segment 5 with 8 points - only 0.00% unknown
- deleting segment 6 with 80 points - only 1.25% unknown
- deleting segment 7 with 6 points - only 0.00% unknown
- deleting segment 8 with 88 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 9 with 4 points - only 0.00% unknown
- deleting segment 10 with 26 points - only 0.00% unknown
- deleting segment 11 with 7 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 12 with 4 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 13 with 2 points - only 0.00% unknown
- mean border=84.8, 251 (90) missing vertices, mean dist -0.2 [0.4 (%76.1)->0.3 (%23.9))]
- %83 local maxima, %12 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 +- 0.28 (0.06-->5.66) (max @ vno 41855 --> 52144)
- face area 0.34 +- 0.18 (0.00-->6.99)
- mean absolute distance = 0.26 +- 0.38
- 3620 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1244423.8, rms=4.359
- 010: dt: 0.5000, sse=934223.2, rms=2.776 (36.303%)
- rms = 2.86, time step reduction 1 of 3 to 0.250...
- 011: dt: 0.2500, sse=849653.2, rms=2.189 (21.152%)
- 012: dt: 0.2500, sse=812410.2, rms=1.812 (17.228%)
- 013: dt: 0.2500, sse=797293.2, rms=1.677 (7.441%)
- rms = 1.64, time step reduction 2 of 3 to 0.125...
- 014: dt: 0.2500, sse=799410.2, rms=1.641 (2.168%)
- rms = 1.60, time step reduction 3 of 3 to 0.062...
- 015: dt: 0.1250, sse=796795.0, rms=1.598 (2.616%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 7 points - only 0.00% unknown
- deleting segment 1 with 173 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 53 points - only 0.00% unknown
- deleting segment 4 with 11 points - only 0.00% unknown
- deleting segment 5 with 99 points - only 1.01% unknown
- deleting segment 6 with 7 points - only 0.00% unknown
- deleting segment 7 with 98 points - only 0.00% unknown
- deleting segment 8 with 68 points - only 0.00% unknown
- deleting segment 9 with 16 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 10 with 2 points - only 0.00% unknown
- mean border=86.5, 280 (62) missing vertices, mean dist -0.1 [0.3 (%65.6)->0.2 (%34.4))]
- %88 local maxima, % 7 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.88 +- 0.28 (0.02-->6.17) (max @ vno 144523 --> 99492)
- face area 0.33 +- 0.18 (0.00-->6.76)
- mean absolute distance = 0.23 +- 0.33
- 3273 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=910425.6, rms=2.700
- 016: dt: 0.5000, sse=892113.8, rms=2.480 (8.124%)
- rms = 2.74, time step reduction 1 of 3 to 0.250...
- 017: dt: 0.2500, sse=801667.6, rms=1.839 (25.866%)
- 018: dt: 0.2500, sse=781060.2, rms=1.564 (14.946%)
- rms = 1.52, time step reduction 2 of 3 to 0.125...
- 019: dt: 0.2500, sse=772629.4, rms=1.515 (3.110%)
- 020: dt: 0.1250, sse=762512.5, rms=1.462 (3.550%)
- rms = 1.46, time step reduction 3 of 3 to 0.062...
- 021: dt: 0.1250, sse=761136.9, rms=1.465 (-0.215%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 8 points - only 0.00% unknown
- deleting segment 1 with 224 points - only 0.00% unknown
- deleting segment 2 with 51 points - only 0.00% unknown
- deleting segment 3 with 13 points - only 0.00% unknown
- deleting segment 4 with 109 points - only 3.67% unknown
- deleting segment 5 with 7 points - only 0.00% unknown
- deleting segment 6 with 92 points - only 0.00% unknown
- deleting segment 7 with 85 points - only 0.00% unknown
- deleting segment 8 with 16 points - only 0.00% unknown
- deleting segment 9 with 6 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 10 with 2 points - only 0.00% unknown
- mean border=87.2, 356 (51) missing vertices, mean dist -0.0 [0.2 (%54.1)->0.2 (%45.9))]
- %90 local maxima, % 6 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=772832.8, rms=1.641
- rms = 1.61, time step reduction 1 of 3 to 0.250...
- 022: dt: 0.5000, sse=784003.3, rms=1.610 (1.883%)
- 023: dt: 0.2500, sse=750423.9, rms=1.412 (12.352%)
- 024: dt: 0.2500, sse=731587.2, rms=1.201 (14.948%)
- rms = 1.28, time step reduction 2 of 3 to 0.125...
- rms = 1.16, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=727564.8, rms=1.156 (3.733%)
- positioning took 0.5 minutes
- generating cortex label...
- 12 non-cortical segments detected
- only using segment with 8258 vertices
- erasing segment 0 (vno[0] = 21566)
- erasing segment 2 (vno[0] = 55077)
- erasing segment 3 (vno[0] = 80379)
- erasing segment 4 (vno[0] = 85465)
- erasing segment 5 (vno[0] = 88894)
- erasing segment 6 (vno[0] = 91230)
- erasing segment 7 (vno[0] = 100465)
- erasing segment 8 (vno[0] = 102306)
- erasing segment 9 (vno[0] = 103750)
- erasing segment 10 (vno[0] = 105689)
- erasing segment 11 (vno[0] = 109031)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.area
- vertex spacing 0.88 +- 0.28 (0.02-->6.57) (max @ vno 99492 --> 144523)
- face area 0.32 +- 0.17 (0.00-->6.56)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- deleting segment 0 with 1 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- deleting segment 3 with 1 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 4 with 3 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 9 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=60.3, 419 (419) missing vertices, mean dist 1.7 [0.3 (%0.0)->3.4 (%100.0))]
- %13 local maxima, %36 large gradients and %46 min vals, 302 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=22132696.0, rms=27.788
- 001: dt: 0.0500, sse=19361198.0, rms=25.930 (6.686%)
- 002: dt: 0.0500, sse=17414760.0, rms=24.541 (5.356%)
- 003: dt: 0.0500, sse=15956048.0, rms=23.446 (4.462%)
- 004: dt: 0.0500, sse=14805253.0, rms=22.545 (3.845%)
- 005: dt: 0.0500, sse=13860292.0, rms=21.776 (3.408%)
- 006: dt: 0.0500, sse=13060360.0, rms=21.104 (3.087%)
- 007: dt: 0.0500, sse=12367739.0, rms=20.504 (2.843%)
- 008: dt: 0.0500, sse=11757229.0, rms=19.960 (2.652%)
- 009: dt: 0.0500, sse=11212186.0, rms=19.462 (2.497%)
- 010: dt: 0.0500, sse=10720632.0, rms=19.001 (2.367%)
- positioning took 1.1 minutes
- mean border=60.2, 350 (220) missing vertices, mean dist 1.5 [0.1 (%0.1)->2.9 (%99.9))]
- %14 local maxima, %36 large gradients and %45 min vals, 277 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=11519686.0, rms=19.744
- 011: dt: 0.0500, sse=11068369.0, rms=19.328 (2.106%)
- 012: dt: 0.0500, sse=10655709.0, rms=18.940 (2.009%)
- 013: dt: 0.0500, sse=10276644.0, rms=18.576 (1.921%)
- 014: dt: 0.0500, sse=9927541.0, rms=18.234 (1.839%)
- 015: dt: 0.0500, sse=9605562.0, rms=17.913 (1.760%)
- 016: dt: 0.0500, sse=9307305.0, rms=17.611 (1.689%)
- 017: dt: 0.0500, sse=9030621.0, rms=17.325 (1.621%)
- 018: dt: 0.0500, sse=8773234.0, rms=17.055 (1.558%)
- 019: dt: 0.0500, sse=8533528.0, rms=16.800 (1.497%)
- 020: dt: 0.0500, sse=8310265.5, rms=16.559 (1.437%)
- positioning took 1.1 minutes
- mean border=60.1, 386 (167) missing vertices, mean dist 1.3 [0.1 (%0.7)->2.5 (%99.3))]
- %14 local maxima, %36 large gradients and %45 min vals, 268 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=8431804.0, rms=16.696
- 021: dt: 0.0500, sse=8219282.0, rms=16.465 (1.385%)
- 022: dt: 0.0500, sse=8020377.5, rms=16.245 (1.333%)
- 023: dt: 0.0500, sse=7833301.0, rms=16.036 (1.287%)
- 024: dt: 0.0500, sse=7657397.0, rms=15.837 (1.242%)
- 025: dt: 0.0500, sse=7491480.5, rms=15.646 (1.202%)
- 026: dt: 0.0500, sse=7334121.5, rms=15.464 (1.168%)
- 027: dt: 0.0500, sse=7184450.5, rms=15.288 (1.138%)
- 028: dt: 0.0500, sse=7041449.5, rms=15.118 (1.113%)
- 029: dt: 0.0500, sse=6903952.5, rms=14.952 (1.094%)
- 030: dt: 0.0500, sse=6772098.0, rms=14.792 (1.073%)
- positioning took 1.1 minutes
- mean border=60.0, 415 (137) missing vertices, mean dist 1.2 [0.1 (%3.5)->2.3 (%96.5))]
- %14 local maxima, %36 large gradients and %44 min vals, 249 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=6856944.0, rms=14.896
- 031: dt: 0.5000, sse=5888602.5, rms=13.670 (8.230%)
- 032: dt: 0.5000, sse=5177780.5, rms=12.688 (7.179%)
- 033: dt: 0.5000, sse=4613895.5, rms=11.851 (6.602%)
- 034: dt: 0.5000, sse=4146509.8, rms=11.105 (6.295%)
- 035: dt: 0.5000, sse=3736659.5, rms=10.408 (6.276%)
- 036: dt: 0.5000, sse=3362112.0, rms=9.726 (6.551%)
- 037: dt: 0.5000, sse=3013512.0, rms=9.048 (6.966%)
- 038: dt: 0.5000, sse=2707063.8, rms=8.407 (7.086%)
- 039: dt: 0.5000, sse=2454751.8, rms=7.841 (6.732%)
- 040: dt: 0.5000, sse=2248574.0, rms=7.346 (6.318%)
- 041: dt: 0.5000, sse=2090582.6, rms=6.942 (5.502%)
- 042: dt: 0.5000, sse=1968489.2, rms=6.612 (4.750%)
- 043: dt: 0.5000, sse=1877094.2, rms=6.355 (3.883%)
- 044: dt: 0.5000, sse=1806466.9, rms=6.148 (3.264%)
- 045: dt: 0.5000, sse=1758772.8, rms=6.004 (2.334%)
- 046: dt: 0.5000, sse=1723509.6, rms=5.894 (1.831%)
- 047: dt: 0.5000, sse=1699506.1, rms=5.819 (1.280%)
- 048: dt: 0.5000, sse=1681912.2, rms=5.761 (0.990%)
- rms = 5.72, time step reduction 1 of 3 to 0.250...
- 049: dt: 0.5000, sse=1668087.0, rms=5.718 (0.754%)
- 050: dt: 0.2500, sse=1574821.5, rms=5.372 (6.055%)
- 051: dt: 0.2500, sse=1541478.8, rms=5.258 (2.109%)
- rms = 5.27, time step reduction 2 of 3 to 0.125...
- rms = 5.22, time step reduction 3 of 3 to 0.062...
- 052: dt: 0.1250, sse=1530856.6, rms=5.219 (0.754%)
- positioning took 3.4 minutes
- mean border=59.1, 3100 (54) missing vertices, mean dist 0.2 [0.2 (%43.3)->0.7 (%56.7))]
- %28 local maxima, %26 large gradients and %40 min vals, 178 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=1787767.5, rms=5.295
- 053: dt: 0.5000, sse=1736785.1, rms=5.130 (3.119%)
- 054: dt: 0.5000, sse=1656761.4, rms=4.872 (5.031%)
- rms = 5.02, time step reduction 1 of 3 to 0.250...
- 055: dt: 0.2500, sse=1558106.5, rms=4.447 (8.712%)
- 056: dt: 0.2500, sse=1538610.2, rms=4.350 (2.183%)
- rms = 4.35, time step reduction 2 of 3 to 0.125...
- 057: dt: 0.2500, sse=1538449.4, rms=4.350 (0.006%)
- 058: dt: 0.1250, sse=1502240.5, rms=4.185 (3.779%)
- rms = 4.16, time step reduction 3 of 3 to 0.062...
- 059: dt: 0.1250, sse=1495141.1, rms=4.156 (0.708%)
- positioning took 1.4 minutes
- mean border=58.6, 3362 (47) missing vertices, mean dist 0.1 [0.2 (%43.2)->0.5 (%56.8))]
- %38 local maxima, %16 large gradients and %39 min vals, 225 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=1529577.9, rms=4.294
- rms = 4.65, time step reduction 1 of 3 to 0.250...
- 060: dt: 0.2500, sse=1500595.4, rms=4.164 (3.005%)
- rms = 4.14, time step reduction 2 of 3 to 0.125...
- 061: dt: 0.2500, sse=1493996.2, rms=4.142 (0.534%)
- 062: dt: 0.1250, sse=1481034.0, rms=4.080 (1.499%)
- rms = 4.05, time step reduction 3 of 3 to 0.062...
- 063: dt: 0.1250, sse=1473755.0, rms=4.051 (0.709%)
- positioning took 1.0 minutes
- mean border=58.2, 7178 (42) missing vertices, mean dist 0.1 [0.2 (%44.0)->0.4 (%56.0))]
- %39 local maxima, %14 large gradients and %37 min vals, 226 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing pial surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1489057.2, rms=4.112
- rms = 4.33, time step reduction 1 of 3 to 0.250...
- 064: dt: 0.2500, sse=1468518.6, rms=4.022 (2.173%)
- 065: dt: 0.2500, sse=1448120.5, rms=3.954 (1.698%)
- rms = 3.94, time step reduction 2 of 3 to 0.125...
- 066: dt: 0.2500, sse=1441680.8, rms=3.936 (0.441%)
- 067: dt: 0.1250, sse=1414598.0, rms=3.806 (3.311%)
- rms = 3.77, time step reduction 3 of 3 to 0.062...
- 068: dt: 0.1250, sse=1406282.4, rms=3.772 (0.893%)
- positioning took 1.2 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.area.pial
- vertex spacing 1.02 +- 0.49 (0.01-->7.42) (max @ vno 142655 --> 142771)
- face area 0.41 +- 0.36 (0.00-->9.71)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 145874 vertices processed
- 25000 of 145874 vertices processed
- 50000 of 145874 vertices processed
- 75000 of 145874 vertices processed
- 100000 of 145874 vertices processed
- 125000 of 145874 vertices processed
- 0 of 145874 vertices processed
- 25000 of 145874 vertices processed
- 50000 of 145874 vertices processed
- 75000 of 145874 vertices processed
- 100000 of 145874 vertices processed
- 125000 of 145874 vertices processed
- thickness calculation complete, 704:2293 truncations.
- 23080 vertices at 0 distance
- 78689 vertices at 1 distance
- 89152 vertices at 2 distance
- 52712 vertices at 3 distance
- 22098 vertices at 4 distance
- 7772 vertices at 5 distance
- 2744 vertices at 6 distance
- 1033 vertices at 7 distance
- 476 vertices at 8 distance
- 234 vertices at 9 distance
- 134 vertices at 10 distance
- 111 vertices at 11 distance
- 81 vertices at 12 distance
- 53 vertices at 13 distance
- 46 vertices at 14 distance
- 35 vertices at 15 distance
- 34 vertices at 16 distance
- 21 vertices at 17 distance
- 25 vertices at 18 distance
- 22 vertices at 19 distance
- 34 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.thickness
- positioning took 17.9 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051348 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-6.0.0/0051348/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- 34293 bright wm thresholded.
- 656 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.orig...
- computing class statistics...
- border white: 276628 voxels (1.65%)
- border gray 335243 voxels (2.00%)
- WM (96.0): 96.6 +- 8.7 [70.0 --> 110.0]
- GM (73.0) : 72.5 +- 10.1 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 62.9 (was 70)
- setting MAX_BORDER_WHITE to 108.7 (was 105)
- setting MIN_BORDER_WHITE to 73.0 (was 85)
- setting MAX_CSF to 52.7 (was 40)
- setting MAX_GRAY to 91.3 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 62.9 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 42.6 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=100+-7.8, GM=73+-6.1
- mean inside = 92.5, mean outside = 76.6
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.88 +- 0.27 (0.04-->6.49) (max @ vno 35333 --> 143154)
- face area 0.32 +- 0.16 (0.00-->3.43)
- mean absolute distance = 0.60 +- 0.80
- 3710 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 2 with 344 points - only 0.00% unknown
- deleting segment 3 with 10 points - only 0.00% unknown
- deleting segment 4 with 77 points - only 0.00% unknown
- deleting segment 5 with 15 points - only 0.00% unknown
- mean border=82.1, 401 (401) missing vertices, mean dist 0.4 [0.9 (%13.3)->0.5 (%86.7))]
- %69 local maxima, %26 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 0.89 +- 0.27 (0.06-->6.42) (max @ vno 35333 --> 143154)
- face area 0.32 +- 0.17 (0.00-->3.97)
- mean absolute distance = 0.36 +- 0.56
- 3815 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1928981.6, rms=6.702
- 001: dt: 0.5000, sse=1129069.0, rms=3.971 (40.750%)
- 002: dt: 0.5000, sse=966667.2, rms=3.173 (20.091%)
- 003: dt: 0.5000, sse=944354.2, rms=3.122 (1.605%)
- 004: dt: 0.5000, sse=924102.3, rms=3.002 (3.845%)
- rms = 3.12, time step reduction 1 of 3 to 0.250...
- 005: dt: 0.2500, sse=827519.1, rms=2.345 (21.886%)
- 006: dt: 0.2500, sse=796939.9, rms=2.046 (12.760%)
- 007: dt: 0.2500, sse=788934.7, rms=1.979 (3.255%)
- rms = 1.96, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=819760.0, rms=1.964 (0.795%)
- rms = 1.93, time step reduction 3 of 3 to 0.062...
- 009: dt: 0.1250, sse=783494.0, rms=1.929 (1.776%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- deleting segment 1 with 174 points - only 0.00% unknown
- deleting segment 2 with 69 points - only 0.00% unknown
- deleting segment 3 with 22 points - only 0.00% unknown
- mean border=85.2, 292 (106) missing vertices, mean dist -0.2 [0.4 (%73.7)->0.3 (%26.3))]
- %81 local maxima, %14 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.88 +- 0.27 (0.03-->6.56) (max @ vno 35333 --> 143154)
- face area 0.33 +- 0.18 (0.00-->4.07)
- mean absolute distance = 0.27 +- 0.40
- 3623 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1150116.6, rms=4.014
- 010: dt: 0.5000, sse=937153.2, rms=2.704 (32.635%)
- rms = 2.74, time step reduction 1 of 3 to 0.250...
- 011: dt: 0.2500, sse=836995.9, rms=2.156 (20.248%)
- 012: dt: 0.2500, sse=805730.5, rms=1.803 (16.372%)
- 013: dt: 0.2500, sse=809552.6, rms=1.691 (6.238%)
- rms = 1.66, time step reduction 2 of 3 to 0.125...
- 014: dt: 0.2500, sse=782555.9, rms=1.656 (2.043%)
- rms = 1.62, time step reduction 3 of 3 to 0.062...
- 015: dt: 0.1250, sse=777586.9, rms=1.615 (2.479%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 230 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 1 with 4 points - only 0.00% unknown
- deleting segment 2 with 71 points - only 0.00% unknown
- deleting segment 3 with 69 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 4 with 1 points - only 0.00% unknown
- mean border=86.7, 288 (63) missing vertices, mean dist -0.1 [0.3 (%63.7)->0.2 (%36.3))]
- %86 local maxima, % 9 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 +- 0.27 (0.03-->6.60) (max @ vno 35333 --> 143154)
- face area 0.32 +- 0.17 (0.00-->3.98)
- mean absolute distance = 0.24 +- 0.35
- 3724 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=868461.6, rms=2.531
- 016: dt: 0.5000, sse=880415.6, rms=2.401 (5.112%)
- rms = 2.61, time step reduction 1 of 3 to 0.250...
- 017: dt: 0.2500, sse=792988.7, rms=1.826 (23.958%)
- 018: dt: 0.2500, sse=793597.5, rms=1.574 (13.782%)
- rms = 1.54, time step reduction 2 of 3 to 0.125...
- 019: dt: 0.2500, sse=764112.3, rms=1.536 (2.445%)
- rms = 1.49, time step reduction 3 of 3 to 0.062...
- 020: dt: 0.1250, sse=757467.4, rms=1.490 (2.970%)
- positioning took 0.7 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- deleting segment 1 with 233 points - only 0.00% unknown
- deleting segment 2 with 24 points - only 0.00% unknown
- deleting segment 3 with 76 points - only 0.00% unknown
- deleting segment 4 with 70 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 5 with 3 points - only 0.00% unknown
- deleting segment 6 with 6 points - only 0.00% unknown
- mean border=87.3, 328 (46) missing vertices, mean dist -0.0 [0.3 (%53.4)->0.2 (%46.6))]
- %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-6.0.0/0051348/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=765395.2, rms=1.639
- 021: dt: 0.5000, sse=770163.9, rms=1.575 (3.928%)
- rms = 2.27, time step reduction 1 of 3 to 0.250...
- 022: dt: 0.2500, sse=726946.9, rms=1.214 (22.908%)
- rms = 1.22, time step reduction 2 of 3 to 0.125...
- rms = 1.18, time step reduction 3 of 3 to 0.062...
- 023: dt: 0.1250, sse=722509.5, rms=1.184 (2.513%)
- positioning took 0.5 minutes
- generating cortex label...
- 11 non-cortical segments detected
- only using segment with 7396 vertices
- erasing segment 1 (vno[0] = 54668)
- erasing segment 2 (vno[0] = 76066)
- erasing segment 3 (vno[0] = 77481)
- erasing segment 4 (vno[0] = 80021)
- erasing segment 5 (vno[0] = 96968)
- erasing segment 6 (vno[0] = 98092)
- erasing segment 7 (vno[0] = 100203)
- erasing segment 8 (vno[0] = 103185)
- erasing segment 9 (vno[0] = 106167)
- erasing segment 10 (vno[0] = 106209)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.area
- vertex spacing 0.88 +- 0.27 (0.04-->6.76) (max @ vno 35333 --> 143154)
- face area 0.32 +- 0.17 (0.00-->3.93)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=61.5, 416 (416) missing vertices, mean dist 1.7 [0.2 (%0.0)->3.4 (%100.0))]
- %13 local maxima, %34 large gradients and %48 min vals, 418 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=20520196.0, rms=26.716
- 001: dt: 0.0500, sse=17991420.0, rms=24.956 (6.590%)
- 002: dt: 0.0500, sse=16206763.0, rms=23.634 (5.296%)
- 003: dt: 0.0500, sse=14864570.0, rms=22.589 (4.422%)
- 004: dt: 0.0500, sse=13801326.0, rms=21.725 (3.824%)
- 005: dt: 0.0500, sse=12924272.0, rms=20.986 (3.403%)
- 006: dt: 0.0500, sse=12178957.0, rms=20.337 (3.095%)
- 007: dt: 0.0500, sse=11531230.0, rms=19.755 (2.861%)
- 008: dt: 0.0500, sse=10959714.0, rms=19.227 (2.673%)
- 009: dt: 0.0500, sse=10449420.0, rms=18.743 (2.518%)
- 010: dt: 0.0500, sse=9989320.0, rms=18.295 (2.388%)
- positioning took 1.1 minutes
- mean border=61.3, 337 (206) missing vertices, mean dist 1.4 [0.1 (%0.1)->2.8 (%99.9))]
- %14 local maxima, %34 large gradients and %47 min vals, 413 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=10784025.0, rms=19.061
- 011: dt: 0.0500, sse=10361136.0, rms=18.658 (2.116%)
- 012: dt: 0.0500, sse=9974506.0, rms=18.281 (2.018%)
- 013: dt: 0.0500, sse=9620483.0, rms=17.929 (1.924%)
- 014: dt: 0.0500, sse=9294502.0, rms=17.599 (1.842%)
- 015: dt: 0.0500, sse=8994681.0, rms=17.290 (1.758%)
- 016: dt: 0.0500, sse=8717550.0, rms=16.999 (1.683%)
- 017: dt: 0.0500, sse=8460822.0, rms=16.725 (1.613%)
- 018: dt: 0.0500, sse=8222816.0, rms=16.466 (1.544%)
- 019: dt: 0.0500, sse=8002075.5, rms=16.223 (1.477%)
- 020: dt: 0.0500, sse=7796357.0, rms=15.993 (1.419%)
- positioning took 1.0 minutes
- mean border=61.3, 358 (161) missing vertices, mean dist 1.3 [0.1 (%1.1)->2.5 (%98.9))]
- %15 local maxima, %34 large gradients and %47 min vals, 425 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=7889266.5, rms=16.104
- 021: dt: 0.0500, sse=7693398.5, rms=15.883 (1.370%)
- 022: dt: 0.0500, sse=7510562.5, rms=15.674 (1.315%)
- 023: dt: 0.0500, sse=7338380.5, rms=15.475 (1.272%)
- 024: dt: 0.0500, sse=7176774.5, rms=15.285 (1.224%)
- 025: dt: 0.0500, sse=7024301.0, rms=15.104 (1.184%)
- 026: dt: 0.0500, sse=6880308.5, rms=14.931 (1.146%)
- 027: dt: 0.0500, sse=6743063.5, rms=14.764 (1.118%)
- 028: dt: 0.0500, sse=6611835.0, rms=14.603 (1.093%)
- 029: dt: 0.0500, sse=6485641.0, rms=14.446 (1.075%)
- 030: dt: 0.0500, sse=6363869.0, rms=14.293 (1.061%)
- positioning took 1.1 minutes
- mean border=61.2, 376 (132) missing vertices, mean dist 1.1 [0.1 (%4.8)->2.3 (%95.2))]
- %15 local maxima, %34 large gradients and %46 min vals, 387 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=6422911.5, rms=14.367
- 031: dt: 0.5000, sse=5500829.0, rms=13.158 (8.416%)
- 032: dt: 0.5000, sse=4780914.5, rms=12.124 (7.861%)
- 033: dt: 0.5000, sse=4200959.0, rms=11.220 (7.458%)
- 034: dt: 0.5000, sse=3752715.8, rms=10.462 (6.751%)
- 035: dt: 0.5000, sse=3397909.8, rms=9.821 (6.126%)
- 036: dt: 0.5000, sse=3091365.5, rms=9.230 (6.024%)
- 037: dt: 0.5000, sse=2824522.0, rms=8.684 (5.911%)
- 038: dt: 0.5000, sse=2566864.5, rms=8.122 (6.467%)
- 039: dt: 0.5000, sse=2350258.0, rms=7.621 (6.179%)
- 040: dt: 0.5000, sse=2166930.8, rms=7.167 (5.949%)
- 041: dt: 0.5000, sse=2027087.6, rms=6.803 (5.089%)
- 042: dt: 0.5000, sse=1921119.4, rms=6.510 (4.296%)
- 043: dt: 0.5000, sse=1857344.2, rms=6.328 (2.793%)
- 044: dt: 0.5000, sse=1801126.2, rms=6.162 (2.625%)
- 045: dt: 0.5000, sse=1766811.2, rms=6.059 (1.683%)
- 046: dt: 0.5000, sse=1733037.4, rms=5.953 (1.740%)
- 047: dt: 0.5000, sse=1713136.8, rms=5.891 (1.053%)
- 048: dt: 0.5000, sse=1692935.1, rms=5.825 (1.104%)
- rms = 5.78, time step reduction 1 of 3 to 0.250...
- 049: dt: 0.5000, sse=1679677.2, rms=5.784 (0.715%)
- 050: dt: 0.2500, sse=1593396.5, rms=5.468 (5.459%)
- 051: dt: 0.2500, sse=1564165.4, rms=5.370 (1.796%)
- rms = 5.37, time step reduction 2 of 3 to 0.125...
- 052: dt: 0.2500, sse=1564888.5, rms=5.369 (0.008%)
- 053: dt: 0.1250, sse=1538145.8, rms=5.272 (1.815%)
- rms = 5.25, time step reduction 3 of 3 to 0.062...
- 054: dt: 0.1250, sse=1531917.1, rms=5.250 (0.413%)
- positioning took 3.7 minutes
- mean border=60.3, 3448 (44) missing vertices, mean dist 0.2 [0.2 (%42.0)->0.8 (%58.0))]
- %27 local maxima, %24 large gradients and %42 min vals, 228 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=1764203.1, rms=5.293
- 055: dt: 0.5000, sse=1726737.8, rms=5.180 (2.133%)
- 056: dt: 0.5000, sse=1627977.2, rms=4.847 (6.435%)
- rms = 5.03, time step reduction 1 of 3 to 0.250...
- 057: dt: 0.2500, sse=1542813.8, rms=4.481 (7.535%)
- 058: dt: 0.2500, sse=1521949.6, rms=4.382 (2.209%)
- rms = 4.39, time step reduction 2 of 3 to 0.125...
- 059: dt: 0.1250, sse=1510851.6, rms=4.332 (1.158%)
- 060: dt: 0.1250, sse=1495284.6, rms=4.260 (1.666%)
- rms = 4.23, time step reduction 3 of 3 to 0.062...
- 061: dt: 0.1250, sse=1489195.0, rms=4.233 (0.630%)
- positioning took 1.6 minutes
- mean border=59.8, 3865 (34) missing vertices, mean dist 0.1 [0.2 (%40.8)->0.5 (%59.2))]
- %36 local maxima, %16 large gradients and %41 min vals, 251 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=1527263.0, rms=4.365
- rms = 4.65, time step reduction 1 of 3 to 0.250...
- 062: dt: 0.2500, sse=1501552.9, rms=4.253 (2.568%)
- rms = 4.22, time step reduction 2 of 3 to 0.125...
- 063: dt: 0.2500, sse=1491370.2, rms=4.217 (0.858%)
- 064: dt: 0.1250, sse=1478646.5, rms=4.157 (1.425%)
- rms = 4.13, time step reduction 3 of 3 to 0.062...
- 065: dt: 0.1250, sse=1470852.2, rms=4.126 (0.742%)
- positioning took 1.0 minutes
- mean border=59.4, 7625 (29) missing vertices, mean dist 0.1 [0.2 (%42.3)->0.4 (%57.7))]
- %37 local maxima, %14 large gradients and %40 min vals, 251 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-6.0.0/0051348/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1483253.2, rms=4.159
- rms = 4.31, time step reduction 1 of 3 to 0.250...
- 066: dt: 0.2500, sse=1464275.0, rms=4.077 (1.964%)
- 067: dt: 0.2500, sse=1441790.1, rms=3.999 (1.913%)
- rms = 3.97, time step reduction 2 of 3 to 0.125...
- 068: dt: 0.2500, sse=1433126.2, rms=3.973 (0.653%)
- 069: dt: 0.1250, sse=1409773.8, rms=3.861 (2.829%)
- rms = 3.82, time step reduction 3 of 3 to 0.062...
- 070: dt: 0.1250, sse=1400238.9, rms=3.821 (1.041%)
- positioning took 1.2 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.area.pial
- vertex spacing 1.01 +- 0.49 (0.04-->8.53) (max @ vno 53052 --> 143015)
- face area 0.40 +- 0.36 (0.00-->10.04)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 145578 vertices processed
- 25000 of 145578 vertices processed
- 50000 of 145578 vertices processed
- 75000 of 145578 vertices processed
- 100000 of 145578 vertices processed
- 125000 of 145578 vertices processed
- 0 of 145578 vertices processed
- 25000 of 145578 vertices processed
- 50000 of 145578 vertices processed
- 75000 of 145578 vertices processed
- 100000 of 145578 vertices processed
- 125000 of 145578 vertices processed
- thickness calculation complete, 634:2599 truncations.
- 22912 vertices at 0 distance
- 78215 vertices at 1 distance
- 88903 vertices at 2 distance
- 52592 vertices at 3 distance
- 22570 vertices at 4 distance
- 8063 vertices at 5 distance
- 2950 vertices at 6 distance
- 1143 vertices at 7 distance
- 529 vertices at 8 distance
- 275 vertices at 9 distance
- 157 vertices at 10 distance
- 115 vertices at 11 distance
- 88 vertices at 12 distance
- 56 vertices at 13 distance
- 35 vertices at 14 distance
- 39 vertices at 15 distance
- 35 vertices at 16 distance
- 30 vertices at 17 distance
- 34 vertices at 18 distance
- 29 vertices at 19 distance
- 48 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.thickness
- positioning took 18.1 minutes
- PIDs (17210 17213) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Sun Oct 8 03:51:36 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0051348 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/lh.cortex.label
- Total face volume 298461
- Total vertex volume 295075 (mask=0)
- #@# 0051348 lh 295075
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Sun Oct 8 03:51:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0051348 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/rh.cortex.label
- Total face volume 295119
- Total vertex volume 291788 (mask=0)
- #@# 0051348 rh 291788
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Sun Oct 8 03:51:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0051348
- 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 = 314
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/ribbon.mgz
- mris_volmask took 22.04 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Sun Oct 8 04:13:47 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0051348 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 0051348 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Sun Oct 8 04:13:47 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0051348 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 0051348 rh pial
- Waiting for PID 20413 of (20413 20416 20419 20422) to complete...
- Waiting for PID 20416 of (20413 20416 20419 20422) to complete...
- Waiting for PID 20419 of (20413 20416 20419 20422) to complete...
- Waiting for PID 20422 of (20413 20416 20419 20422) 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 0051348 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 298461
- Total vertex volume 295075 (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) = 1528850 mm^3 (det: 1.274229 )
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 1295 862 2558 3.108 0.408 0.086 0.016 7 0.8 bankssts
- 1291 817 2982 3.141 0.615 0.136 0.032 24 1.6 caudalanteriorcingulate
- 3991 2586 8713 2.938 0.572 0.126 0.049 54 8.6 caudalmiddlefrontal
- 2277 1358 3500 2.251 0.583 0.125 0.041 30 3.8 cuneus
- 681 446 1833 3.198 0.915 0.139 0.048 11 1.4 entorhinal
- 4359 3009 10659 3.085 0.609 0.143 0.042 80 7.8 fusiform
- 8501 5613 17859 2.863 0.579 0.135 0.040 142 14.2 inferiorparietal
- 5389 3549 13909 3.066 0.654 0.136 0.044 99 9.6 inferiortemporal
- 1753 1129 3372 2.633 0.840 0.136 0.039 32 2.4 isthmuscingulate
- 7896 4799 14201 2.567 0.601 0.131 0.035 110 11.4 lateraloccipital
- 3675 2465 8793 3.177 0.743 0.135 0.044 56 6.5 lateralorbitofrontal
- 4583 2974 8146 2.485 0.678 0.135 0.041 70 7.3 lingual
- 2761 1781 5626 2.622 0.815 0.144 0.057 69 7.3 medialorbitofrontal
- 4480 2939 12382 3.261 0.678 0.141 0.049 85 8.2 middletemporal
- 911 581 2234 3.128 0.637 0.119 0.036 11 1.2 parahippocampal
- 2427 1524 4560 2.691 0.633 0.115 0.038 25 4.0 paracentral
- 2805 1817 6740 3.004 0.585 0.137 0.045 45 5.3 parsopercularis
- 936 595 2932 3.448 0.682 0.153 0.065 24 2.6 parsorbitalis
- 1695 1126 3827 2.904 0.591 0.121 0.036 22 2.6 parstriangularis
- 1844 1291 2003 1.800 0.453 0.135 0.041 20 3.6 pericalcarine
- 7271 4512 12205 2.373 0.660 0.130 0.047 130 14.6 postcentral
- 1837 1202 3970 2.919 0.990 0.155 0.043 37 3.0 posteriorcingulate
- 8785 5298 15921 2.749 0.608 0.125 0.050 129 17.9 precentral
- 5797 3826 12456 2.992 0.611 0.121 0.032 82 7.3 precuneus
- 1334 867 3645 3.523 0.761 0.147 0.054 35 2.8 rostralanteriorcingulate
- 9136 6102 22006 2.891 0.692 0.138 0.043 153 16.8 rostralmiddlefrontal
- 10656 6984 25467 3.084 0.736 0.134 0.049 175 22.9 superiorfrontal
- 9304 6148 17892 2.616 0.572 0.134 0.043 160 17.6 superiorparietal
- 5849 3850 13683 3.055 0.668 0.128 0.045 106 11.4 superiortemporal
- 7492 5011 17145 2.950 0.568 0.122 0.039 115 13.2 supramarginal
- 406 263 1081 2.757 0.552 0.160 0.058 16 0.8 frontalpole
- 857 550 2959 3.606 0.677 0.155 0.065 17 2.4 temporalpole
- 835 478 1519 2.627 0.574 0.121 0.056 15 1.8 transversetemporal
- 4054 2645 8208 3.080 0.775 0.134 0.056 59 10.5 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 0051348 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 298461
- Total vertex volume 295075 (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) = 1528850 mm^3 (det: 1.274229 )
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 1295 801 2558 3.108 0.408 0.126 0.041 32 2.1 bankssts
- 1291 1194 2982 3.141 0.615 0.191 0.056 33 3.2 caudalanteriorcingulate
- 3991 3202 8713 2.938 0.572 0.145 0.041 61 7.2 caudalmiddlefrontal
- 2277 1762 3500 2.251 0.583 0.135 0.033 28 3.4 cuneus
- 681 700 1833 3.198 0.915 0.182 0.053 18 1.6 entorhinal
- 4359 4008 10659 3.085 0.609 0.175 0.047 76 9.6 fusiform
- 8501 6770 17859 2.863 0.579 0.149 0.044 172 16.8 inferiorparietal
- 5389 5394 13909 3.066 0.654 0.187 0.050 98 12.8 inferiortemporal
- 1753 1478 3372 2.633 0.840 0.186 0.054 50 4.1 isthmuscingulate
- 7896 6253 14201 2.567 0.601 0.133 0.032 160 11.6 lateraloccipital
- 3675 2995 8793 3.177 0.743 0.158 0.046 69 7.3 lateralorbitofrontal
- 4583 3738 8146 2.485 0.678 0.150 0.042 66 8.6 lingual
- 2761 2512 5626 2.622 0.815 0.200 0.071 83 9.9 medialorbitofrontal
- 4480 4315 12382 3.261 0.678 0.177 0.044 73 9.5 middletemporal
- 911 886 2234 3.128 0.637 0.180 0.044 14 1.7 parahippocampal
- 2427 1872 4560 2.691 0.633 0.137 0.037 26 4.1 paracentral
- 2805 2598 6740 3.004 0.585 0.167 0.043 39 5.5 parsopercularis
- 936 1000 2932 3.448 0.682 0.190 0.043 12 1.9 parsorbitalis
- 1695 1465 3827 2.904 0.591 0.162 0.042 26 3.4 parstriangularis
- 1844 976 2003 1.800 0.453 0.101 0.029 25 2.1 pericalcarine
- 7271 5601 12205 2.373 0.660 0.129 0.035 141 12.2 postcentral
- 1837 1475 3970 2.919 0.990 0.167 0.047 45 3.4 posteriorcingulate
- 8785 5971 15921 2.749 0.608 0.120 0.035 114 12.7 precentral
- 5797 4566 12456 2.992 0.611 0.143 0.037 99 9.7 precuneus
- 1334 1355 3645 3.523 0.761 0.206 0.064 36 4.6 rostralanteriorcingulate
- 9136 8523 22006 2.891 0.692 0.184 0.050 166 21.7 rostralmiddlefrontal
- 10656 9133 25467 3.084 0.736 0.166 0.055 306 30.1 superiorfrontal
- 9304 7343 17892 2.616 0.572 0.145 0.039 147 16.3 superiorparietal
- 5849 4833 13683 3.055 0.668 0.156 0.042 120 11.1 superiortemporal
- 7492 6392 17145 2.950 0.568 0.149 0.040 117 12.9 supramarginal
- 406 521 1081 2.757 0.552 0.230 0.051 6 1.1 frontalpole
- 857 1113 2959 3.606 0.677 0.216 0.049 12 2.2 temporalpole
- 835 686 1519 2.627 0.574 0.146 0.038 8 1.4 transversetemporal
- 4054 2460 8208 3.080 0.775 0.142 0.050 104 8.0 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 0051348 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 295119
- Total vertex volume 291788 (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) = 1528850 mm^3 (det: 1.274229 )
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 1866 1249 3599 3.078 0.450 0.105 0.025 13 1.8 bankssts
- 897 549 1619 2.749 0.707 0.136 0.036 17 1.3 caudalanteriorcingulate
- 3651 2404 7992 2.985 0.560 0.126 0.043 59 6.4 caudalmiddlefrontal
- 2550 1602 4312 2.345 0.593 0.150 0.041 43 4.1 cuneus
- 392 264 1431 3.604 0.782 0.137 0.042 5 0.7 entorhinal
- 3955 2686 9504 3.056 0.679 0.133 0.046 69 7.7 fusiform
- 9552 6227 20799 2.987 0.600 0.131 0.041 152 15.9 inferiorparietal
- 4186 2672 10144 3.007 0.753 0.137 0.053 75 10.1 inferiortemporal
- 1477 940 2764 2.659 0.979 0.142 0.037 28 2.0 isthmuscingulate
- 6844 4180 12169 2.614 0.578 0.127 0.035 95 9.6 lateraloccipital
- 3524 2301 8421 3.114 0.801 0.135 0.051 63 6.9 lateralorbitofrontal
- 5122 3210 8947 2.547 0.707 0.136 0.042 79 8.8 lingual
- 2656 1840 6657 2.855 0.634 0.146 0.058 59 7.0 medialorbitofrontal
- 5169 3326 14311 3.260 0.682 0.133 0.046 92 9.8 middletemporal
- 1043 648 2374 3.015 0.683 0.122 0.063 22 3.1 parahippocampal
- 2779 1779 5278 2.769 0.596 0.110 0.035 33 3.9 paracentral
- 1886 1273 4602 2.972 0.635 0.127 0.040 24 3.4 parsopercularis
- 1086 724 3828 3.483 0.711 0.141 0.048 17 2.1 parsorbitalis
- 1858 1305 4629 3.074 0.609 0.126 0.038 23 2.8 parstriangularis
- 2404 1542 2435 1.802 0.510 0.142 0.041 34 4.0 pericalcarine
- 7413 4639 12470 2.384 0.673 0.129 0.049 125 16.1 postcentral
- 1907 1271 3874 2.855 0.665 0.135 0.031 29 2.4 posteriorcingulate
- 9842 5967 17557 2.643 0.634 0.135 0.055 176 22.4 precentral
- 5879 3942 12145 2.862 0.626 0.127 0.035 89 8.5 precuneus
- 1035 666 2673 3.490 0.578 0.133 0.048 20 2.2 rostralanteriorcingulate
- 9282 6081 20269 2.661 0.667 0.140 0.049 191 19.5 rostralmiddlefrontal
- 9683 6527 24690 3.103 0.710 0.134 0.050 158 21.1 superiorfrontal
- 10818 6723 18241 2.513 0.556 0.125 0.044 165 19.9 superiorparietal
- 6521 4251 16193 3.138 0.677 0.117 0.040 94 11.2 superiortemporal
- 6951 4431 14404 2.915 0.609 0.132 0.062 166 22.1 supramarginal
- 411 281 1394 2.944 0.690 0.182 0.056 12 1.0 frontalpole
- 642 415 2287 3.469 0.692 0.172 0.074 19 2.1 temporalpole
- 705 441 1402 2.611 0.448 0.130 0.036 11 0.8 transversetemporal
- 3890 2517 8317 3.141 1.073 0.124 0.052 55 7.8 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 0051348 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 295119
- Total vertex volume 291788 (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) = 1528850 mm^3 (det: 1.274229 )
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 1866 1111 3599 3.078 0.450 0.133 0.042 32 3.4 bankssts
- 897 670 1619 2.749 0.707 0.163 0.046 16 1.9 caudalanteriorcingulate
- 3651 2838 7992 2.985 0.560 0.159 0.049 68 8.2 caudalmiddlefrontal
- 2550 2137 4312 2.345 0.593 0.156 0.041 46 4.6 cuneus
- 392 519 1431 3.604 0.782 0.237 0.060 9 1.3 entorhinal
- 3955 3420 9504 3.056 0.679 0.165 0.045 71 8.3 fusiform
- 9552 7578 20799 2.987 0.600 0.144 0.040 161 16.9 inferiorparietal
- 4186 3870 10144 3.007 0.753 0.179 0.052 84 9.8 inferiortemporal
- 1477 1134 2764 2.659 0.979 0.167 0.048 42 3.2 isthmuscingulate
- 6844 5033 12169 2.614 0.578 0.124 0.030 98 9.4 lateraloccipital
- 3524 2939 8421 3.114 0.801 0.172 0.052 73 8.3 lateralorbitofrontal
- 5122 4001 8947 2.547 0.707 0.148 0.040 84 9.0 lingual
- 2656 2804 6657 2.855 0.634 0.215 0.062 56 8.0 medialorbitofrontal
- 5169 5215 14311 3.260 0.682 0.179 0.048 83 11.6 middletemporal
- 1043 873 2374 3.015 0.683 0.153 0.046 16 2.6 parahippocampal
- 2779 2056 5278 2.769 0.596 0.132 0.037 42 4.8 paracentral
- 1886 1738 4602 2.972 0.635 0.175 0.045 26 4.0 parsopercularis
- 1086 1391 3828 3.483 0.711 0.199 0.043 13 2.0 parsorbitalis
- 1858 1655 4629 3.074 0.609 0.157 0.042 26 3.3 parstriangularis
- 2404 1279 2435 1.802 0.510 0.107 0.032 39 3.2 pericalcarine
- 7413 5677 12470 2.384 0.673 0.135 0.037 89 12.2 postcentral
- 1907 1551 3874 2.855 0.665 0.172 0.051 51 4.6 posteriorcingulate
- 9842 6886 17557 2.643 0.634 0.125 0.035 125 15.6 precentral
- 5879 4572 12145 2.862 0.626 0.148 0.044 107 10.0 precuneus
- 1035 897 2673 3.490 0.578 0.187 0.051 26 2.4 rostralanteriorcingulate
- 9282 8783 20269 2.661 0.667 0.199 0.058 180 26.7 rostralmiddlefrontal
- 9683 8987 24690 3.103 0.710 0.177 0.051 186 23.4 superiorfrontal
- 10818 7605 18241 2.513 0.556 0.133 0.039 167 18.9 superiorparietal
- 6521 5872 16193 3.138 0.677 0.163 0.043 103 12.9 superiortemporal
- 6951 5240 14404 2.915 0.609 0.148 0.045 131 13.7 supramarginal
- 411 636 1394 2.944 0.690 0.262 0.061 5 1.3 frontalpole
- 642 874 2287 3.469 0.692 0.221 0.055 8 1.7 temporalpole
- 705 600 1402 2.611 0.448 0.151 0.037 9 1.1 transversetemporal
- 3890 2472 8317 3.141 1.073 0.153 0.071 151 8.9 insula
- PIDs (20413 20416 20419 20422) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Sun Oct 8 04:15:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051348 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 04:15:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051348 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 20595 of (20595 20598) to complete...
- Waiting for PID 20598 of (20595 20598) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051348 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...
- 34 labels changed using aseg
- relabeling using gibbs priors...
- 000: 9676 changed, 145874 examined...
- 001: 2278 changed, 37039 examined...
- 002: 666 changed, 11859 examined...
- 003: 286 changed, 3878 examined...
- 004: 124 changed, 1571 examined...
- 005: 62 changed, 744 examined...
- 006: 26 changed, 354 examined...
- 007: 9 changed, 131 examined...
- 008: 6 changed, 55 examined...
- 009: 4 changed, 31 examined...
- 010: 4 changed, 24 examined...
- 011: 1 changed, 21 examined...
- 012: 0 changed, 6 examined...
- 9 labels changed using aseg
- 000: 272 total segments, 188 labels (2279 vertices) changed
- 001: 96 total segments, 12 labels (33 vertices) changed
- 002: 84 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 46 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1279 vertices marked for relabeling...
- 1279 labels changed in reclassification.
- writing output to ../label/lh.aparc.a2009s.annot...
- classification took 0 minutes and 21 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051348 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...
- 13 labels changed using aseg
- relabeling using gibbs priors...
- 000: 9413 changed, 145578 examined...
- 001: 2147 changed, 36725 examined...
- 002: 631 changed, 11344 examined...
- 003: 254 changed, 3571 examined...
- 004: 99 changed, 1477 examined...
- 005: 59 changed, 576 examined...
- 006: 34 changed, 351 examined...
- 007: 16 changed, 177 examined...
- 008: 11 changed, 90 examined...
- 009: 3 changed, 61 examined...
- 010: 0 changed, 21 examined...
- 5 labels changed using aseg
- 000: 270 total segments, 187 labels (2925 vertices) changed
- 001: 98 total segments, 15 labels (63 vertices) changed
- 002: 83 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 27 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1337 vertices marked for relabeling...
- 1337 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 21 seconds.
- PIDs (20595 20598) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Sun Oct 8 04:15:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0051348 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Sun Oct 8 04:15:39 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0051348 rh white
- Waiting for PID 20641 of (20641 20644) to complete...
- Waiting for PID 20644 of (20641 20644) 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 0051348 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 298461
- Total vertex volume 295075 (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) = 1528850 mm^3 (det: 1.274229 )
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 1420 977 3392 2.803 0.718 0.153 0.047 32 2.7 G&S_frontomargin
- 1429 908 3098 2.762 0.493 0.130 0.030 19 1.7 G&S_occipital_inf
- 2034 1160 3528 2.440 0.704 0.132 0.058 36 5.5 G&S_paracentral
- 1747 1148 3837 2.971 0.571 0.145 0.046 31 2.9 G&S_subcentral
- 740 508 2484 3.050 0.599 0.159 0.060 23 1.7 G&S_transv_frontopol
- 2300 1549 5525 3.154 0.654 0.123 0.039 39 3.5 G&S_cingul-Ant
- 1361 914 3113 3.010 0.563 0.116 0.028 18 1.5 G&S_cingul-Mid-Ant
- 1306 888 3032 3.140 0.775 0.138 0.034 18 1.8 G&S_cingul-Mid-Post
- 759 499 2363 3.375 0.834 0.172 0.060 22 1.9 G_cingul-Post-dorsal
- 339 200 659 2.766 0.721 0.150 0.067 8 0.7 G_cingul-Post-ventral
- 2159 1281 3523 2.195 0.699 0.138 0.051 42 4.8 G_cuneus
- 1676 1088 4665 3.215 0.542 0.151 0.055 36 3.7 G_front_inf-Opercular
- 387 251 1302 3.381 0.764 0.187 0.093 17 1.9 G_front_inf-Orbital
- 885 564 2503 3.037 0.534 0.145 0.045 17 1.5 G_front_inf-Triangul
- 5407 3431 15756 3.111 0.695 0.152 0.063 126 14.7 G_front_middle
- 7236 4596 19000 3.151 0.807 0.154 0.064 164 20.7 G_front_sup
- 998 612 2065 3.014 0.847 0.150 0.081 17 4.2 G_Ins_lg&S_cent_ins
- 847 547 2557 3.434 0.901 0.151 0.075 22 2.8 G_insular_short
- 2499 1447 6515 3.053 0.599 0.140 0.038 50 3.6 G_occipital_middle
- 1754 1029 3506 2.673 0.558 0.135 0.041 31 2.9 G_occipital_sup
- 1676 1136 4753 3.317 0.585 0.158 0.044 40 3.2 G_oc-temp_lat-fusifor
- 3206 1983 5895 2.374 0.707 0.142 0.048 60 6.0 G_oc-temp_med-Lingual
- 1426 893 3965 3.302 0.778 0.137 0.052 27 2.7 G_oc-temp_med-Parahip
- 2306 1522 7400 3.384 0.746 0.144 0.056 53 5.0 G_orbital
- 3399 2218 8590 2.850 0.697 0.157 0.062 91 9.1 G_pariet_inf-Angular
- 3473 2247 8822 2.956 0.606 0.136 0.058 81 9.4 G_pariet_inf-Supramar
- 3508 2220 7318 2.534 0.621 0.155 0.060 87 9.5 G_parietal_sup
- 2822 1599 5064 2.396 0.659 0.146 0.069 81 8.5 G_postcentral
- 3308 1773 6479 2.755 0.664 0.137 0.074 72 9.9 G_precentral
- 2971 1921 8097 3.133 0.625 0.144 0.050 69 5.9 G_precuneus
- 884 540 2246 2.730 0.594 0.163 0.060 26 2.3 G_rectus
- 776 470 1361 2.547 1.157 0.151 0.093 34 3.6 G_subcallosal
- 662 371 1283 2.551 0.571 0.124 0.053 13 1.3 G_temp_sup-G_T_transv
- 2000 1290 6528 3.340 0.684 0.153 0.059 53 4.4 G_temp_sup-Lateral
- 849 568 2264 3.510 0.615 0.097 0.044 22 2.1 G_temp_sup-Plan_polar
- 1363 883 3259 3.007 0.543 0.129 0.049 22 2.7 G_temp_sup-Plan_tempo
- 3098 2012 9172 3.117 0.684 0.151 0.055 81 6.8 G_temporal_inf
- 2378 1519 7635 3.415 0.660 0.158 0.062 56 5.7 G_temporal_middle
- 284 194 596 3.092 0.457 0.086 0.016 1 0.2 Lat_Fis-ant-Horizont
- 308 205 521 2.724 0.440 0.089 0.023 1 0.3 Lat_Fis-ant-Vertical
- 1301 869 1993 2.959 0.564 0.109 0.029 9 1.6 Lat_Fis-post
- 2379 1372 3294 2.148 0.616 0.127 0.039 34 3.8 Pole_occipital
- 1942 1294 6491 3.392 0.776 0.163 0.061 43 5.1 Pole_temporal
- 2308 1581 2989 2.180 0.679 0.121 0.033 22 3.5 S_calcarine
- 3734 2477 4942 2.269 0.588 0.111 0.029 27 4.8 S_central
- 1163 792 1852 2.642 0.398 0.089 0.014 6 0.6 S_cingul-Marginalis
- 520 347 889 3.163 0.509 0.105 0.033 3 0.7 S_circular_insula_ant
- 1494 1003 2399 3.045 0.631 0.111 0.037 10 2.5 S_circular_insula_inf
- 1868 1255 2855 2.706 0.527 0.106 0.028 12 2.2 S_circular_insula_sup
- 839 586 1916 3.023 0.705 0.127 0.038 10 1.5 S_collat_transv_ant
- 465 323 657 2.467 0.473 0.133 0.031 3 0.7 S_collat_transv_post
- 2347 1559 3941 2.667 0.514 0.112 0.028 16 2.7 S_front_inf
- 1685 1151 2532 2.649 0.515 0.122 0.030 12 2.1 S_front_middle
- 3314 2224 6093 2.781 0.452 0.102 0.025 18 3.5 S_front_sup
- 780 514 1182 2.834 0.431 0.100 0.020 4 0.7 S_interm_prim-Jensen
- 3814 2710 6645 2.770 0.458 0.117 0.024 29 3.8 S_intrapariet&P_trans
- 962 669 1464 2.610 0.383 0.108 0.018 5 0.7 S_oc_middle&Lunatus
- 1920 1266 2999 2.673 0.368 0.100 0.018 10 1.5 S_oc_sup&transversal
- 812 527 1657 2.986 0.467 0.125 0.026 9 0.8 S_occipital_ant
- 1213 819 2146 2.906 0.419 0.101 0.022 7 1.0 S_oc-temp_lat
- 2044 1474 3790 2.814 0.471 0.129 0.031 25 2.6 S_oc-temp_med&Lingual
- 278 204 531 2.602 0.752 0.143 0.035 3 0.5 S_orbital_lateral
- 625 437 1029 2.487 0.789 0.138 0.038 6 1.0 S_orbital_med-olfact
- 1465 981 3103 3.245 0.756 0.131 0.036 16 2.3 S_orbital-H_Shaped
- 2194 1492 3472 2.574 0.476 0.101 0.018 17 1.6 S_parieto_occipital
- 1704 1060 2235 2.560 1.108 0.136 0.027 26 1.6 S_pericallosal
- 3064 2125 4915 2.574 0.484 0.110 0.025 24 3.2 S_postcentral
- 1828 1203 3257 2.820 0.544 0.104 0.026 12 2.0 S_precentral-inf-part
- 1554 1040 2618 2.797 0.488 0.112 0.030 13 1.9 S_precentral-sup-part
- 764 522 1417 2.875 0.669 0.122 0.027 6 0.9 S_suborbital
- 1060 710 1899 3.105 0.607 0.115 0.024 6 1.1 S_subparietal
- 1565 1057 2520 2.994 0.517 0.109 0.021 8 1.6 S_temporal_inf
- 5708 3888 11041 2.909 0.497 0.116 0.027 55 5.9 S_temporal_sup
- 473 313 642 2.546 0.292 0.100 0.018 2 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 0051348 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 295119
- Total vertex volume 291788 (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) = 1528850 mm^3 (det: 1.274229 )
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 884 584 2105 2.701 0.642 0.147 0.037 15 1.6 G&S_frontomargin
- 849 492 1916 2.885 0.565 0.130 0.039 15 1.1 G&S_occipital_inf
- 2198 1257 3792 2.423 0.693 0.133 0.070 51 6.9 G&S_paracentral
- 1828 1230 4223 2.992 0.595 0.134 0.038 24 2.8 G&S_subcentral
- 1261 807 3302 2.724 0.662 0.164 0.077 46 4.2 G&S_transv_frontopol
- 2964 2035 6939 3.124 0.671 0.132 0.043 48 5.5 G&S_cingul-Ant
- 1338 888 2914 2.985 0.642 0.127 0.036 22 2.0 G&S_cingul-Mid-Ant
- 1484 991 3134 3.063 0.603 0.125 0.031 17 1.9 G&S_cingul-Mid-Post
- 656 396 1863 3.260 0.697 0.158 0.049 16 1.2 G_cingul-Post-dorsal
- 312 207 736 2.839 0.704 0.166 0.046 7 0.6 G_cingul-Post-ventral
- 2370 1494 3886 2.196 0.632 0.151 0.046 41 4.0 G_cuneus
- 1432 968 4826 3.318 0.511 0.159 0.062 34 3.9 G_front_inf-Opercular
- 366 250 1364 3.401 0.489 0.173 0.060 8 0.9 G_front_inf-Orbital
- 608 418 2006 3.280 0.525 0.149 0.054 12 1.3 G_front_inf-Triangul
- 4311 2730 12559 3.004 0.650 0.158 0.066 123 11.6 G_front_middle
- 6077 3944 17799 3.235 0.735 0.148 0.063 130 16.6 G_front_sup
- 699 454 1823 3.528 0.949 0.140 0.086 15 2.8 G_Ins_lg&S_cent_ins
- 631 403 2463 3.830 0.900 0.147 0.057 10 1.3 G_insular_short
- 2189 1332 5276 2.920 0.596 0.144 0.044 45 3.9 G_occipital_middle
- 1878 1129 3615 2.567 0.533 0.131 0.041 32 3.0 G_occipital_sup
- 1916 1225 5318 3.191 0.771 0.151 0.066 53 5.7 G_oc-temp_lat-fusifor
- 3381 2022 6085 2.499 0.707 0.143 0.053 64 7.1 G_oc-temp_med-Lingual
- 1223 765 3897 3.376 0.827 0.143 0.071 29 4.0 G_oc-temp_med-Parahip
- 2516 1634 8589 3.470 0.806 0.152 0.061 65 6.1 G_orbital
- 4148 2493 10209 3.014 0.742 0.153 0.068 117 11.6 G_pariet_inf-Angular
- 2957 1832 7341 3.019 0.675 0.149 0.092 113 14.6 G_pariet_inf-Supramar
- 3920 2290 6712 2.320 0.614 0.152 0.068 93 11.5 G_parietal_sup
- 2593 1487 4520 2.331 0.658 0.151 0.069 72 8.3 G_postcentral
- 3857 2096 7154 2.603 0.698 0.153 0.077 107 12.3 G_precentral
- 2428 1608 5860 2.789 0.551 0.130 0.038 49 3.8 G_precuneus
- 774 540 2651 3.151 0.586 0.190 0.076 27 2.6 G_rectus
- 729 408 846 1.932 1.259 0.087 0.036 12 1.1 G_subcallosal
- 516 316 1222 2.763 0.530 0.138 0.042 10 0.7 G_temp_sup-G_T_transv
- 2586 1655 8106 3.394 0.630 0.146 0.068 66 7.7 G_temp_sup-Lateral
- 1117 772 2601 3.161 0.818 0.127 0.043 11 1.9 G_temp_sup-Plan_polar
- 1466 969 3319 3.045 0.520 0.132 0.040 18 2.7 G_temp_sup-Plan_tempo
- 2422 1459 6799 3.166 0.783 0.141 0.066 53 7.3 G_temporal_inf
- 3124 1987 10355 3.408 0.700 0.150 0.056 73 6.9 G_temporal_middle
- 324 238 624 3.086 0.570 0.099 0.020 1 0.3 Lat_Fis-ant-Horizont
- 198 139 353 2.837 0.633 0.115 0.024 1 0.2 Lat_Fis-ant-Vertical
- 1707 1143 2799 3.017 0.478 0.113 0.029 14 2.0 Lat_Fis-post
- 3458 2031 5331 2.329 0.684 0.133 0.038 52 5.6 Pole_occipital
- 1503 1003 4615 3.202 0.815 0.165 0.067 43 4.2 Pole_temporal
- 2469 1616 3088 2.253 0.799 0.126 0.031 23 3.2 S_calcarine
- 3921 2543 4795 2.176 0.505 0.114 0.036 34 5.9 S_central
- 1563 1070 2453 2.574 0.443 0.097 0.020 9 1.2 S_cingul-Marginalis
- 537 367 1024 3.189 0.519 0.107 0.058 10 0.8 S_circular_insula_ant
- 1228 801 1858 2.788 0.669 0.086 0.018 5 1.0 S_circular_insula_inf
- 1461 976 2378 2.947 0.554 0.103 0.026 7 1.7 S_circular_insula_sup
- 636 461 1404 2.945 0.474 0.122 0.031 5 0.9 S_collat_transv_ant
- 517 361 914 2.913 0.644 0.138 0.033 5 0.7 S_collat_transv_post
- 2110 1444 3659 2.650 0.563 0.112 0.035 33 3.3 S_front_inf
- 2568 1719 4186 2.378 0.564 0.129 0.037 30 4.0 S_front_middle
- 2987 2095 5167 2.609 0.501 0.107 0.026 16 3.4 S_front_sup
- 670 421 974 2.759 0.417 0.110 0.027 4 0.8 S_interm_prim-Jensen
- 4536 2992 7538 2.700 0.428 0.107 0.027 38 4.7 S_intrapariet&P_trans
- 699 473 957 2.355 0.410 0.108 0.018 5 0.5 S_oc_middle&Lunatus
- 1753 1193 2631 2.624 0.442 0.108 0.022 11 1.6 S_oc_sup&transversal
- 574 382 930 2.808 0.549 0.108 0.024 4 0.5 S_occipital_ant
- 1222 833 2005 2.721 0.469 0.120 0.024 10 1.3 S_oc-temp_lat
- 1803 1287 3220 2.921 0.536 0.107 0.021 11 1.5 S_oc-temp_med&Lingual
- 372 270 687 2.894 0.576 0.125 0.031 3 0.5 S_orbital_lateral
- 530 356 937 2.606 0.724 0.124 0.036 4 0.7 S_orbital_med-olfact
- 1304 853 2659 3.077 0.665 0.118 0.039 14 1.8 S_orbital-H_Shaped
- 2413 1627 4113 2.783 0.562 0.126 0.030 31 3.0 S_parieto_occipital
- 1490 932 1600 2.259 0.757 0.131 0.027 23 1.3 S_pericallosal
- 3455 2260 5289 2.619 0.450 0.104 0.028 26 4.1 S_postcentral
- 2127 1425 3593 2.898 0.542 0.103 0.023 11 2.2 S_precentral-inf-part
- 1598 1069 2612 2.674 0.472 0.117 0.029 12 2.0 S_precentral-sup-part
- 338 248 573 2.395 0.491 0.121 0.046 3 0.7 S_suborbital
- 1150 800 2528 3.317 0.569 0.111 0.025 9 1.0 S_subparietal
- 919 626 1696 2.954 0.609 0.111 0.028 5 1.1 S_temporal_inf
- 7302 4970 13924 3.026 0.494 0.105 0.023 53 7.3 S_temporal_sup
- 443 299 548 2.333 0.410 0.115 0.023 3 0.4 S_temporal_transverse
- PIDs (20641 20644) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Sun Oct 8 04:16:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051348 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 04:16:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051348 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 20745 of (20745 20748) to complete...
- Waiting for PID 20748 of (20745 20748) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051348 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...
- 2041 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2159 changed, 145874 examined...
- 001: 511 changed, 10044 examined...
- 002: 143 changed, 2959 examined...
- 003: 60 changed, 806 examined...
- 004: 29 changed, 341 examined...
- 005: 22 changed, 172 examined...
- 006: 19 changed, 109 examined...
- 007: 11 changed, 88 examined...
- 008: 10 changed, 66 examined...
- 009: 7 changed, 61 examined...
- 010: 9 changed, 41 examined...
- 011: 4 changed, 43 examined...
- 012: 2 changed, 26 examined...
- 013: 1 changed, 12 examined...
- 014: 1 changed, 5 examined...
- 015: 1 changed, 7 examined...
- 016: 0 changed, 9 examined...
- 310 labels changed using aseg
- 000: 78 total segments, 45 labels (492 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 7 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 887 vertices marked for relabeling...
- 887 labels changed in reclassification.
- writing output to ../label/lh.aparc.DKTatlas.annot...
- classification took 0 minutes and 17 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051348 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...
- 1589 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2302 changed, 145578 examined...
- 001: 555 changed, 10437 examined...
- 002: 149 changed, 3148 examined...
- 003: 62 changed, 893 examined...
- 004: 38 changed, 342 examined...
- 005: 29 changed, 213 examined...
- 006: 25 changed, 158 examined...
- 007: 10 changed, 123 examined...
- 008: 9 changed, 62 examined...
- 009: 6 changed, 44 examined...
- 010: 3 changed, 28 examined...
- 011: 1 changed, 22 examined...
- 012: 2 changed, 7 examined...
- 013: 3 changed, 12 examined...
- 014: 4 changed, 15 examined...
- 015: 4 changed, 24 examined...
- 016: 4 changed, 20 examined...
- 017: 6 changed, 20 examined...
- 018: 4 changed, 25 examined...
- 019: 9 changed, 18 examined...
- 020: 3 changed, 31 examined...
- 021: 1 changed, 17 examined...
- 022: 2 changed, 7 examined...
- 023: 1 changed, 12 examined...
- 024: 1 changed, 7 examined...
- 025: 1 changed, 7 examined...
- 026: 0 changed, 7 examined...
- 334 labels changed using aseg
- 000: 63 total segments, 30 labels (661 vertices) changed
- 001: 36 total segments, 3 labels (3 vertices) changed
- 002: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 12 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 736 vertices marked for relabeling...
- 736 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 18 seconds.
- PIDs (20745 20748) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Sun Oct 8 04:16:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0051348 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Sun Oct 8 04:16:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0051348 rh white
- Waiting for PID 20791 of (20791 20794) to complete...
- Waiting for PID 20794 of (20791 20794) 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 0051348 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 298461
- Total vertex volume 295075 (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) = 1528850 mm^3 (det: 1.274229 )
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 1797 1159 3776 3.025 0.610 0.128 0.029 27 2.1 caudalanteriorcingulate
- 4379 2832 9327 2.914 0.567 0.125 0.049 59 9.3 caudalmiddlefrontal
- 3082 1882 5057 2.326 0.595 0.116 0.038 45 5.0 cuneus
- 644 412 1746 3.182 0.931 0.138 0.047 11 1.4 entorhinal
- 3932 2716 9414 3.069 0.599 0.140 0.039 71 6.6 fusiform
- 8956 5901 19297 2.884 0.585 0.135 0.040 150 15.0 inferiorparietal
- 5398 3576 13895 3.036 0.655 0.140 0.046 103 10.3 inferiortemporal
- 1712 1114 3326 2.645 0.812 0.140 0.040 32 2.4 isthmuscingulate
- 7886 4781 13977 2.568 0.584 0.129 0.035 110 11.1 lateraloccipital
- 4255 2855 10522 3.174 0.802 0.141 0.047 71 8.3 lateralorbitofrontal
- 4711 3048 8282 2.463 0.686 0.136 0.041 72 7.7 lingual
- 2259 1455 4812 2.689 0.765 0.152 0.055 52 5.6 medialorbitofrontal
- 5887 3855 15519 3.230 0.657 0.134 0.044 98 9.6 middletemporal
- 945 605 2327 3.146 0.637 0.119 0.036 12 1.2 parahippocampal
- 2715 1695 5195 2.744 0.658 0.117 0.043 30 5.1 paracentral
- 2635 1713 6239 2.992 0.597 0.136 0.046 42 5.0 parsopercularis
- 941 612 2335 3.159 0.528 0.133 0.052 17 2.1 parsorbitalis
- 2116 1389 4572 2.859 0.605 0.123 0.036 26 3.2 parstriangularis
- 1795 1256 1945 1.810 0.455 0.137 0.042 20 3.6 pericalcarine
- 8118 5047 13540 2.383 0.661 0.131 0.049 144 17.2 postcentral
- 2015 1335 4248 2.898 0.995 0.151 0.041 37 3.1 posteriorcingulate
- 8627 5216 15680 2.754 0.603 0.126 0.049 126 17.3 precentral
- 5808 3826 12786 3.000 0.610 0.125 0.034 90 7.8 precuneus
- 1895 1213 4673 3.247 0.924 0.140 0.059 59 4.8 rostralanteriorcingulate
- 6728 4425 17223 2.974 0.725 0.141 0.047 125 13.3 rostralmiddlefrontal
- 11854 7821 28643 3.032 0.736 0.135 0.049 201 24.9 superiorfrontal
- 7452 4998 14265 2.616 0.558 0.134 0.039 116 13.0 superiorparietal
- 7703 5081 18915 3.142 0.668 0.127 0.044 131 14.7 superiortemporal
- 6790 4554 15089 2.929 0.557 0.123 0.041 108 12.6 supramarginal
- 823 471 1504 2.621 0.578 0.123 0.057 15 1.8 transversetemporal
- 3308 2158 6947 3.138 0.749 0.129 0.054 47 8.5 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 0051348 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 295119
- Total vertex volume 291788 (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) = 1528850 mm^3 (det: 1.274229 )
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 951 591 1700 2.720 0.690 0.135 0.035 18 1.4 caudalanteriorcingulate
- 3834 2532 8413 2.987 0.557 0.127 0.043 61 6.8 caudalmiddlefrontal
- 3058 1929 5218 2.382 0.593 0.146 0.039 50 4.7 cuneus
- 385 260 1417 3.581 0.778 0.137 0.039 4 0.6 entorhinal
- 3770 2563 9083 3.057 0.674 0.134 0.046 68 7.5 fusiform
- 9516 6184 20429 2.977 0.599 0.131 0.040 150 15.8 inferiorparietal
- 4309 2785 10263 2.977 0.745 0.136 0.052 71 10.0 inferiortemporal
- 1445 917 2701 2.649 0.969 0.143 0.037 28 2.0 isthmuscingulate
- 6965 4265 12184 2.601 0.581 0.127 0.036 95 9.8 lateraloccipital
- 4004 2616 10087 3.116 0.815 0.145 0.054 80 8.7 lateralorbitofrontal
- 4952 3100 8697 2.548 0.710 0.136 0.042 77 8.5 lingual
- 2283 1508 5300 2.605 0.990 0.141 0.054 50 5.4 medialorbitofrontal
- 6450 4174 16984 3.209 0.660 0.128 0.042 105 11.1 middletemporal
- 1106 694 2554 3.061 0.695 0.123 0.061 22 3.1 parahippocampal
- 2882 1836 5467 2.768 0.621 0.112 0.039 38 4.6 paracentral
- 2264 1523 5374 2.958 0.623 0.129 0.043 30 4.2 parsopercularis
- 964 639 3099 3.394 0.641 0.138 0.046 15 1.8 parsorbitalis
- 1735 1228 4102 3.013 0.642 0.120 0.033 18 2.3 parstriangularis
- 2394 1526 2436 1.804 0.507 0.141 0.041 32 3.9 pericalcarine
- 8287 5152 13878 2.419 0.684 0.129 0.051 142 18.6 postcentral
- 1956 1300 3956 2.862 0.673 0.135 0.032 30 2.5 posteriorcingulate
- 9656 5836 17233 2.641 0.633 0.135 0.055 174 22.2 precentral
- 5995 4042 12579 2.871 0.621 0.125 0.034 90 8.0 precuneus
- 1432 936 3429 3.302 0.672 0.126 0.043 25 2.6 rostralanteriorcingulate
- 6949 4495 15683 2.693 0.718 0.140 0.050 144 15.2 rostralmiddlefrontal
- 12350 8358 30480 2.997 0.710 0.136 0.049 211 26.1 superiorfrontal
- 9210 5718 15542 2.508 0.552 0.125 0.044 140 16.9 superiorparietal
- 8389 5488 21034 3.185 0.662 0.121 0.042 125 15.0 superiortemporal
- 6616 4226 13764 2.899 0.613 0.134 0.064 165 21.8 supramarginal
- 686 426 1404 2.632 0.443 0.129 0.036 11 0.8 transversetemporal
- 3100 2044 7297 3.376 0.793 0.123 0.054 43 6.4 insula
- PIDs (20791 20794) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Sun Oct 8 04:17:37 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- pctsurfcon --s 0051348 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Sun Oct 8 04:17:37 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts
- pctsurfcon --s 0051348 --rh-only
- Waiting for PID 20861 of (20861 20872) to complete...
- Waiting for PID 20872 of (20861 20872) to complete...
- pctsurfcon --s 0051348 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts/pctsurfcon.log
- Sun Oct 8 04:17:37 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-6.0.0/0051348/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-553 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-6.0.0/0051348/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/tmp.pctsurfcon.20861/lh.wm.mgh --regheader 0051348 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 -0.00001;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 = 74697
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/tmp.pctsurfcon.20861/lh.wm.mgh
- Dim: 145874 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/tmp.pctsurfcon.20861/lh.gm.mgh --projfrac 0.3 --regheader 0051348 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 -0.00001;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 = 93173
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/tmp.pctsurfcon.20861/lh.gm.mgh
- Dim: 145874 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/tmp.pctsurfcon.20861/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/tmp.pctsurfcon.20861/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.w-g.pct.mgh --annot 0051348 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/surf/lh.w-g.pct.mgh --annot 0051348 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-553
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/surf/lh.w-g.pct.mgh
- Vertex Area is 0.64788 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 0051348 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/scripts/pctsurfcon.log
- Sun Oct 8 04:17:37 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-6.0.0/0051348/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-553 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-6.0.0/0051348/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/tmp.pctsurfcon.20872/rh.wm.mgh --regheader 0051348 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 -0.00001;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 = 74420
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/tmp.pctsurfcon.20872/rh.wm.mgh
- Dim: 145578 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/tmp.pctsurfcon.20872/rh.gm.mgh --projfrac 0.3 --regheader 0051348 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 -0.00001;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 = 92828
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/tmp.pctsurfcon.20872/rh.gm.mgh
- Dim: 145578 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/tmp.pctsurfcon.20872/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/tmp.pctsurfcon.20872/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.w-g.pct.mgh --annot 0051348 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/surf/rh.w-g.pct.mgh --annot 0051348 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-553
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/surf/rh.w-g.pct.mgh
- Vertex Area is 0.645438 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 (20861 20872) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Sun Oct 8 04:17:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 1626 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 1436 voxels changed to hypointensity...
- 3006 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Sun Oct 8 04:18:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348
- mri_aparc2aseg --s 0051348 --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 04:18:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348
- mri_aparc2aseg --s 0051348 --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 04:18:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348
- mri_aparc2aseg --s 0051348 --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 21038 of (21038 21041 21044) to complete...
- Waiting for PID 21041 of (21038 21041 21044) to complete...
- Waiting for PID 21044 of (21038 21041 21044) to complete...
- mri_aparc2aseg --s 0051348 --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 0051348
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/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-6.0.0/0051348/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 6.83
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 106
- rescaling Left_Cerebral_Cortex from 61 --> 69
- rescaling Left_Lateral_Ventricle from 13 --> 25
- rescaling Left_Inf_Lat_Vent from 34 --> 38
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 65
- rescaling Left_Thalamus from 94 --> 104
- rescaling Left_Thalamus_Proper from 84 --> 87
- rescaling Left_Caudate from 75 --> 69
- rescaling Left_Putamen from 80 --> 79
- rescaling Left_Pallidum from 98 --> 93
- rescaling Third_Ventricle from 25 --> 38
- rescaling Fourth_Ventricle from 22 --> 25
- rescaling Brain_Stem from 81 --> 84
- rescaling Left_Hippocampus from 57 --> 66
- rescaling Left_Amygdala from 56 --> 69
- rescaling CSF from 32 --> 53
- rescaling Left_Accumbens_area from 62 --> 63
- rescaling Left_VentralDC from 87 --> 87
- rescaling Right_Cerebral_White_Matter from 105 --> 104
- rescaling Right_Cerebral_Cortex from 58 --> 69
- rescaling Right_Lateral_Ventricle from 13 --> 22
- rescaling Right_Inf_Lat_Vent from 25 --> 28
- rescaling Right_Cerebellum_White_Matter from 87 --> 83
- rescaling Right_Cerebellum_Cortex from 59 --> 62
- rescaling Right_Thalamus_Proper from 85 --> 83
- rescaling Right_Caudate from 62 --> 76
- rescaling Right_Putamen from 80 --> 81
- rescaling Right_Pallidum from 97 --> 91
- rescaling Right_Hippocampus from 53 --> 66
- rescaling Right_Amygdala from 55 --> 66
- rescaling Right_Accumbens_area from 65 --> 74
- rescaling Right_VentralDC from 86 --> 84
- rescaling Fifth_Ventricle from 40 --> 46
- rescaling WM_hypointensities from 78 --> 78
- rescaling non_WM_hypointensities from 40 --> 56
- 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 = 579829
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 212 changed.
- pass 2: 13 changed.
- pass 3: 3 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0051348 --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 0051348
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/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-6.0.0/0051348/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 6.83
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 106
- rescaling Left_Cerebral_Cortex from 61 --> 69
- rescaling Left_Lateral_Ventricle from 13 --> 25
- rescaling Left_Inf_Lat_Vent from 34 --> 38
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 65
- rescaling Left_Thalamus from 94 --> 104
- rescaling Left_Thalamus_Proper from 84 --> 87
- rescaling Left_Caudate from 75 --> 69
- rescaling Left_Putamen from 80 --> 79
- rescaling Left_Pallidum from 98 --> 93
- rescaling Third_Ventricle from 25 --> 38
- rescaling Fourth_Ventricle from 22 --> 25
- rescaling Brain_Stem from 81 --> 84
- rescaling Left_Hippocampus from 57 --> 66
- rescaling Left_Amygdala from 56 --> 69
- rescaling CSF from 32 --> 53
- rescaling Left_Accumbens_area from 62 --> 63
- rescaling Left_VentralDC from 87 --> 87
- rescaling Right_Cerebral_White_Matter from 105 --> 104
- rescaling Right_Cerebral_Cortex from 58 --> 69
- rescaling Right_Lateral_Ventricle from 13 --> 22
- rescaling Right_Inf_Lat_Vent from 25 --> 28
- rescaling Right_Cerebellum_White_Matter from 87 --> 83
- rescaling Right_Cerebellum_Cortex from 59 --> 62
- rescaling Right_Thalamus_Proper from 85 --> 83
- rescaling Right_Caudate from 62 --> 76
- rescaling Right_Putamen from 80 --> 81
- rescaling Right_Pallidum from 97 --> 91
- rescaling Right_Hippocampus from 53 --> 66
- rescaling Right_Amygdala from 55 --> 66
- rescaling Right_Accumbens_area from 65 --> 74
- rescaling Right_VentralDC from 86 --> 84
- rescaling Fifth_Ventricle from 40 --> 46
- rescaling WM_hypointensities from 78 --> 78
- rescaling non_WM_hypointensities from 40 --> 56
- 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 = 579907
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 212 changed.
- pass 2: 13 changed.
- pass 3: 3 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0051348 --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 0051348
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/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-6.0.0/0051348/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 6.83
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 106
- rescaling Left_Cerebral_Cortex from 61 --> 69
- rescaling Left_Lateral_Ventricle from 13 --> 25
- rescaling Left_Inf_Lat_Vent from 34 --> 38
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 65
- rescaling Left_Thalamus from 94 --> 104
- rescaling Left_Thalamus_Proper from 84 --> 87
- rescaling Left_Caudate from 75 --> 69
- rescaling Left_Putamen from 80 --> 79
- rescaling Left_Pallidum from 98 --> 93
- rescaling Third_Ventricle from 25 --> 38
- rescaling Fourth_Ventricle from 22 --> 25
- rescaling Brain_Stem from 81 --> 84
- rescaling Left_Hippocampus from 57 --> 66
- rescaling Left_Amygdala from 56 --> 69
- rescaling CSF from 32 --> 53
- rescaling Left_Accumbens_area from 62 --> 63
- rescaling Left_VentralDC from 87 --> 87
- rescaling Right_Cerebral_White_Matter from 105 --> 104
- rescaling Right_Cerebral_Cortex from 58 --> 69
- rescaling Right_Lateral_Ventricle from 13 --> 22
- rescaling Right_Inf_Lat_Vent from 25 --> 28
- rescaling Right_Cerebellum_White_Matter from 87 --> 83
- rescaling Right_Cerebellum_Cortex from 59 --> 62
- rescaling Right_Thalamus_Proper from 85 --> 83
- rescaling Right_Caudate from 62 --> 76
- rescaling Right_Putamen from 80 --> 81
- rescaling Right_Pallidum from 97 --> 91
- rescaling Right_Hippocampus from 53 --> 66
- rescaling Right_Amygdala from 55 --> 66
- rescaling Right_Accumbens_area from 65 --> 74
- rescaling Right_VentralDC from 86 --> 84
- rescaling Fifth_Ventricle from 40 --> 46
- rescaling WM_hypointensities from 78 --> 78
- rescaling non_WM_hypointensities from 40 --> 56
- 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 = 579907
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 212 changed.
- pass 2: 13 changed.
- pass 3: 3 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (21038 21041 21044) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Sun Oct 8 04:29:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Sun Oct 8 04:29:21 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-6.0.0/0051348/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-553 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-6.0.0/0051348/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-553
- 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 04:29:21 CEST 2017
- Ended at Sun Oct 8 04:29:28 CEST 2017
- Apas2aseg-Run-Time-Sec 7
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Sun Oct 8 04:29:28 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348
- 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 0051348
- $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 0051348
- sysname Linux
- hostname tars-553
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1528850 mm^3 (det: 1.274229 )
- Computing euler number
- orig.nofix lheno = -344, rheno = -294
- orig.nofix lhholes = 173, rhholes = 148
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 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 04:33:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348
- mri_aparc2aseg --s 0051348 --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 0051348
- 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-6.0.0/0051348/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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-6.0.0/0051348/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 8711 vertices from left hemi
- Ripped 7702 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-6.0.0/0051348/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 = 963420
- Used brute-force search on 30 voxels
- Fixing Parahip LH WM
- Found 6 clusters
- 0 k 1.000000
- 1 k 2.000000
- 2 k 976.000000
- 3 k 1.000000
- 4 k 1.000000
- 5 k 4.000000
- Fixing Parahip RH WM
- Found 8 clusters
- 0 k 5.000000
- 1 k 1.000000
- 2 k 1.000000
- 3 k 1.000000
- 4 k 4.000000
- 5 k 1.000000
- 6 k 1.000000
- 7 k 1166.000000
- 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 0051348 --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 0051348 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-553
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1528850 mm^3 (det: 1.274229 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 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-6.0.0/0051348/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Sun Oct 8 04:43:42 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 0051348 --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 0051348 --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 0051348 --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 0051348 --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 0051348 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 22059 of (22059 22065 22071 22075 22082) to complete...
- Waiting for PID 22065 of (22059 22065 22071 22075 22082) to complete...
- Waiting for PID 22071 of (22059 22065 22071 22075 22082) to complete...
- Waiting for PID 22075 of (22059 22065 22071 22075 22082) to complete...
- Waiting for PID 22082 of (22059 22065 22071 22075 22082) 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 554
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 4683
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 772
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 8681
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 262
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4339
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 519
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 6502
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 986
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 6770
- mri_label2label: Done
- PIDs (22059 22065 22071 22075 22082) 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 0051348 --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 0051348 --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 0051348 --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 0051348 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 22144 of (22144 22150 22156 22161) to complete...
- Waiting for PID 22150 of (22144 22150 22156 22161) to complete...
- Waiting for PID 22156 of (22144 22150 22156 22161) to complete...
- Waiting for PID 22161 of (22144 22150 22156 22161) 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 482
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4552
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 2062
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 15651
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 597
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 4778
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 582
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 4004
- mri_label2label: Done
- PIDs (22144 22150 22156 22161) 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 0051348 --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 0051348 --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 0051348 --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 0051348 --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 0051348 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 22201 of (22201 22207 22213 22219 22223) to complete...
- Waiting for PID 22207 of (22201 22207 22213 22219 22223) to complete...
- Waiting for PID 22213 of (22201 22207 22213 22219 22223) to complete...
- Waiting for PID 22219 of (22201 22207 22213 22219 22223) to complete...
- Waiting for PID 22223 of (22201 22207 22213 22219 22223) 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 1287
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 5928
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 3171
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 11285
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 372
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 2390
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 121
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1411
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 114
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1313
- mri_label2label: Done
- PIDs (22201 22207 22213 22219 22223) 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 0051348 --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 0051348 --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 0051348 --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 0051348 --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 0051348 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 22313 of (22313 22319 22325 22331 22336) to complete...
- Waiting for PID 22319 of (22313 22319 22325 22331 22336) to complete...
- Waiting for PID 22325 of (22313 22319 22325 22331 22336) to complete...
- Waiting for PID 22331 of (22313 22319 22325 22331 22336) to complete...
- Waiting for PID 22336 of (22313 22319 22325 22331 22336) 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 161
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.thresh.label 1175
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 303
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 2395
- mri_label2label: Done
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3a_exvivo.thresh.label --trgsubject 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 64
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1568
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 181
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2177
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 295
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 2614
- mri_label2label: Done
- PIDs (22313 22319 22325 22331 22336) 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 0051348 --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 0051348 --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 0051348 --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 0051348 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 22379 of (22379 22385 22391 22397) to complete...
- Waiting for PID 22385 of (22379 22385 22391 22397) to complete...
- Waiting for PID 22391 of (22379 22385 22391 22397) to complete...
- Waiting for PID 22397 of (22379 22385 22391 22397) 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 204
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1753
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 1148
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 8183
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 305
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 2217
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 213
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1364
- mri_label2label: Done
- PIDs (22379 22385 22391 22397) 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 0051348 --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 0051348 --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 0051348 --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 0051348 --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 0051348 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 22436 of (22436 22442 22448 22454 22460) to complete...
- Waiting for PID 22442 of (22436 22442 22448 22454 22460) to complete...
- Waiting for PID 22448 of (22436 22442 22448 22454 22460) to complete...
- Waiting for PID 22454 of (22436 22442 22448 22454 22460) to complete...
- Waiting for PID 22460 of (22436 22442 22448 22454 22460) 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 886
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 4291
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 1388
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 4722
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 85
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 598
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 39
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 509
- mri_label2label: Done
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.perirhinal_exvivo.thresh.label --trgsubject 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145874
- Number of reverse mapping hits = 49
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 499
- mri_label2label: Done
- PIDs (22436 22442 22448 22454 22460) completed and logs appended.
- mris_label2annot --s 0051348 --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-6.0.0/0051348/label
- cmdline mris_label2annot --s 0051348 --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-553
- machine x86_64
- user ntraut
- subject 0051348
- 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-6.0.0/0051348/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 101874 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/lh.BA_exvivo.annot
- mris_label2annot --s 0051348 --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-6.0.0/0051348/label
- cmdline mris_label2annot --s 0051348 --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-553
- machine x86_64
- user ntraut
- subject 0051348
- 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-6.0.0/0051348/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 119513 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0051348 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 298461
- Total vertex volume 295075 (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) = 1528850 mm^3 (det: 1.274229 )
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 1327 725 2278 2.407 0.682 0.164 0.088 47 5.2 BA1_exvivo
- 4308 2826 7852 2.606 0.575 0.124 0.037 65 7.0 BA2_exvivo
- 1181 798 1329 2.070 0.477 0.129 0.031 11 1.5 BA3a_exvivo
- 2711 1737 4322 2.209 0.648 0.119 0.034 34 3.6 BA3b_exvivo
- 1868 1101 3548 2.687 0.636 0.125 0.052 25 4.3 BA4a_exvivo
- 1668 975 2569 2.697 0.507 0.111 0.047 19 3.5 BA4p_exvivo
- 10326 6396 22270 2.943 0.712 0.134 0.058 176 25.5 BA6_exvivo
- 2657 1747 6169 3.008 0.588 0.139 0.046 44 5.1 BA44_exvivo
- 2754 1827 6125 2.827 0.601 0.132 0.040 40 4.9 BA45_exvivo
- 3379 2190 3866 1.774 0.491 0.132 0.043 40 6.5 V1_exvivo
- 8629 5261 14332 2.428 0.583 0.132 0.042 138 14.4 V2_exvivo
- 1936 1200 4361 2.945 0.501 0.129 0.031 28 2.5 MT_exvivo
- 599 367 1676 3.249 0.737 0.126 0.048 8 1.2 perirhinal_exvivo
- 657 437 1588 3.111 0.848 0.132 0.040 9 1.0 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 0051348 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 298461
- Total vertex volume 295075 (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) = 1528850 mm^3 (det: 1.274229 )
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 837 449 1387 2.375 0.651 0.166 0.081 22 3.0 BA1_exvivo
- 1831 1132 3208 2.521 0.562 0.118 0.042 33 3.1 BA2_exvivo
- 1005 690 1070 2.046 0.477 0.136 0.032 9 1.3 BA3a_exvivo
- 1634 1077 2235 1.954 0.433 0.105 0.025 13 1.7 BA3b_exvivo
- 1865 1110 3451 2.764 0.579 0.122 0.048 22 4.1 BA4a_exvivo
- 1302 791 2008 2.639 0.516 0.111 0.046 15 2.6 BA4p_exvivo
- 5938 3541 11577 2.803 0.721 0.140 0.070 121 18.6 BA6_exvivo
- 1722 1137 4391 3.040 0.603 0.149 0.055 36 3.9 BA44_exvivo
- 1142 735 2894 2.962 0.505 0.132 0.037 17 1.7 BA45_exvivo
- 3645 2333 4208 1.787 0.491 0.132 0.044 46 7.1 V1_exvivo
- 4297 2578 6564 2.301 0.581 0.134 0.039 64 6.7 V2_exvivo
- 485 302 1151 2.942 0.515 0.141 0.037 7 0.7 MT_exvivo
- 300 183 819 3.253 0.616 0.111 0.031 2 0.4 perirhinal_exvivo
- 358 242 947 3.391 0.941 0.140 0.039 4 0.7 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Sun Oct 8 04:47:44 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 0051348 --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 0051348 --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 0051348 --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 0051348 --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 0051348 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 22623 of (22623 22629 22635 22639 22647) to complete...
- Waiting for PID 22629 of (22623 22629 22635 22639 22647) to complete...
- Waiting for PID 22635 of (22623 22629 22635 22639 22647) to complete...
- Waiting for PID 22639 of (22623 22629 22635 22639 22647) to complete...
- Waiting for PID 22647 of (22623 22629 22635 22639 22647) 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 667
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 4629
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 920
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 7607
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 319
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4299
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 502
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 5024
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 1170
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 6917
- mri_label2label: Done
- PIDs (22623 22629 22635 22639 22647) 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 0051348 --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 0051348 --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 0051348 --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 0051348 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 22704 of (22704 22710 22716 22721) to complete...
- Waiting for PID 22710 of (22704 22710 22716 22721) to complete...
- Waiting for PID 22716 of (22704 22710 22716 22721) to complete...
- Waiting for PID 22721 of (22704 22710 22716 22721) 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 766
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 5239
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 1854
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 14110
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 1037
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 7949
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 751
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 6106
- mri_label2label: Done
- PIDs (22704 22710 22716 22721) 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 0051348 --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 0051348 --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 0051348 --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 0051348 --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 0051348 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 22761 of (22761 22767 22773 22779 22784) to complete...
- Waiting for PID 22767 of (22761 22767 22773 22779 22784) to complete...
- Waiting for PID 22773 of (22761 22767 22773 22779 22784) to complete...
- Waiting for PID 22779 of (22761 22767 22773 22779 22784) to complete...
- Waiting for PID 22784 of (22761 22767 22773 22779 22784) 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 1848
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 6575
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 3210
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 11226
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 224
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.label 2156
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 105
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1143
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 78
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 830
- mri_label2label: Done
- PIDs (22761 22767 22773 22779 22784) 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 0051348 --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 0051348 --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 0051348 --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 0051348 --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 0051348 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 22845 of (22845 22851 22856 22861 22869) to complete...
- Waiting for PID 22851 of (22845 22851 22856 22861 22869) to complete...
- Waiting for PID 22856 of (22845 22851 22856 22861 22869) to complete...
- Waiting for PID 22861 of (22845 22851 22856 22861 22869) to complete...
- Waiting for PID 22869 of (22845 22851 22856 22861 22869) 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 176
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 1052
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 353
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 3041
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 107
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1805
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 180
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2363
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 241
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1629
- mri_label2label: Done
- PIDs (22845 22851 22856 22861 22869) 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 0051348 --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 0051348 --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 0051348 --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 0051348 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 22916 of (22916 22922 22928 22934) to complete...
- Waiting for PID 22922 of (22916 22922 22928 22934) to complete...
- Waiting for PID 22928 of (22916 22922 22928 22934) to complete...
- Waiting for PID 22934 of (22916 22922 22928 22934) 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 249
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1738
- mri_label2label: Done
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/rh.BA6_exvivo.thresh.label --trgsubject 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 1068
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 8027
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 133
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1145
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 118
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1296
- mri_label2label: Done
- PIDs (22916 22922 22928 22934) 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 0051348 --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 0051348 --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 0051348 --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 0051348 --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 0051348 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 22973 of (22973 22979 22985 22990 22995) to complete...
- Waiting for PID 22979 of (22973 22979 22985 22990 22995) to complete...
- Waiting for PID 22985 of (22973 22979 22985 22990 22995) to complete...
- Waiting for PID 22990 of (22973 22979 22985 22990 22995) to complete...
- Waiting for PID 22995 of (22973 22979 22985 22990 22995) 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 1195
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 4427
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 1594
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 5031
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 19
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 287
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 50
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.thresh.label 744
- 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 0051348 --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 = 0051348
- 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-6.0.0/0051348/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 145578
- Number of reverse mapping hits = 33
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 324
- mri_label2label: Done
- PIDs (22973 22979 22985 22990 22995) completed and logs appended.
- mris_label2annot --s 0051348 --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-6.0.0/0051348/label
- cmdline mris_label2annot --s 0051348 --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-553
- machine x86_64
- user ntraut
- subject 0051348
- 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-6.0.0/0051348/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 101178 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/label/rh.BA_exvivo.annot
- mris_label2annot --s 0051348 --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-6.0.0/0051348/label
- cmdline mris_label2annot --s 0051348 --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-553
- machine x86_64
- user ntraut
- subject 0051348
- 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-6.0.0/0051348/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 120056 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/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 0051348 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 295119
- Total vertex volume 291788 (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) = 1528850 mm^3 (det: 1.274229 )
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 1168 621 1987 2.306 0.629 0.156 0.083 38 4.7 BA1_exvivo
- 4029 2522 6633 2.574 0.540 0.119 0.042 60 7.3 BA2_exvivo
- 1309 863 1321 2.004 0.434 0.125 0.034 11 1.8 BA3a_exvivo
- 2367 1548 3651 2.044 0.524 0.123 0.042 31 4.1 BA3b_exvivo
- 2126 1212 3614 2.570 0.606 0.134 0.063 49 5.6 BA4a_exvivo
- 1751 1053 2679 2.577 0.461 0.115 0.048 17 3.3 BA4p_exvivo
- 8640 5364 18904 2.929 0.742 0.138 0.060 168 22.4 BA6_exvivo
- 4060 2739 9087 2.966 0.610 0.121 0.034 45 5.6 BA44_exvivo
- 3731 2538 9720 3.033 0.682 0.138 0.051 77 8.3 BA45_exvivo
- 4212 2582 4966 1.854 0.558 0.145 0.044 65 7.9 V1_exvivo
- 8513 5255 14687 2.552 0.597 0.135 0.041 129 13.7 V2_exvivo
- 1646 1036 3494 2.945 0.547 0.126 0.036 25 2.2 MT_exvivo
- 533 338 1747 3.607 0.657 0.148 0.050 10 1.2 perirhinal_exvivo
- 315 216 1211 3.672 0.690 0.141 0.053 6 0.6 entorhinal_exvivo
- mris_anatomical_stats -th3 -mgz -f ../stats/rh.BA_exvivo.thresh.stats -b -a ./rh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 0051348 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051348/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 295119
- Total vertex volume 291788 (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) = 1528850 mm^3 (det: 1.274229 )
- lhCtxGM: 292852.920 292167.000 diff= 685.9 pctdiff= 0.234
- rhCtxGM: 289186.484 288228.000 diff= 958.5 pctdiff= 0.331
- lhCtxWM: 195089.304 195334.000 diff= -244.7 pctdiff=-0.125
- rhCtxWM: 189816.852 191319.000 diff=-1502.1 pctdiff=-0.791
- SubCortGMVol 61024.000
- SupraTentVol 1053515.560 (1050738.000) diff=2777.560 pctdiff=0.264
- SupraTentVolNotVent 1030865.560 (1028088.000) diff=2777.560 pctdiff=0.269
- BrainSegVol 1225672.000 (1222135.000) diff=3537.000 pctdiff=0.289
- BrainSegVolNotVent 1198124.000 (1197916.560) diff=207.440 pctdiff=0.017
- BrainSegVolNotVent 1198124.000
- CerebellumVol 169931.000
- VentChorVol 22650.000
- 3rd4th5thCSF 4898.000
- CSFVol 1361.000, OptChiasmVol 105.000
- MaskVol 1589178.000
- 797 426 1209 2.141 0.585 0.166 0.065 30 2.4 BA1_exvivo
- 2239 1374 3830 2.532 0.549 0.122 0.052 36 5.3 BA2_exvivo
- 1221 800 1118 1.978 0.404 0.125 0.031 10 1.6 BA3a_exvivo
- 1744 1176 2360 1.905 0.370 0.103 0.029 12 1.9 BA3b_exvivo
- 1241 704 2213 2.643 0.670 0.137 0.065 29 3.3 BA4a_exvivo
- 1405 841 2072 2.613 0.409 0.115 0.048 18 2.6 BA4p_exvivo
- 5768 3556 12025 2.830 0.749 0.146 0.067 127 17.0 BA6_exvivo
- 831 573 2362 3.187 0.605 0.130 0.040 12 1.3 BA44_exvivo
- 900 634 2815 3.189 0.556 0.155 0.060 18 2.4 BA45_exvivo
- 4000 2467 4587 1.846 0.558 0.143 0.043 60 7.4 V1_exvivo
- 4616 2817 7474 2.419 0.609 0.139 0.043 73 7.4 V2_exvivo
- 225 136 547 3.007 0.432 0.126 0.030 4 0.2 MT_exvivo
- 316 203 1092 3.658 0.468 0.140 0.045 4 0.6 perirhinal_exvivo
- 219 149 850 3.646 0.971 0.144 0.046 4 0.4 entorhinal_exvivo
- Started at Sat Oct 7 17:01:48 CEST 2017
- Ended at Sun Oct 8 04:51:17 CEST 2017
- #@#%# recon-all-run-time-hours 11.825
- recon-all -s 0051348 finished without error at Sun Oct 8 04:51:17 CEST 2017
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