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|
- Sat Oct 7 20:23:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0051201 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/UCLA_1/0051201/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0051201
- 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-961 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: 66074836 59889508 6185328 1771484 0 52763656
- -/+ buffers/cache: 7125852 58948984
- 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:20-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-961 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: 2017/10/07-18:23:21-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-961 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: 2017/10/07-18:23:21-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-961 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-6.0.0/0051201
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/UCLA_1/0051201/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/UCLA_1/0051201/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/orig/001.mgz
- $Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
- reading from /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/UCLA_1/0051201/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-6.0.0/0051201/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Sat Oct 7 20:23:23 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/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-6.0.0/0051201/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Sat Oct 7 20:23:33 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/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-961 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 20:23:33 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.16277
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.16277/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.16277/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.16277/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 20:23:36 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.16277/nu0.mnc ./tmp.mri_nu_correct.mni.16277/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.16277/0/ -iterations 1000 -distance 50
- [ntraut@tars-961:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/] [2017-10-07 20:23:36] running:
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 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.16277/0/ ./tmp.mri_nu_correct.mni.16277/nu0.mnc ./tmp.mri_nu_correct.mni.16277/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
- Number of iterations: 38
- CV of field change: 0.000991289
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.16277/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.16277/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.16277/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 20:24:42 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 20:24:42 CEST 2017
- Ended at Sat Oct 7 20:25:21 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Sat Oct 7 20:25:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.7426, pval=0.6675 >= threshold=0.0050)
- awk -f /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/extract_talairach_avi_QA.awk /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/transforms/talairach_avi.log
- TalAviQA: 0.98208
- z-score: 0
- #--------------------------------------------
- #@# Nu Intensity Correction Sat Oct 7 20:25:23 CEST 2017
- mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar transforms/talairach.xfm --n 2
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-961 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 20:25:23 CEST 2017
- Program nu_correct, built from:
- Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
- /usr/bin/bc
- tmpdir is ./tmp.mri_nu_correct.mni.17028
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.17028/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.17028/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.17028/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 20:25:26 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.17028/nu0.mnc ./tmp.mri_nu_correct.mni.17028/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.17028/0/
- [ntraut@tars-961:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/] [2017-10-07 20:25:26] 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.17028/0/ ./tmp.mri_nu_correct.mni.17028/nu0.mnc ./tmp.mri_nu_correct.mni.17028/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
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- Processing:.................................................................Done
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- Processing:.................................................................Done
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- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 41
- CV of field change: 0.000983201
-
-
- --------------------------------------------------------
- Iteration 2 Sat Oct 7 20:26:16 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.17028/nu1.mnc ./tmp.mri_nu_correct.mni.17028/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.17028/1/
- [ntraut@tars-961:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/] [2017-10-07 20:26:16] 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.17028/1/ ./tmp.mri_nu_correct.mni.17028/nu1.mnc ./tmp.mri_nu_correct.mni.17028/nu2.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 18
- CV of field change: 0.000951509
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.17028/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.17028/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-6.0.0/0051201/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.17028/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.17028/ones.mgz
- sysname Linux
- hostname tars-961
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.17028/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.17028/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.17028/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.17028/sum.junk --avgwf ./tmp.mri_nu_correct.mni.17028/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.17028/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.17028/sum.junk --avgwf ./tmp.mri_nu_correct.mni.17028/input.mean.dat
- sysname Linux
- hostname tars-961
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.17028/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.17028/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.17028/ones.mgz --i ./tmp.mri_nu_correct.mni.17028/nu2.mnc --sum ./tmp.mri_nu_correct.mni.17028/sum.junk --avgwf ./tmp.mri_nu_correct.mni.17028/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.17028/ones.mgz --i ./tmp.mri_nu_correct.mni.17028/nu2.mnc --sum ./tmp.mri_nu_correct.mni.17028/sum.junk --avgwf ./tmp.mri_nu_correct.mni.17028/output.mean.dat
- sysname Linux
- hostname tars-961
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.17028/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.17028/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.17028/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.17028/nu2.mnc ./tmp.mri_nu_correct.mni.17028/nu2.mnc mul 1.03678863074396895293
- Saving result to './tmp.mri_nu_correct.mni.17028/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.17028/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.17028/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.17028/nu2.mnc...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-1, 0, 0)
- j_ras = (0, 0, -1)
- k_ras = (0, 1, 0)
- INFO: transform src into the like-volume: orig.mgz
- writing to nu.mgz...
- mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz
- type change took 0 minutes and 9 seconds.
- mapping (15, 126) to ( 3, 110)
-
-
- Sat Oct 7 20:27:33 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Sat Oct 7 20:27:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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
- 1.05389 -0.06836 0.03976 13.92973;
- 0.05874 1.06050 0.20658 -9.51641;
- -0.05411 -0.11523 1.07974 5.75177;
- 0.00000 0.00000 0.00000 1.00000;
- processing without aseg, no1d=0
- MRInormInit():
- INFO: Modifying talairach volume c_(r,a,s) based on average_305
- MRInormalize():
- MRIsplineNormalize(): npeaks = 19
- Starting OpenSpline(): npoints = 19
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Iterating 2 times
- ---------------------------------
- 3d normalization pass 1 of 2
- white matter peak found at 110
- white matter peak found at 109
- gm peak at 54 (54), valley at 22 (22)
- csf peak at 27, setting threshold to 45
- 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 54 (54), valley at 22 (22)
- csf peak at 27, setting threshold to 45
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to T1.mgz
- 3D bias adjustment took 1 minutes and 56 seconds.
- #--------------------------------------------
- #@# Skull Stripping Sat Oct 7 20:29:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mri_em_register.skull.dat -skull nu.mgz /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta
- aligning to atlas containing skull, setting unknown_nbr_spacing = 5
- == Number of threads available to mri_em_register for OpenMP = 2 ==
- reading 1 input volumes...
- logging results to talairach_with_skull.log
- reading '/pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca'...
- average std = 22.9 using min determinant for regularization = 52.6
- 0 singular and 9002 ill-conditioned covariance matrices regularized
- reading 'nu.mgz'...
- freeing gibbs priors...done.
- accounting for voxel sizes in initial transform
- bounding unknown intensity as < 8.7 or > 569.1
- total sample mean = 77.6 (1399 zeros)
- ************************************************
- spacing=8, using 3243 sample points, tol=1.00e-05...
- ************************************************
- register_mri: find_optimal_transform
- find_optimal_transform: nsamples 3243, passno 0, spacing 8
- resetting wm mean[0]: 100 --> 108
- resetting gm mean[0]: 61 --> 61
- input volume #1 is the most T1-like
- using real data threshold=5.0
- skull bounding box = (45, 49, 27) --> (215, 202, 218)
- using (102, 100, 123) as brain centroid...
- mean wm in atlas = 108, using box (81,81,99) --> (122, 118,146) to find MRI wm
- before smoothing, mri peak at 108
- robust fit to distribution - 107 +- 6.6
- after smoothing, mri peak at 107, scaling input intensities by 1.009
- scaling channel 0 by 1.00935
- initial log_p = -4.420
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.393367 @ (9.091, -9.091, -9.091)
- max log p = -4.215278 @ (-4.545, 4.545, -4.545)
- max log p = -4.137483 @ (-2.273, -2.273, -2.273)
- max log p = -4.132437 @ (1.136, -1.136, -1.136)
- max log p = -4.120462 @ (-0.568, 0.568, 0.568)
- max log p = -4.112535 @ (-0.284, 0.284, -0.852)
- Found translation: (2.6, -7.1, -17.3): log p = -4.113
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.850, old_max_log_p =-4.113 (thresh=-4.1)
- 1.04563 0.11969 0.13444 -38.13345;
- -0.14882 1.13296 0.11252 -15.67799;
- -0.16136 -0.15998 1.05669 26.51973;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.850, old_max_log_p =-3.850 (thresh=-3.8)
- 1.04563 0.11969 0.13444 -38.13345;
- -0.14882 1.13296 0.11252 -15.67799;
- -0.16136 -0.15998 1.05669 26.51973;
- 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=-3.681, old_max_log_p =-3.850 (thresh=-3.8)
- 1.03713 0.04935 0.09183 -21.96506;
- -0.07808 1.11768 0.11435 -26.15102;
- -0.12837 -0.15636 1.08072 17.06801;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.671, old_max_log_p =-3.681 (thresh=-3.7)
- 1.03713 0.04935 0.09183 -21.96506;
- -0.07808 1.11768 0.11435 -26.15102;
- -0.13078 -0.15929 1.10099 15.30823;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 4 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.671, old_max_log_p =-3.671 (thresh=-3.7)
- 1.03713 0.04935 0.09183 -21.96506;
- -0.07808 1.11768 0.11435 -26.15102;
- -0.13078 -0.15929 1.10099 15.30823;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.655, old_max_log_p =-3.671 (thresh=-3.7)
- 1.03938 0.05072 0.08288 -21.81253;
- -0.07790 1.11506 0.11408 -25.75650;
- -0.12190 -0.15832 1.09783 14.46343;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.649, old_max_log_p =-3.655 (thresh=-3.7)
- 1.03938 0.05072 0.08288 -21.81253;
- -0.07790 1.11506 0.11408 -25.75650;
- -0.12175 -0.15814 1.09654 14.57674;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 7 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.649, old_max_log_p =-3.649 (thresh=-3.6)
- 1.03938 0.05072 0.08288 -21.81253;
- -0.07790 1.11506 0.11408 -25.75650;
- -0.12175 -0.15814 1.09654 14.57674;
- 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
- 1.03938 0.05072 0.08288 -21.81253;
- -0.07790 1.11506 0.11408 -25.75650;
- -0.12175 -0.15814 1.09654 14.57674;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 1.03938 0.05072 0.08288 -21.81253;
- -0.07790 1.11506 0.11408 -25.75650;
- -0.12175 -0.15814 1.09654 14.57674;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.03938 0.05072 0.08288 -21.81253;
- -0.07790 1.11506 0.11408 -25.75650;
- -0.12175 -0.15814 1.09654 14.57674;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.649 (old=-4.420)
- transform before final EM align:
- 1.03938 0.05072 0.08288 -21.81253;
- -0.07790 1.11506 0.11408 -25.75650;
- -0.12175 -0.15814 1.09654 14.57674;
- 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
- 1.03938 0.05072 0.08288 -21.81253;
- -0.07790 1.11506 0.11408 -25.75650;
- -0.12175 -0.15814 1.09654 14.57674;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 1.03938 0.05072 0.08288 -21.81253;
- -0.07790 1.11506 0.11408 -25.75650;
- -0.12175 -0.15814 1.09654 14.57674;
- 0.00000 0.00000 0.00000 1.00000;
- dfp_em_step_func: 011: -log(p) = 4.1
- after pass:transform: ( 1.04, 0.05, 0.08, -21.81)
- ( -0.08, 1.12, 0.11, -25.76)
- ( -0.12, -0.16, 1.10, 14.58)
- dfp_em_step_func: 012: -log(p) = 4.1
- after pass:transform: ( 1.04, 0.05, 0.08, -21.81)
- ( -0.08, 1.12, 0.11, -25.76)
- ( -0.12, -0.16, 1.10, 14.58)
- pass 2 through quasi-newton minimization...
- outof QuasiNewtonEMA: 014: -log(p) = 4.1 tol 0.000000
- final transform:
- 1.03938 0.05072 0.08288 -21.81253;
- -0.07790 1.11506 0.11408 -25.75650;
- -0.12175 -0.15814 1.09654 14.57674;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 1570.241287
- mri_em_register stimesec 1.923707
- mri_em_register ru_maxrss 611692
- mri_em_register ru_ixrss 0
- mri_em_register ru_idrss 0
- mri_em_register ru_isrss 0
- mri_em_register ru_minflt 157527
- 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 127
- mri_em_register ru_nivcsw 3001
- registration took 13 minutes and 46 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mri_watershed.dat -T1 -brain_atlas /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz
- Mode: T1 normalized volume
- Mode: Use the information of atlas (default parms, --help for details)
- *********************************************************
- The input file is T1.mgz
- The output file is brainmask.auto.mgz
- Weighting the input with atlas information before watershed
- *************************WATERSHED**************************
- Sorting...
- first estimation of the COG coord: x=126 y=119 z=120 r=68
- first estimation of the main basin volume: 1369214 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 17 found in the rest of the brain
- global maximum in x=102, y=108, z=87, 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=9152528712 voxels, voxel volume =1.000
- = 9152528712 mmm3 = 9152528.384 cm3
- done.
- PostAnalyze...Basin Prior
- 52 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=125,y=126, z=116, r=9658 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=0, CSF_intensity=9, CSF_MAX=42 , nb = 45261
- RIGHT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=31 , nb = -1032004683
- LEFT_CER CSF_MIN=1, CSF_intensity=2, CSF_MAX=22 , nb = -1054580204
- RIGHT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=46 , nb = -1050266235
- LEFT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=41 , nb = 1073884180
- OTHER CSF_MIN=0, CSF_intensity=23, CSF_MAX=37 , nb = 1077144150
- Problem with the least square interpolation in GM_MIN calculation.
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 42, 31, 24, 48
- after analyzing : 25, 31, 31, 35
- RIGHT_CER
- before analyzing : 31, 28, 26, 59
- after analyzing : 21, 28, 28, 35
- LEFT_CER
- before analyzing : 22, 24, 28, 60
- after analyzing : 22, 26, 28, 34
- RIGHT_BRAIN
- before analyzing : 46, 33, 24, 50
- after analyzing : 26, 33, 33, 37
- LEFT_BRAIN
- before analyzing : 41, 31, 24, 48
- after analyzing : 25, 31, 31, 35
- OTHER
- before analyzing : 37, 51, 74, 95
- after analyzing : 37, 66, 74, 73
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...66 iterations
- *********************VALIDATION*********************
- curvature mean = -0.013, std = 0.011
- curvature mean = 70.183, std = 6.777
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 2.99, sigma = 5.03
- after rotation: sse = 2.99, sigma = 5.03
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 2.99, its var is 3.74
- before Erosion-Dilatation 0.40% of inacurate vertices
- after Erosion-Dilatation 0.00% of inacurate vertices
- Validation of the shape of the surface done.
- Scaling of atlas fields onto current surface fields
- ********FINAL ITERATIVE TEMPLATE DEFORMATION********
- Compute Local values csf/gray
- Fine Segmentation...39 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1648467 voxels, voxel volume = 1.000 mm3
- = 1648467 mmm3 = 1648.467 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 25.688094
- mri_watershed stimesec 0.391940
- mri_watershed ru_maxrss 823492
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 213208
- mri_watershed ru_majflt 0
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 6592
- mri_watershed ru_oublock 2744
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 3849
- mri_watershed ru_nivcsw 117
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Sat Oct 7 20:43:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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=22.0
- skull bounding box = (57, 65, 42) --> (194, 193, 207)
- using (103, 108, 125) as brain centroid...
- mean wm in atlas = 107, using box (86,92,105) --> (119, 123,145) to find MRI wm
- before smoothing, mri peak at 106
- robust fit to distribution - 107 +- 6.2
- after smoothing, mri peak at 107, scaling input intensities by 1.000
- scaling channel 0 by 1
- initial log_p = -4.033
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.026611 @ (-9.091, -9.091, -9.091)
- max log p = -3.815737 @ (4.545, 4.545, -4.545)
- max log p = -3.688557 @ (6.818, -2.273, 2.273)
- max log p = -3.635677 @ (-1.136, -1.136, 1.136)
- max log p = -3.635677 @ (0.000, 0.000, 0.000)
- max log p = -3.627627 @ (-1.420, -0.284, 0.284)
- Found translation: (-0.3, -8.2, -9.9): log p = -3.628
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.448, old_max_log_p =-3.628 (thresh=-3.6)
- 1.07500 0.00000 0.00000 -9.81069;
- 0.00000 1.14016 0.13053 -41.17436;
- 0.00000 -0.15011 0.99144 10.18668;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.448, old_max_log_p =-3.448 (thresh=-3.4)
- 1.07500 0.00000 0.00000 -9.81069;
- 0.00000 1.14016 0.13053 -41.17436;
- 0.00000 -0.15011 0.99144 10.18668;
- 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=-3.283, old_max_log_p =-3.448 (thresh=-3.4)
- 1.03026 0.06234 0.07050 -18.33796;
- -0.06510 1.10017 0.08763 -20.98046;
- -0.07652 -0.12171 1.04915 9.62694;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.283, old_max_log_p =-3.283 (thresh=-3.3)
- 1.03026 0.06234 0.07050 -18.33796;
- -0.06510 1.10017 0.08763 -20.98046;
- -0.07652 -0.12171 1.04915 9.62694;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 4 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.250, old_max_log_p =-3.283 (thresh=-3.3)
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04968 1.09765 0.10546 -26.05459;
- -0.06667 -0.13890 1.04691 10.79522;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.241, old_max_log_p =-3.250 (thresh=-3.2)
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04962 1.09636 0.10534 -25.88426;
- -0.06651 -0.13857 1.04446 11.01706;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.241, old_max_log_p =-3.241 (thresh=-3.2)
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04962 1.09636 0.10534 -25.88426;
- -0.06651 -0.13857 1.04446 11.01706;
- 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
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04962 1.09636 0.10534 -25.88426;
- -0.06651 -0.13857 1.04446 11.01706;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04962 1.09636 0.10534 -25.88426;
- -0.06651 -0.13857 1.04446 11.01706;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 009: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04962 1.09636 0.10534 -25.88426;
- -0.06651 -0.13857 1.04446 11.01706;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.241 (old=-4.033)
- transform before final EM align:
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04962 1.09636 0.10534 -25.88426;
- -0.06651 -0.13857 1.04446 11.01706;
- 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
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04962 1.09636 0.10534 -25.88426;
- -0.06651 -0.13857 1.04446 11.01706;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04962 1.09636 0.10534 -25.88426;
- -0.06651 -0.13857 1.04446 11.01706;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 011: -log(p) = 3.8 tol 0.000000
- final transform:
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04962 1.09636 0.10534 -25.88426;
- -0.06651 -0.13857 1.04446 11.01706;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 1143.205206
- mri_em_register stimesec 1.724737
- 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 159461
- mri_em_register ru_majflt 0
- mri_em_register ru_nswap 0
- mri_em_register ru_inblock 0
- mri_em_register ru_oublock 24
- mri_em_register ru_msgsnd 0
- mri_em_register ru_msgrcv 0
- mri_em_register ru_nsignals 0
- mri_em_register ru_nvcsw 129
- mri_em_register ru_nivcsw 2175
- registration took 9 minutes and 56 seconds.
- #--------------------------------------
- #@# CA Normalize Sat Oct 7 20:53:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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=23.0
- skull bounding box = (57, 65, 42) --> (194, 192, 207)
- using (103, 107, 125) as brain centroid...
- mean wm in atlas = 107, using box (86,91,105) --> (119, 122,145) to find MRI wm
- before smoothing, mri peak at 106
- robust fit to distribution - 107 +- 6.2
- after smoothing, mri peak at 107, scaling input intensities by 1.000
- scaling channel 0 by 1
- using 246344 sample points...
- INFO: compute sample coordinates transform
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04962 1.09636 0.10534 -25.88426;
- -0.06651 -0.13857 1.04446 11.01706;
- 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 (123, 66, 42) --> (189, 174, 201)
- Left_Cerebral_White_Matter: limiting intensities to 108.0 --> 132.0
- 2 of 13 (15.4%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (62, 67, 39) --> (127, 171, 200)
- Right_Cerebral_White_Matter: limiting intensities to 113.0 --> 132.0
- 5 of 11 (45.5%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (126, 147, 67) --> (172, 187, 119)
- Left_Cerebellum_White_Matter: limiting intensities to 93.0 --> 132.0
- 0 of 12 (0.0%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (81, 147, 62) --> (125, 184, 118)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 0 of 8 (0.0%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (107, 137, 100) --> (141, 201, 129)
- Brain_Stem: limiting intensities to 107.0 --> 132.0
- 8 of 9 (88.9%) samples deleted
- using 53 total control points for intensity normalization...
- bias field = 0.866 +- 0.061
- 0 of 38 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (123, 66, 42) --> (189, 174, 201)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 5 of 88 (5.7%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (62, 67, 39) --> (127, 171, 200)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 0 of 112 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (126, 147, 67) --> (172, 187, 119)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 32 of 72 (44.4%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (81, 147, 62) --> (125, 184, 118)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 26 of 37 (70.3%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (107, 137, 100) --> (141, 201, 129)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 73 of 99 (73.7%) samples deleted
- using 408 total control points for intensity normalization...
- bias field = 1.018 +- 0.069
- 1 of 272 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (123, 66, 42) --> (189, 174, 201)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 0 of 259 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (62, 67, 39) --> (127, 171, 200)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 7 of 226 (3.1%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (126, 147, 67) --> (172, 187, 119)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 43 of 83 (51.8%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (81, 147, 62) --> (125, 184, 118)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 33 of 48 (68.8%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (107, 137, 100) --> (141, 201, 129)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 108 of 160 (67.5%) samples deleted
- using 776 total control points for intensity normalization...
- bias field = 1.002 +- 0.061
- 0 of 574 control points discarded
- writing normalized volume to norm.mgz...
- writing control points to ctrl_pts.mgz
- freeing GCA...done.
- normalization took 1 minutes and 46 seconds.
- #--------------------------------------
- #@# CA Reg Sat Oct 7 20:55:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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) = 1.20 (predicted orig area = 6.6)
- 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=0.824, neg=0, invalid=762
- 0001: dt=226.560000, rms=0.757 (8.178%), neg=0, invalid=762
- 0002: dt=221.952000, rms=0.737 (2.617%), neg=0, invalid=762
- 0003: dt=195.084337, rms=0.730 (0.960%), neg=0, invalid=762
- 0004: dt=295.936000, rms=0.724 (0.751%), neg=0, invalid=762
- 0005: dt=129.472000, rms=0.721 (0.464%), neg=0, invalid=762
- 0006: dt=517.888000, rms=0.717 (0.582%), neg=0, invalid=762
- 0007: dt=129.472000, rms=0.715 (0.289%), neg=0, invalid=762
- 0008: dt=517.888000, rms=0.713 (0.241%), neg=0, invalid=762
- 0009: dt=517.888000, rms=0.713 (-1.705%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.714, neg=0, invalid=762
- 0010: dt=129.472000, rms=0.711 (0.375%), neg=0, invalid=762
- 0011: dt=517.888000, rms=0.709 (0.261%), neg=0, invalid=762
- 0012: dt=517.888000, rms=0.707 (0.316%), neg=0, invalid=762
- 0013: dt=129.472000, rms=0.706 (0.079%), neg=0, invalid=762
- 0014: dt=129.472000, rms=0.706 (0.045%), neg=0, invalid=762
- 0015: dt=129.472000, rms=0.705 (0.078%), neg=0, invalid=762
- 0016: dt=129.472000, rms=0.705 (0.115%), neg=0, invalid=762
- 0017: dt=129.472000, rms=0.703 (0.155%), neg=0, invalid=762
- 0018: dt=129.472000, rms=0.702 (0.191%), neg=0, invalid=762
- 0019: dt=129.472000, rms=0.701 (0.197%), neg=0, invalid=762
- 0020: dt=129.472000, rms=0.699 (0.193%), neg=0, invalid=762
- 0021: dt=129.472000, rms=0.698 (0.201%), neg=0, invalid=762
- 0022: dt=129.472000, rms=0.697 (0.204%), neg=0, invalid=762
- 0023: dt=129.472000, rms=0.695 (0.205%), neg=0, invalid=762
- 0024: dt=129.472000, rms=0.694 (0.207%), neg=0, invalid=762
- 0025: dt=129.472000, rms=0.692 (0.216%), neg=0, invalid=762
- 0026: dt=129.472000, rms=0.691 (0.221%), neg=0, invalid=762
- 0027: dt=129.472000, rms=0.689 (0.214%), neg=0, invalid=762
- 0028: dt=129.472000, rms=0.688 (0.211%), neg=0, invalid=762
- 0029: dt=129.472000, rms=0.686 (0.188%), neg=0, invalid=762
- 0030: dt=129.472000, rms=0.685 (0.179%), neg=0, invalid=762
- 0031: dt=129.472000, rms=0.684 (0.172%), neg=0, invalid=762
- 0032: dt=129.472000, rms=0.683 (0.177%), neg=0, invalid=762
- 0033: dt=129.472000, rms=0.682 (0.175%), neg=0, invalid=762
- 0034: dt=129.472000, rms=0.681 (0.139%), neg=0, invalid=762
- 0035: dt=129.472000, rms=0.680 (0.112%), neg=0, invalid=762
- 0036: dt=129.472000, rms=0.679 (0.097%), neg=0, invalid=762
- 0037: dt=1479.680000, rms=0.678 (0.111%), neg=0, invalid=762
- 0038: dt=295.936000, rms=0.678 (0.057%), neg=0, invalid=762
- 0039: dt=295.936000, rms=0.678 (0.024%), neg=0, invalid=762
- 0040: dt=295.936000, rms=0.678 (0.021%), neg=0, invalid=762
- 0041: dt=295.936000, rms=0.677 (0.074%), neg=0, invalid=762
- 0042: dt=295.936000, rms=0.677 (0.080%), neg=0, invalid=762
- 0043: dt=295.936000, 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=0.681, neg=0, invalid=762
- 0044: dt=157.478788, rms=0.673 (1.264%), neg=0, invalid=762
- 0045: dt=145.152000, rms=0.665 (1.163%), neg=0, invalid=762
- 0046: dt=69.614035, rms=0.659 (0.792%), neg=0, invalid=762
- 0047: dt=248.832000, rms=0.654 (0.871%), neg=0, invalid=762
- 0048: dt=86.153846, rms=0.650 (0.592%), neg=0, invalid=762
- 0049: dt=66.420168, rms=0.647 (0.450%), neg=0, invalid=762
- 0050: dt=145.152000, rms=0.645 (0.349%), neg=0, invalid=762
- 0051: dt=73.411765, rms=0.642 (0.336%), neg=0, invalid=762
- 0052: dt=124.416000, rms=0.641 (0.224%), neg=0, invalid=762
- 0053: dt=124.416000, rms=0.640 (0.172%), neg=0, invalid=762
- 0054: dt=124.416000, rms=0.635 (0.751%), neg=0, invalid=762
- 0055: dt=124.416000, rms=0.633 (0.387%), neg=0, invalid=762
- 0056: dt=124.416000, rms=0.627 (0.857%), neg=0, invalid=762
- 0057: dt=124.416000, rms=0.623 (0.657%), neg=0, invalid=762
- 0058: dt=124.416000, rms=0.621 (0.272%), neg=0, invalid=762
- 0059: dt=124.416000, rms=0.617 (0.664%), neg=0, invalid=762
- 0060: dt=124.416000, rms=0.615 (0.304%), neg=0, invalid=762
- 0061: dt=124.416000, rms=0.614 (0.202%), neg=0, invalid=762
- 0062: dt=124.416000, rms=0.612 (0.433%), neg=0, invalid=762
- 0063: dt=124.416000, rms=0.611 (0.156%), neg=0, invalid=762
- 0064: dt=124.416000, rms=0.609 (0.212%), neg=0, invalid=762
- 0065: dt=124.416000, rms=0.608 (0.283%), neg=0, invalid=762
- 0066: dt=124.416000, rms=0.607 (0.120%), neg=0, invalid=762
- 0067: dt=124.416000, rms=0.606 (0.159%), neg=0, invalid=762
- 0068: dt=124.416000, rms=0.605 (0.132%), neg=0, invalid=762
- 0069: dt=124.416000, rms=0.605 (0.093%), neg=0, invalid=762
- 0070: dt=124.416000, rms=0.604 (0.101%), neg=0, invalid=762
- 0071: dt=124.416000, rms=0.603 (0.077%), neg=0, invalid=762
- 0072: dt=62.208000, rms=0.603 (0.067%), neg=0, invalid=762
- 0073: dt=62.208000, rms=0.603 (0.008%), neg=0, invalid=762
- 0074: dt=62.208000, rms=0.603 (0.017%), neg=0, invalid=762
- 0075: dt=62.208000, rms=0.603 (0.037%), neg=0, invalid=762
- 0076: dt=62.208000, rms=0.602 (0.036%), neg=0, invalid=762
- 0077: dt=62.208000, rms=0.602 (0.030%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.603, neg=0, invalid=762
- 0078: dt=36.288000, rms=0.602 (0.229%), neg=0, invalid=762
- 0079: dt=82.944000, rms=0.601 (0.056%), neg=0, invalid=762
- 0080: dt=82.944000, rms=0.601 (0.028%), neg=0, invalid=762
- 0081: dt=82.944000, rms=0.601 (-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=0.628, neg=0, invalid=762
- 0082: dt=0.000000, rms=0.627 (0.136%), neg=0, invalid=762
- 0083: dt=0.000000, rms=0.627 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.628, neg=0, invalid=762
- 0084: dt=0.000000, rms=0.627 (0.136%), neg=0, invalid=762
- 0085: dt=0.000000, rms=0.627 (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=0.704, neg=0, invalid=762
- 0086: dt=5.298013, rms=0.679 (3.571%), neg=0, invalid=762
- 0087: dt=2.720000, rms=0.678 (0.155%), neg=0, invalid=762
- 0088: dt=2.720000, rms=0.678 (-0.044%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.679, neg=0, invalid=762
- 0089: dt=0.000000, rms=0.678 (0.099%), neg=0, invalid=762
- 0090: dt=0.000000, rms=0.678 (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=0.745, neg=0, invalid=762
- 0091: dt=1.536000, rms=0.738 (0.893%), neg=0, invalid=762
- 0092: dt=2.269461, rms=0.730 (1.044%), neg=0, invalid=762
- 0093: dt=0.384000, rms=0.730 (0.033%), neg=0, invalid=762
- 0094: dt=0.384000, rms=0.730 (0.014%), neg=0, invalid=762
- 0095: dt=0.384000, rms=0.730 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.730, neg=0, invalid=762
- 0096: dt=1.280000, rms=0.728 (0.264%), neg=0, invalid=762
- 0097: dt=1.792000, rms=0.727 (0.145%), neg=0, invalid=762
- 0098: dt=1.792000, rms=0.727 (-0.055%), neg=0, invalid=762
- resetting metric properties...
- setting smoothness coefficient to 10.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.687, neg=0, invalid=762
- 0099: dt=0.900417, rms=0.666 (3.038%), neg=0, invalid=762
- 0100: dt=0.080000, rms=0.665 (0.161%), neg=0, invalid=762
- 0101: dt=0.080000, rms=0.665 (-0.072%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.666, neg=0, invalid=762
- 0102: dt=0.028000, rms=0.665 (0.116%), neg=0, invalid=762
- 0103: dt=0.012000, rms=0.665 (0.002%), neg=0, invalid=762
- 0104: dt=0.012000, rms=0.665 (-0.001%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.09135 ( 6)
- Left_Lateral_Ventricle (4): linear fit = 0.31 x + 0.0 (485 voxels, overlap=0.102)
- Left_Lateral_Ventricle (4): linear fit = 0.40 x + 0.0 (485 voxels, peak = 6), gca=8.0
- gca peak = 0.15565 (16)
- mri peak = 0.12400 ( 7)
- Right_Lateral_Ventricle (43): linear fit = 0.40 x + 0.0 (497 voxels, overlap=0.148)
- Right_Lateral_Ventricle (43): linear fit = 0.40 x + 0.0 (497 voxels, peak = 6), gca=6.4
- gca peak = 0.26829 (96)
- mri peak = 0.08216 (88)
- Right_Pallidum (52): linear fit = 0.92 x + 0.0 (642 voxels, overlap=0.681)
- Right_Pallidum (52): linear fit = 0.92 x + 0.0 (642 voxels, peak = 88), gca=87.8
- gca peak = 0.20183 (93)
- mri peak = 0.08903 (88)
- Left_Pallidum (13): linear fit = 0.90 x + 0.0 (575 voxels, overlap=0.257)
- Left_Pallidum (13): linear fit = 0.90 x + 0.0 (575 voxels, peak = 84), gca=84.2
- gca peak = 0.21683 (55)
- mri peak = 0.09602 (60)
- Right_Hippocampus (53): linear fit = 1.04 x + 0.0 (602 voxels, overlap=0.999)
- Right_Hippocampus (53): linear fit = 1.04 x + 0.0 (602 voxels, peak = 57), gca=57.5
- gca peak = 0.30730 (58)
- mri peak = 0.10287 (50)
- Left_Hippocampus (17): linear fit = 0.89 x + 0.0 (530 voxels, overlap=0.882)
- Left_Hippocampus (17): linear fit = 0.89 x + 0.0 (530 voxels, peak = 52), gca=51.9
- gca peak = 0.11430 (101)
- mri peak = 0.06947 (104)
- Right_Cerebral_White_Matter (41): linear fit = 1.05 x + 0.0 (52194 voxels, overlap=0.687)
- Right_Cerebral_White_Matter (41): linear fit = 1.05 x + 0.0 (52194 voxels, peak = 107), gca=106.6
- gca peak = 0.12076 (102)
- mri peak = 0.06624 (105)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (51941 voxels, overlap=0.779)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (51941 voxels, peak = 107), gca=106.6
- gca peak = 0.14995 (59)
- mri peak = 0.05074 (47)
- Left_Cerebral_Cortex (3): linear fit = 0.81 x + 0.0 (16329 voxels, overlap=0.316)
- Left_Cerebral_Cortex (3): linear fit = 0.81 x + 0.0 (16329 voxels, peak = 48), gca=48.1
- gca peak = 0.15082 (58)
- mri peak = 0.04589 (53)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (16853 voxels, overlap=0.755)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (16853 voxels, peak = 52), gca=51.9
- gca peak = 0.14161 (67)
- mri peak = 0.08818 (65)
- Right_Caudate (50): linear fit = 0.95 x + 0.0 (851 voxels, overlap=0.952)
- Right_Caudate (50): linear fit = 0.95 x + 0.0 (851 voxels, peak = 64), gca=64.0
- gca peak = 0.15243 (71)
- mri peak = 0.08340 (67)
- Left_Caudate (11): linear fit = 0.90 x + 0.0 (743 voxels, overlap=0.353)
- Left_Caudate (11): linear fit = 0.90 x + 0.0 (743 voxels, peak = 64), gca=64.3
- gca peak = 0.13336 (57)
- mri peak = 0.04049 (53)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (18015 voxels, overlap=0.908)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (18015 voxels, peak = 54), gca=53.9
- gca peak = 0.13252 (56)
- mri peak = 0.04712 (51)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (18762 voxels, overlap=0.983)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (18762 voxels, peak = 53), gca=52.9
- gca peak = 0.18181 (84)
- mri peak = 0.06886 (87)
- Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (6300 voxels, overlap=0.843)
- Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (6300 voxels, peak = 88), gca=87.8
- gca peak = 0.20573 (83)
- mri peak = 0.05732 (81)
- Right_Cerebellum_White_Matter (46): linear fit = 1.02 x + 0.0 (5749 voxels, overlap=0.923)
- Right_Cerebellum_White_Matter (46): linear fit = 1.02 x + 0.0 (5749 voxels, peak = 85), gca=85.1
- gca peak = 0.21969 (57)
- mri peak = 0.09237 (52)
- Left_Amygdala (18): linear fit = 0.92 x + 0.0 (297 voxels, overlap=0.977)
- Left_Amygdala (18): linear fit = 0.92 x + 0.0 (297 voxels, peak = 52), gca=52.2
- gca peak = 0.39313 (56)
- mri peak = 0.09645 (57)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (411 voxels, overlap=1.003)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (411 voxels, peak = 59), gca=58.5
- gca peak = 0.14181 (85)
- mri peak = 0.06400 (81)
- Left_Thalamus_Proper (10): linear fit = 0.95 x + 0.0 (4751 voxels, overlap=0.991)
- Left_Thalamus_Proper (10): linear fit = 0.95 x + 0.0 (4751 voxels, peak = 81), gca=81.2
- gca peak = 0.11978 (83)
- mri peak = 0.05599 (84)
- Right_Thalamus_Proper (49): linear fit = 1.02 x + 0.0 (4290 voxels, overlap=0.929)
- Right_Thalamus_Proper (49): linear fit = 1.02 x + 0.0 (4290 voxels, peak = 85), gca=85.1
- gca peak = 0.13399 (79)
- mri peak = 0.07937 (72)
- Left_Putamen (12): linear fit = 0.93 x + 0.0 (1948 voxels, overlap=0.517)
- Left_Putamen (12): linear fit = 0.93 x + 0.0 (1948 voxels, peak = 73), gca=73.1
- gca peak = 0.14159 (79)
- mri peak = 0.07171 (72)
- Right_Putamen (51): linear fit = 0.94 x + 0.0 (1984 voxels, overlap=0.888)
- Right_Putamen (51): linear fit = 0.94 x + 0.0 (1984 voxels, peak = 75), gca=74.7
- gca peak = 0.10025 (80)
- mri peak = 0.10060 (81)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (9879 voxels, overlap=0.402)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (9879 voxels, peak = 85), gca=85.2
- gca peak = 0.13281 (86)
- mri peak = 0.07877 (89)
- Right_VentralDC (60): linear fit = 1.04 x + 0.0 (942 voxels, overlap=0.725)
- Right_VentralDC (60): linear fit = 1.04 x + 0.0 (942 voxels, peak = 90), gca=89.9
- gca peak = 0.12801 (89)
- mri peak = 0.07601 (91)
- Left_VentralDC (28): linear fit = 1.02 x + 0.0 (945 voxels, overlap=0.850)
- Left_VentralDC (28): linear fit = 1.02 x + 0.0 (945 voxels, peak = 91), gca=91.2
- gca peak = 0.20494 (23)
- mri peak = 0.02775 (11)
- gca peak = 0.15061 (21)
- mri peak = 0.13099 (10)
- Fourth_Ventricle (15): linear fit = 0.52 x + 0.0 (254 voxels, overlap=0.505)
- Fourth_Ventricle (15): linear fit = 0.52 x + 0.0 (254 voxels, peak = 11), gca=11.0
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.18056 (32)
- gca peak Left_Thalamus = 0.64095 (94)
- gca peak Third_Ventricle = 0.20494 (23)
- gca peak Fourth_Ventricle = 0.15061 (21)
- gca peak CSF = 0.20999 (34)
- gca peak Left_Accumbens_area = 0.39030 (62)
- gca peak Left_undetermined = 0.95280 (25)
- gca peak Left_vessel = 0.67734 (53)
- gca peak Left_choroid_plexus = 0.09433 (44)
- gca peak Right_Inf_Lat_Vent = 0.23544 (26)
- gca peak Right_Accumbens_area = 0.30312 (64)
- gca peak Right_vessel = 0.46315 (51)
- gca peak Right_choroid_plexus = 0.14086 (44)
- gca peak Fifth_Ventricle = 0.51669 (36)
- gca peak WM_hypointensities = 0.09722 (76)
- gca peak non_WM_hypointensities = 0.11899 (47)
- gca peak Optic_Chiasm = 0.39033 (72)
- label assignment complete, 0 changed (0.00%)
- not using caudate to estimate GM means
- estimating mean gm scale to be 0.94 x + 0.0
- estimating mean wm scale to be 1.05 x + 0.0
- estimating mean csf scale to be 0.40 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=0.704, neg=0, invalid=762
- 0105: dt=140.474576, rms=0.698 (0.809%), neg=0, invalid=762
- 0106: dt=295.936000, rms=0.694 (0.624%), neg=0, invalid=762
- 0107: dt=92.480000, rms=0.692 (0.164%), neg=0, invalid=762
- 0108: dt=517.888000, rms=0.690 (0.396%), neg=0, invalid=762
- 0109: dt=73.984000, rms=0.689 (0.135%), neg=0, invalid=762
- 0110: dt=1183.744000, rms=0.687 (0.286%), neg=0, invalid=762
- 0111: dt=110.976000, rms=0.685 (0.203%), neg=0, invalid=762
- 0112: dt=129.472000, rms=0.685 (0.046%), neg=0, invalid=762
- 0113: dt=129.472000, rms=0.685 (0.068%), neg=0, invalid=762
- 0114: dt=129.472000, rms=0.684 (0.081%), neg=0, invalid=762
- 0115: dt=129.472000, rms=0.683 (0.090%), neg=0, invalid=762
- 0116: dt=129.472000, rms=0.683 (0.091%), neg=0, invalid=762
- 0117: dt=129.472000, rms=0.682 (0.126%), neg=0, invalid=762
- 0118: dt=129.472000, rms=0.681 (0.119%), neg=0, invalid=762
- 0119: dt=129.472000, rms=0.680 (0.109%), neg=0, invalid=762
- 0120: dt=129.472000, rms=0.680 (0.095%), neg=0, invalid=762
- 0121: dt=129.472000, rms=0.679 (0.106%), neg=0, invalid=762
- 0122: dt=129.472000, rms=0.678 (0.106%), neg=0, invalid=762
- 0123: dt=129.472000, rms=0.678 (0.080%), neg=0, invalid=762
- 0124: dt=129.472000, rms=0.677 (0.055%), neg=0, invalid=762
- 0125: dt=129.472000, rms=0.677 (0.048%), neg=0, invalid=762
- 0126: dt=129.472000, rms=0.677 (0.057%), neg=0, invalid=762
- 0127: dt=129.472000, rms=0.676 (0.052%), neg=0, invalid=762
- 0128: dt=129.472000, rms=0.676 (0.044%), neg=0, invalid=762
- 0129: dt=129.472000, rms=0.676 (0.041%), neg=0, invalid=762
- 0130: dt=129.472000, rms=0.675 (0.050%), neg=0, invalid=762
- 0131: dt=129.472000, rms=0.675 (0.062%), neg=0, invalid=762
- 0132: dt=129.472000, rms=0.675 (0.057%), neg=0, invalid=762
- 0133: dt=129.472000, rms=0.674 (0.044%), neg=0, invalid=762
- 0134: dt=129.472000, rms=0.674 (0.046%), neg=0, invalid=762
- 0135: dt=129.472000, rms=0.674 (0.057%), neg=0, invalid=762
- 0136: dt=129.472000, rms=0.673 (0.057%), neg=0, invalid=762
- 0137: dt=129.472000, rms=0.673 (0.051%), neg=0, invalid=762
- 0138: dt=129.472000, rms=0.673 (0.046%), neg=0, invalid=762
- 0139: dt=129.472000, rms=0.672 (0.043%), neg=0, invalid=762
- 0140: dt=129.472000, rms=0.672 (0.044%), neg=0, invalid=762
- 0141: dt=129.472000, rms=0.672 (0.042%), neg=0, invalid=762
- 0142: dt=129.472000, rms=0.671 (0.040%), neg=0, invalid=762
- 0143: dt=129.472000, rms=0.671 (0.038%), neg=0, invalid=762
- 0144: dt=129.472000, rms=0.671 (0.039%), neg=0, invalid=762
- 0145: dt=129.472000, rms=0.671 (0.039%), neg=0, invalid=762
- 0146: dt=129.472000, rms=0.670 (0.035%), neg=0, invalid=762
- 0147: dt=129.472000, rms=0.670 (0.034%), neg=0, invalid=762
- 0148: dt=129.472000, rms=0.670 (0.037%), neg=0, invalid=762
- 0149: dt=129.472000, rms=0.670 (0.038%), neg=0, invalid=762
- 0150: dt=129.472000, rms=0.670 (0.033%), neg=0, invalid=762
- 0151: dt=129.472000, rms=0.669 (0.029%), neg=0, invalid=762
- 0152: dt=129.472000, rms=0.669 (0.029%), neg=0, invalid=762
- 0153: dt=129.472000, rms=0.669 (0.028%), neg=0, invalid=762
- 0154: dt=129.472000, rms=0.669 (0.027%), neg=0, invalid=762
- 0155: dt=129.472000, rms=0.669 (0.027%), neg=0, invalid=762
- 0156: dt=129.472000, rms=0.668 (0.025%), neg=0, invalid=762
- 0157: dt=129.472000, rms=0.668 (0.028%), neg=0, invalid=762
- 0158: dt=129.472000, rms=0.668 (0.027%), neg=0, invalid=762
- 0159: dt=129.472000, rms=0.668 (0.025%), neg=0, invalid=762
- 0160: dt=129.472000, rms=0.668 (0.023%), neg=0, invalid=762
- 0161: dt=2071.552000, rms=0.668 (0.019%), neg=0, invalid=762
- 0162: dt=2071.552000, rms=0.668 (-3.053%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.668, neg=0, invalid=762
- 0163: dt=295.936000, rms=0.666 (0.334%), neg=0, invalid=762
- 0164: dt=129.472000, rms=0.666 (0.074%), neg=0, invalid=762
- 0165: dt=517.888000, rms=0.665 (0.077%), neg=0, invalid=762
- 0166: dt=92.480000, rms=0.665 (0.053%), neg=0, invalid=762
- 0167: dt=1183.744000, rms=0.664 (0.065%), neg=0, invalid=762
- 0168: dt=129.472000, rms=0.664 (0.046%), neg=0, invalid=762
- 0169: dt=129.472000, rms=0.664 (0.017%), neg=0, invalid=762
- 0170: dt=129.472000, rms=0.664 (0.023%), neg=0, invalid=762
- 0171: dt=129.472000, rms=0.664 (0.018%), neg=0, invalid=762
- 0172: dt=129.472000, rms=0.664 (0.015%), neg=0, invalid=762
- 0173: dt=369.920000, rms=0.664 (0.020%), neg=0, invalid=762
- 0174: dt=32.368000, rms=0.663 (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=0.665, neg=0, invalid=762
- 0175: dt=93.180077, rms=0.662 (0.519%), neg=0, invalid=762
- 0176: dt=216.421053, rms=0.656 (0.951%), neg=0, invalid=762
- 0177: dt=50.823529, rms=0.652 (0.585%), neg=0, invalid=762
- 0178: dt=414.720000, rms=0.644 (1.111%), neg=0, invalid=762
- 0179: dt=60.931507, rms=0.641 (0.568%), neg=0, invalid=762
- 0180: dt=124.416000, rms=0.639 (0.302%), neg=0, invalid=762
- 0181: dt=36.288000, rms=0.638 (0.138%), neg=0, invalid=762
- 0182: dt=414.720000, rms=0.636 (0.382%), neg=0, invalid=762
- 0183: dt=36.288000, rms=0.633 (0.382%), neg=0, invalid=762
- 0184: dt=145.152000, rms=0.631 (0.273%), neg=0, invalid=762
- 0185: dt=36.288000, rms=0.631 (0.060%), neg=0, invalid=762
- 0186: dt=497.664000, rms=0.629 (0.280%), neg=0, invalid=762
- 0187: dt=64.000000, rms=0.627 (0.403%), neg=0, invalid=762
- 0188: dt=36.288000, rms=0.626 (0.041%), neg=0, invalid=762
- 0189: dt=36.288000, rms=0.626 (0.031%), neg=0, invalid=762
- 0190: dt=36.288000, rms=0.626 (0.061%), neg=0, invalid=762
- 0191: dt=36.288000, rms=0.625 (0.096%), neg=0, invalid=762
- 0192: dt=36.288000, rms=0.625 (0.119%), neg=0, invalid=762
- 0193: dt=36.288000, rms=0.624 (0.140%), neg=0, invalid=762
- 0194: dt=36.288000, rms=0.623 (0.149%), neg=0, invalid=762
- 0195: dt=36.288000, rms=0.622 (0.156%), neg=0, invalid=762
- 0196: dt=36.288000, rms=0.621 (0.159%), neg=0, invalid=762
- 0197: dt=36.288000, rms=0.620 (0.165%), neg=0, invalid=762
- 0198: dt=36.288000, rms=0.619 (0.165%), neg=0, invalid=762
- 0199: dt=36.288000, rms=0.618 (0.164%), neg=0, invalid=762
- 0200: dt=36.288000, rms=0.618 (0.018%), neg=0, invalid=762
- 0201: dt=36.288000, rms=0.617 (0.040%), neg=0, invalid=762
- 0202: dt=36.288000, rms=0.617 (0.055%), neg=0, invalid=762
- 0203: dt=36.288000, rms=0.617 (0.068%), neg=0, invalid=762
- 0204: dt=36.288000, rms=0.616 (0.078%), neg=0, invalid=762
- 0205: dt=36.288000, rms=0.616 (0.090%), neg=0, invalid=762
- 0206: dt=36.288000, rms=0.615 (0.096%), neg=0, invalid=762
- 0207: dt=36.288000, rms=0.614 (0.101%), neg=0, invalid=762
- 0208: dt=36.288000, rms=0.614 (0.103%), neg=0, invalid=762
- 0209: dt=36.288000, rms=0.613 (0.107%), neg=0, invalid=762
- 0210: dt=36.288000, rms=0.612 (0.105%), neg=0, invalid=762
- 0211: dt=36.288000, rms=0.612 (0.105%), neg=0, invalid=762
- 0212: dt=36.288000, rms=0.611 (0.108%), neg=0, invalid=762
- 0213: dt=36.288000, rms=0.610 (0.109%), neg=0, invalid=762
- 0214: dt=36.288000, rms=0.610 (0.113%), neg=0, invalid=762
- 0215: dt=36.288000, rms=0.609 (0.110%), neg=0, invalid=762
- 0216: dt=36.288000, rms=0.608 (0.109%), neg=0, invalid=762
- 0217: dt=36.288000, rms=0.608 (0.101%), neg=0, invalid=762
- 0218: dt=36.288000, rms=0.607 (0.097%), neg=0, invalid=762
- 0219: dt=36.288000, rms=0.607 (0.094%), neg=0, invalid=762
- 0220: dt=36.288000, rms=0.606 (0.091%), neg=0, invalid=762
- 0221: dt=36.288000, rms=0.606 (0.094%), neg=0, invalid=762
- 0222: dt=36.288000, rms=0.605 (0.092%), neg=0, invalid=762
- 0223: dt=36.288000, rms=0.604 (0.086%), neg=0, invalid=762
- 0224: dt=36.288000, rms=0.604 (0.079%), neg=0, invalid=762
- 0225: dt=36.288000, rms=0.603 (0.080%), neg=0, invalid=762
- 0226: dt=36.288000, rms=0.603 (0.011%), neg=0, invalid=762
- 0227: dt=36.288000, rms=0.603 (0.018%), neg=0, invalid=762
- 0228: dt=36.288000, rms=0.603 (0.020%), neg=0, invalid=762
- 0229: dt=36.288000, rms=0.603 (0.022%), neg=0, invalid=762
- 0230: dt=36.288000, rms=0.603 (0.026%), neg=0, invalid=762
- 0231: dt=36.288000, rms=0.603 (0.036%), neg=0, invalid=762
- 0232: dt=36.288000, rms=0.602 (0.038%), neg=0, invalid=762
- 0233: dt=36.288000, rms=0.602 (0.039%), neg=0, invalid=762
- 0234: dt=36.288000, rms=0.602 (0.043%), neg=0, invalid=762
- 0235: dt=36.288000, rms=0.602 (0.041%), neg=0, invalid=762
- 0236: dt=36.288000, rms=0.601 (0.043%), neg=0, invalid=762
- 0237: dt=36.288000, rms=0.601 (0.042%), neg=0, invalid=762
- 0238: dt=36.288000, rms=0.601 (0.045%), neg=0, invalid=762
- 0239: dt=36.288000, rms=0.601 (0.047%), neg=0, invalid=762
- 0240: dt=36.288000, rms=0.600 (0.047%), neg=0, invalid=762
- 0241: dt=36.288000, rms=0.600 (0.046%), neg=0, invalid=762
- 0242: dt=36.288000, rms=0.600 (0.047%), neg=0, invalid=762
- 0243: dt=36.288000, rms=0.600 (0.043%), neg=0, invalid=762
- 0244: dt=36.288000, rms=0.599 (0.044%), neg=0, invalid=762
- 0245: dt=36.288000, rms=0.599 (0.043%), neg=0, invalid=762
- 0246: dt=36.288000, rms=0.599 (0.009%), neg=0, invalid=762
- 0247: dt=36.288000, rms=0.599 (0.005%), neg=0, invalid=762
- 0248: dt=9.072000, rms=0.599 (0.002%), neg=0, invalid=762
- 0249: dt=9.072000, rms=0.599 (0.001%), neg=0, invalid=762
- 0250: dt=2.268000, rms=0.599 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.600, neg=0, invalid=762
- 0251: dt=96.264463, rms=0.597 (0.542%), neg=0, invalid=762
- 0252: dt=84.425532, rms=0.596 (0.183%), neg=0, invalid=762
- 0253: dt=36.288000, rms=0.595 (0.065%), neg=0, invalid=762
- 0254: dt=331.776000, rms=0.594 (0.212%), neg=0, invalid=762
- 0255: dt=36.288000, rms=0.594 (0.092%), neg=0, invalid=762
- 0256: dt=145.152000, rms=0.593 (0.063%), neg=0, invalid=762
- 0257: dt=82.944000, rms=0.593 (0.026%), neg=0, invalid=762
- 0258: dt=82.944000, rms=0.593 (0.050%), neg=0, invalid=762
- 0259: dt=82.944000, rms=0.592 (0.061%), neg=0, invalid=762
- 0260: dt=82.944000, rms=0.592 (0.066%), neg=0, invalid=762
- 0261: dt=82.944000, rms=0.591 (0.098%), neg=0, invalid=762
- 0262: dt=82.944000, rms=0.591 (0.109%), neg=0, invalid=762
- 0263: dt=82.944000, rms=0.590 (0.095%), neg=0, invalid=762
- 0264: dt=82.944000, rms=0.590 (0.079%), neg=0, invalid=762
- 0265: dt=82.944000, rms=0.589 (0.106%), neg=0, invalid=762
- 0266: dt=82.944000, rms=0.589 (0.099%), neg=0, invalid=762
- 0267: dt=82.944000, rms=0.588 (0.086%), neg=0, invalid=762
- 0268: dt=82.944000, rms=0.588 (0.080%), neg=0, invalid=762
- 0269: dt=82.944000, rms=0.587 (0.094%), neg=0, invalid=762
- 0270: dt=82.944000, rms=0.586 (0.083%), neg=0, invalid=762
- 0271: dt=82.944000, rms=0.586 (0.072%), neg=0, invalid=762
- 0272: dt=82.944000, rms=0.586 (0.079%), neg=0, invalid=762
- 0273: dt=82.944000, rms=0.585 (0.082%), neg=0, invalid=762
- 0274: dt=82.944000, rms=0.585 (0.079%), neg=0, invalid=762
- 0275: dt=82.944000, rms=0.584 (0.073%), neg=0, invalid=762
- 0276: dt=82.944000, rms=0.584 (0.078%), neg=0, invalid=762
- 0277: dt=82.944000, rms=0.583 (0.075%), neg=0, invalid=762
- 0278: dt=82.944000, rms=0.583 (0.069%), neg=0, invalid=762
- 0279: dt=82.944000, rms=0.583 (0.068%), neg=0, invalid=762
- 0280: dt=82.944000, rms=0.582 (0.064%), neg=0, invalid=762
- 0281: dt=82.944000, rms=0.582 (0.059%), neg=0, invalid=762
- 0282: dt=82.944000, rms=0.582 (0.053%), neg=0, invalid=762
- 0283: dt=82.944000, rms=0.581 (0.060%), neg=0, invalid=762
- 0284: dt=82.944000, rms=0.581 (0.060%), neg=0, invalid=762
- 0285: dt=82.944000, rms=0.580 (0.062%), neg=0, invalid=762
- 0286: dt=82.944000, rms=0.580 (0.056%), neg=0, invalid=762
- 0287: dt=82.944000, rms=0.580 (0.055%), neg=0, invalid=762
- 0288: dt=82.944000, rms=0.579 (0.056%), neg=0, invalid=762
- 0289: dt=82.944000, rms=0.579 (0.050%), neg=0, invalid=762
- 0290: dt=82.944000, rms=0.579 (0.046%), neg=0, invalid=762
- 0291: dt=82.944000, rms=0.579 (0.043%), neg=0, invalid=762
- 0292: dt=82.944000, rms=0.578 (0.044%), neg=0, invalid=762
- 0293: dt=82.944000, rms=0.578 (0.048%), neg=0, invalid=762
- 0294: dt=82.944000, rms=0.578 (0.046%), neg=0, invalid=762
- 0295: dt=82.944000, rms=0.578 (0.038%), neg=0, invalid=762
- 0296: dt=82.944000, rms=0.577 (0.039%), neg=0, invalid=762
- 0297: dt=82.944000, rms=0.577 (0.041%), neg=0, invalid=762
- 0298: dt=82.944000, rms=0.577 (0.042%), neg=0, invalid=762
- 0299: dt=82.944000, rms=0.577 (0.038%), neg=0, invalid=762
- 0300: dt=82.944000, rms=0.577 (0.040%), neg=0, invalid=762
- 0301: dt=82.944000, rms=0.576 (0.036%), neg=0, invalid=762
- 0302: dt=82.944000, rms=0.576 (0.030%), neg=0, invalid=762
- 0303: dt=82.944000, rms=0.576 (0.036%), neg=0, invalid=762
- 0304: dt=82.944000, rms=0.576 (0.036%), neg=0, invalid=762
- 0305: dt=82.944000, rms=0.576 (0.034%), neg=0, invalid=762
- 0306: dt=82.944000, rms=0.575 (0.034%), neg=0, invalid=762
- 0307: dt=82.944000, rms=0.575 (0.032%), neg=0, invalid=762
- 0308: dt=82.944000, rms=0.575 (0.033%), neg=0, invalid=762
- 0309: dt=82.944000, rms=0.575 (0.031%), neg=0, invalid=762
- 0310: dt=82.944000, rms=0.575 (0.029%), neg=0, invalid=762
- 0311: dt=82.944000, rms=0.574 (0.030%), neg=0, invalid=762
- 0312: dt=82.944000, rms=0.574 (0.030%), neg=0, invalid=762
- 0313: dt=82.944000, rms=0.574 (0.029%), neg=0, invalid=762
- 0314: dt=82.944000, rms=0.574 (0.025%), neg=0, invalid=762
- 0315: dt=82.944000, rms=0.574 (0.025%), neg=0, invalid=762
- 0316: dt=82.944000, rms=0.574 (0.027%), neg=0, invalid=762
- 0317: dt=82.944000, rms=0.574 (0.023%), neg=0, invalid=762
- 0318: dt=82.944000, rms=0.573 (0.021%), neg=0, invalid=762
- 0319: dt=124.416000, rms=0.573 (0.008%), neg=0, invalid=762
- 0320: dt=124.416000, rms=0.573 (-0.005%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.582, neg=0, invalid=762
- 0321: dt=11.200000, rms=0.580 (0.328%), neg=0, invalid=762
- 0322: dt=25.600000, rms=0.580 (0.125%), neg=0, invalid=762
- 0323: dt=44.800000, rms=0.578 (0.366%), neg=0, invalid=762
- 0324: dt=11.200000, rms=0.577 (0.119%), neg=0, invalid=762
- 0325: dt=11.200000, rms=0.576 (0.117%), neg=0, invalid=762
- 0326: dt=11.200000, rms=0.575 (0.118%), neg=0, invalid=762
- 0327: dt=2.800000, rms=0.575 (0.027%), neg=0, invalid=762
- 0328: dt=0.350000, rms=0.575 (0.004%), neg=0, invalid=762
- 0329: dt=0.087500, rms=0.575 (0.001%), neg=0, invalid=762
- 0330: dt=0.021875, rms=0.575 (0.000%), neg=0, invalid=762
- 0331: dt=0.002734, rms=0.575 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.576, neg=0, invalid=762
- 0332: dt=38.400000, rms=0.571 (0.859%), neg=0, invalid=762
- 0333: dt=38.400000, rms=0.569 (0.426%), neg=0, invalid=762
- 0334: dt=23.553648, rms=0.567 (0.293%), neg=0, invalid=762
- 0335: dt=44.800000, rms=0.566 (0.296%), neg=0, invalid=762
- 0336: dt=21.838863, rms=0.564 (0.247%), neg=0, invalid=762
- 0337: dt=44.800000, rms=0.563 (0.260%), neg=0, invalid=762
- 0338: dt=23.656442, rms=0.562 (0.210%), neg=0, invalid=762
- 0339: dt=38.400000, rms=0.561 (0.193%), neg=0, invalid=762
- 0340: dt=23.734317, rms=0.560 (0.186%), neg=0, invalid=762
- 0341: dt=38.400000, rms=0.559 (0.168%), neg=0, invalid=762
- 0342: dt=24.289157, rms=0.558 (0.174%), neg=0, invalid=762
- 0343: dt=32.000000, rms=0.557 (0.147%), neg=0, invalid=762
- 0344: dt=25.600000, rms=0.556 (0.139%), neg=0, invalid=762
- 0345: dt=32.000000, rms=0.555 (0.122%), neg=0, invalid=762
- 0346: dt=25.600000, rms=0.555 (0.127%), neg=0, invalid=762
- 0347: dt=25.600000, rms=0.554 (0.113%), neg=0, invalid=762
- 0348: dt=32.000000, rms=0.553 (0.116%), neg=0, invalid=762
- 0349: dt=25.600000, rms=0.553 (0.112%), neg=0, invalid=762
- 0350: dt=32.000000, rms=0.552 (0.095%), neg=0, invalid=762
- 0351: dt=25.600000, rms=0.552 (0.116%), neg=0, invalid=762
- 0352: dt=25.600000, rms=0.551 (0.093%), neg=0, invalid=762
- 0353: dt=32.000000, rms=0.551 (0.096%), neg=0, invalid=762
- 0354: dt=25.600000, rms=0.550 (0.092%), neg=0, invalid=762
- 0355: dt=32.000000, rms=0.550 (0.092%), neg=0, invalid=762
- 0356: dt=25.600000, rms=0.549 (0.083%), neg=0, invalid=762
- 0357: dt=25.600000, rms=0.549 (0.087%), neg=0, invalid=762
- 0358: dt=38.400000, rms=0.548 (0.081%), neg=0, invalid=762
- 0359: dt=19.200000, rms=0.548 (0.089%), neg=0, invalid=762
- 0360: dt=44.800000, rms=0.547 (0.093%), neg=0, invalid=762
- 0361: dt=19.200000, rms=0.547 (0.080%), neg=0, invalid=762
- 0362: dt=44.800000, rms=0.546 (0.090%), neg=0, invalid=762
- 0363: dt=19.200000, rms=0.546 (0.069%), neg=0, invalid=762
- 0364: dt=38.400000, rms=0.545 (0.071%), neg=0, invalid=762
- 0365: dt=0.043750, rms=0.545 (0.011%), neg=0, invalid=762
- 0366: dt=0.021875, rms=0.545 (0.000%), neg=0, invalid=762
- 0367: dt=0.010937, rms=0.545 (0.000%), neg=0, invalid=762
- 0368: dt=0.002734, rms=0.545 (0.000%), neg=0, invalid=762
- 0369: dt=0.000000, rms=0.545 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.562, neg=0, invalid=762
- 0370: dt=0.000000, rms=0.561 (0.195%), neg=0, invalid=762
- 0371: dt=0.000000, rms=0.561 (0.000%), neg=0, invalid=762
- 0372: dt=0.150000, rms=0.561 (-0.007%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.562, neg=0, invalid=762
- 0373: dt=0.000000, rms=0.561 (0.195%), neg=0, invalid=762
- 0374: dt=0.000000, rms=0.561 (0.000%), neg=0, invalid=762
- 0375: dt=0.150000, rms=0.561 (-0.008%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.594, neg=0, invalid=762
- 0376: dt=1.280000, rms=0.591 (0.467%), neg=0, invalid=762
- 0377: dt=0.000050, rms=0.591 (-0.004%), neg=0, invalid=762
- 0378: dt=0.000050, rms=0.591 (0.000%), neg=0, invalid=762
- 0379: dt=0.000050, rms=0.591 (0.000%), neg=0, invalid=762
- 0380: dt=0.000050, rms=0.591 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.592, neg=0, invalid=762
- 0381: dt=0.768000, rms=0.590 (0.260%), neg=0, invalid=762
- 0382: dt=0.256000, rms=0.590 (0.007%), neg=0, invalid=762
- 0383: dt=0.256000, rms=0.590 (-0.004%), neg=0, invalid=762
- resetting metric properties...
- setting smoothness coefficient to 2.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.552, neg=0, invalid=762
- 0384: dt=0.448000, rms=0.534 (3.095%), neg=0, invalid=762
- 0385: dt=0.384000, rms=0.531 (0.643%), neg=0, invalid=762
- 0386: dt=0.448000, rms=0.529 (0.451%), neg=0, invalid=762
- 0387: dt=0.448000, rms=0.527 (0.261%), neg=0, invalid=762
- 0388: dt=0.448000, rms=0.526 (0.188%), neg=0, invalid=762
- 0389: dt=0.448000, rms=0.526 (0.129%), neg=0, invalid=762
- 0390: dt=0.448000, rms=0.525 (0.106%), neg=0, invalid=762
- 0391: dt=0.448000, rms=0.525 (0.078%), neg=0, invalid=762
- 0392: dt=0.448000, rms=0.524 (0.068%), neg=0, invalid=762
- 0393: dt=0.448000, rms=0.524 (0.050%), neg=0, invalid=762
- 0394: dt=0.448000, rms=0.524 (0.047%), neg=0, invalid=762
- 0395: dt=0.448000, rms=0.523 (0.074%), neg=0, invalid=762
- 0396: dt=0.224000, rms=0.523 (0.018%), neg=0, invalid=762
- 0397: dt=0.224000, rms=0.523 (0.027%), neg=0, invalid=762
- 0398: dt=0.224000, rms=0.523 (0.034%), neg=0, invalid=762
- 0399: dt=0.224000, rms=0.523 (0.037%), neg=0, invalid=762
- 0400: dt=0.224000, rms=0.523 (0.038%), neg=0, invalid=762
- 0401: dt=0.224000, rms=0.522 (0.034%), neg=0, invalid=762
- 0402: dt=0.224000, rms=0.522 (0.035%), neg=0, invalid=762
- 0403: dt=0.224000, rms=0.522 (0.031%), neg=0, invalid=762
- 0404: dt=0.224000, rms=0.522 (0.023%), neg=0, invalid=762
- 0405: dt=0.224000, rms=0.522 (-0.003%), neg=0, invalid=762
- 0406: dt=-0.000928, rms=0.522 (0.000%), neg=0, invalid=762
- 0407: dt=0.000000, rms=0.522 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.523, neg=0, invalid=762
- 0408: dt=0.112000, rms=0.520 (0.476%), neg=0, invalid=762
- 0409: dt=0.448000, rms=0.516 (0.827%), neg=0, invalid=762
- 0410: dt=0.384000, rms=0.516 (0.061%), neg=0, invalid=762
- 0411: dt=0.320000, rms=0.516 (0.021%), neg=0, invalid=762
- 0412: dt=0.320000, rms=0.516 (0.010%), neg=0, invalid=762
- 0413: dt=0.320000, rms=0.516 (0.009%), neg=0, invalid=762
- 0414: dt=0.320000, rms=0.516 (-0.005%), 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=0.514, neg=0, invalid=762
- 0415: dt=0.000000, rms=0.513 (0.207%), neg=0, invalid=762
- 0416: dt=0.000000, rms=0.513 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.514, neg=0, invalid=762
- 0417: dt=129.472000, rms=0.513 (0.233%), neg=0, invalid=762
- 0418: dt=92.480000, rms=0.513 (0.010%), neg=0, invalid=762
- 0419: dt=92.480000, rms=0.513 (0.009%), neg=0, invalid=762
- 0420: dt=92.480000, rms=0.513 (0.013%), neg=0, invalid=762
- 0421: dt=92.480000, rms=0.513 (0.016%), neg=0, invalid=762
- 0422: dt=92.480000, rms=0.513 (0.012%), neg=0, invalid=762
- 0423: dt=92.480000, rms=0.513 (0.009%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.514, neg=0, invalid=762
- 0424: dt=9.072000, rms=0.513 (0.217%), neg=0, invalid=762
- 0425: dt=6.480000, rms=0.513 (0.003%), neg=0, invalid=762
- 0426: dt=6.480000, rms=0.513 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.514, neg=0, invalid=762
- 0427: dt=145.152000, rms=0.511 (0.496%), neg=0, invalid=762
- 0428: dt=36.288000, rms=0.511 (0.108%), neg=0, invalid=762
- 0429: dt=36.288000, rms=0.510 (0.047%), neg=0, invalid=762
- 0430: dt=36.288000, rms=0.510 (0.067%), neg=0, invalid=762
- 0431: dt=36.288000, rms=0.510 (0.089%), neg=0, invalid=762
- 0432: dt=36.288000, rms=0.509 (0.095%), neg=0, invalid=762
- 0433: dt=36.288000, rms=0.509 (0.099%), neg=0, invalid=762
- 0434: dt=36.288000, rms=0.508 (0.091%), neg=0, invalid=762
- 0435: dt=36.288000, rms=0.508 (0.078%), neg=0, invalid=762
- 0436: dt=82.944000, rms=0.508 (0.019%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.509, neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 0 iterations, nbhd size=0, neg = 0
- 0437: dt=24.631579, rms=0.506 (0.496%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 4 iterations, nbhd size=0, neg = 0
- 0438: dt=44.800000, rms=0.504 (0.391%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0439: dt=25.600000, rms=0.503 (0.181%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 5 iterations, nbhd size=0, neg = 0
- 0440: dt=25.600000, rms=0.503 (0.179%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 7 iterations, nbhd size=1, neg = 0
- 0441: dt=25.600000, rms=0.501 (0.285%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 4 iterations, nbhd size=0, neg = 0
- 0442: dt=25.600000, rms=0.500 (0.233%), neg=0, invalid=762
- iter 0, gcam->neg = 8
- after 3 iterations, nbhd size=0, neg = 0
- 0443: dt=25.600000, rms=0.499 (0.215%), neg=0, invalid=762
- iter 0, gcam->neg = 11
- after 5 iterations, nbhd size=0, neg = 0
- 0444: dt=25.600000, rms=0.498 (0.149%), neg=0, invalid=762
- iter 0, gcam->neg = 18
- after 17 iterations, nbhd size=1, neg = 0
- 0445: dt=25.600000, rms=0.497 (0.223%), neg=0, invalid=762
- iter 0, gcam->neg = 15
- after 3 iterations, nbhd size=0, neg = 0
- 0446: dt=25.600000, rms=0.496 (0.206%), neg=0, invalid=762
- iter 0, gcam->neg = 24
- after 5 iterations, nbhd size=0, neg = 0
- 0447: dt=25.600000, rms=0.495 (0.233%), neg=0, invalid=762
- iter 0, gcam->neg = 35
- after 16 iterations, nbhd size=1, neg = 0
- 0448: dt=25.600000, rms=0.494 (0.178%), neg=0, invalid=762
- iter 0, gcam->neg = 17
- after 8 iterations, nbhd size=0, neg = 0
- 0449: dt=25.600000, rms=0.493 (0.256%), neg=0, invalid=762
- iter 0, gcam->neg = 21
- after 5 iterations, nbhd size=0, neg = 0
- 0450: dt=25.600000, rms=0.492 (0.198%), neg=0, invalid=762
- iter 0, gcam->neg = 13
- after 6 iterations, nbhd size=0, neg = 0
- 0451: dt=25.600000, rms=0.491 (0.183%), neg=0, invalid=762
- iter 0, gcam->neg = 13
- after 13 iterations, nbhd size=1, neg = 0
- 0452: dt=25.600000, rms=0.490 (0.065%), neg=0, invalid=762
- iter 0, gcam->neg = 15
- after 12 iterations, nbhd size=1, neg = 0
- 0453: dt=25.600000, rms=0.490 (0.124%), neg=0, invalid=762
- iter 0, gcam->neg = 12
- after 4 iterations, nbhd size=0, neg = 0
- 0454: dt=25.600000, rms=0.489 (0.113%), neg=0, invalid=762
- 0455: dt=11.200000, rms=0.489 (0.075%), neg=0, invalid=762
- 0456: dt=11.200000, rms=0.489 (0.032%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 1 iterations, nbhd size=0, neg = 0
- 0457: dt=11.200000, rms=0.489 (0.048%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 6 iterations, nbhd size=1, neg = 0
- 0458: dt=11.200000, rms=0.488 (0.039%), neg=0, invalid=762
- 0459: dt=11.200000, rms=0.488 (0.046%), neg=0, invalid=762
- 0460: dt=11.200000, rms=0.488 (0.044%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.489, neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 7 iterations, nbhd size=1, neg = 0
- 0461: dt=44.800000, rms=0.484 (0.965%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0462: dt=25.600000, rms=0.483 (0.276%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 1 iterations, nbhd size=0, neg = 0
- 0463: dt=32.000000, rms=0.482 (0.182%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0464: dt=32.000000, rms=0.482 (0.068%), neg=0, invalid=762
- 0465: dt=32.000000, rms=0.480 (0.315%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 5 iterations, nbhd size=0, neg = 0
- 0466: dt=32.000000, rms=0.480 (0.117%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 4 iterations, nbhd size=0, neg = 0
- 0467: dt=32.000000, rms=0.478 (0.262%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 4 iterations, nbhd size=0, neg = 0
- 0468: dt=32.000000, rms=0.478 (-0.070%), neg=0, invalid=762
- 0469: dt=11.200000, rms=0.478 (0.048%), neg=0, invalid=762
- 0470: dt=38.400000, rms=0.478 (0.041%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.487, neg=0, invalid=762
- 0471: dt=1.500000, rms=0.485 (0.249%), neg=0, invalid=762
- 0472: dt=0.252000, rms=0.485 (0.001%), neg=0, invalid=762
- 0473: dt=0.252000, rms=0.485 (0.001%), neg=0, invalid=762
- 0474: dt=0.252000, rms=0.485 (-0.003%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.486, neg=0, invalid=762
- 0475: dt=5.333333, rms=0.485 (0.325%), neg=0, invalid=762
- 0476: dt=4.000000, rms=0.485 (0.028%), neg=0, invalid=762
- 0477: dt=4.000000, rms=0.485 (0.027%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0478: dt=4.000000, rms=0.485 (-0.032%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.494, neg=0, invalid=762
- 0479: dt=0.000000, rms=0.493 (0.221%), neg=0, invalid=762
- 0480: dt=0.000000, rms=0.493 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.494, neg=0, invalid=762
- 0481: dt=0.448000, rms=0.493 (0.259%), neg=0, invalid=762
- 0482: dt=0.448000, rms=0.493 (0.020%), neg=0, invalid=762
- 0483: dt=0.448000, rms=0.493 (-0.004%), neg=0, invalid=762
- resetting metric properties...
- setting smoothness coefficient to 2.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.482, neg=0, invalid=762
- iter 0, gcam->neg = 1146
- after 16 iterations, nbhd size=1, neg = 0
- 0484: dt=2.178208, rms=0.447 (7.347%), neg=0, invalid=762
- 0485: dt=0.064000, rms=0.446 (0.030%), neg=0, invalid=762
- 0486: dt=0.064000, rms=0.446 (-0.038%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.448, neg=0, invalid=762
- 0487: dt=0.096000, rms=0.446 (0.329%), neg=0, invalid=762
- 0488: dt=0.000000, rms=0.446 (0.005%), neg=0, invalid=762
- 0489: dt=0.050000, rms=0.446 (-0.021%), 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=0.432, neg=0, invalid=762
- 0490: dt=0.000000, rms=0.432 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.432, neg=0, invalid=762
- 0491: dt=73.984000, rms=0.432 (0.012%), neg=0, invalid=762
- 0492: dt=129.472000, rms=0.432 (0.007%), neg=0, invalid=762
- 0493: dt=129.472000, rms=0.432 (-0.004%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.432, neg=0, invalid=762
- 0494: dt=0.000000, rms=0.432 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.432, neg=0, invalid=762
- 0495: dt=103.680000, rms=0.432 (0.055%), neg=0, invalid=762
- 0496: dt=82.944000, rms=0.431 (0.044%), neg=0, invalid=762
- 0497: dt=82.944000, rms=0.431 (0.001%), neg=0, invalid=762
- 0498: dt=82.944000, rms=0.431 (0.047%), neg=0, invalid=762
- 0499: dt=82.944000, rms=0.431 (0.021%), neg=0, invalid=762
- 0500: dt=82.944000, rms=0.431 (0.026%), neg=0, invalid=762
- 0501: dt=82.944000, rms=0.431 (-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=0.432, neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0502: dt=4.800000, rms=0.432 (0.020%), neg=0, invalid=762
- 0503: dt=1.600000, rms=0.432 (0.001%), neg=0, invalid=762
- 0504: dt=1.600000, rms=0.432 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.432, neg=0, invalid=762
- 0505: dt=94.128134, rms=0.429 (0.633%), neg=0, invalid=762
- 0506: dt=21.437908, rms=0.428 (0.234%), neg=0, invalid=762
- 0507: dt=21.437908, rms=0.428 (0.077%), neg=0, invalid=762
- 0508: dt=21.437908, rms=0.427 (0.092%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 1 iterations, nbhd size=0, neg = 0
- 0509: dt=21.437908, rms=0.427 (0.125%), neg=0, invalid=762
- 0510: dt=21.437908, rms=0.426 (0.135%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 2 iterations, nbhd size=0, neg = 0
- 0511: dt=21.437908, rms=0.425 (0.148%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 1 iterations, nbhd size=0, neg = 0
- 0512: dt=21.437908, rms=0.425 (0.147%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0513: dt=21.437908, rms=0.424 (0.127%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 12 iterations, nbhd size=1, neg = 0
- 0514: dt=21.437908, rms=0.424 (0.077%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 3 iterations, nbhd size=0, neg = 0
- 0515: dt=21.437908, rms=0.424 (0.098%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 12 iterations, nbhd size=1, neg = 0
- 0516: dt=21.437908, rms=0.423 (0.060%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 3 iterations, nbhd size=0, neg = 0
- 0517: dt=44.800000, rms=0.423 (0.057%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 6 iterations, nbhd size=0, neg = 0
- 0518: dt=44.800000, rms=0.423 (0.003%), neg=0, invalid=762
- iter 0, gcam->neg = 9
- after 4 iterations, nbhd size=0, neg = 0
- 0519: dt=44.800000, rms=0.423 (0.071%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 2 iterations, nbhd size=0, neg = 0
- 0520: dt=44.800000, rms=0.423 (0.036%), neg=0, invalid=762
- iter 0, gcam->neg = 9
- after 5 iterations, nbhd size=0, neg = 0
- 0521: dt=44.800000, rms=0.422 (0.011%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.426, neg=0, invalid=762
- 0522: dt=0.000158, rms=0.426 (0.000%), neg=0, invalid=762
- 0523: dt=0.000000, rms=0.426 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.426, neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0524: dt=5.714286, rms=0.426 (0.055%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 3 iterations, nbhd size=0, neg = 0
- 0525: dt=8.390244, rms=0.426 (0.040%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0526: dt=8.390244, rms=0.426 (0.057%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 12 iterations, nbhd size=1, neg = 0
- 0527: dt=8.390244, rms=0.425 (0.036%), neg=0, invalid=762
- iter 0, gcam->neg = 17
- after 11 iterations, nbhd size=1, neg = 0
- 0528: dt=8.390244, rms=0.425 (0.080%), neg=0, invalid=762
- iter 0, gcam->neg = 44
- after 21 iterations, nbhd size=1, neg = 0
- 0529: dt=8.390244, rms=0.425 (0.087%), neg=0, invalid=762
- iter 0, gcam->neg = 69
- after 15 iterations, nbhd size=1, neg = 0
- 0530: dt=8.390244, rms=0.424 (0.258%), neg=0, invalid=762
- iter 0, gcam->neg = 99
- after 16 iterations, nbhd size=1, neg = 0
- 0531: dt=8.390244, rms=0.422 (0.286%), neg=0, invalid=762
- iter 0, gcam->neg = 134
- after 20 iterations, nbhd size=1, neg = 0
- 0532: dt=8.390244, rms=0.422 (0.222%), neg=0, invalid=762
- iter 0, gcam->neg = 142
- after 17 iterations, nbhd size=1, neg = 0
- 0533: dt=8.390244, rms=0.421 (0.116%), neg=0, invalid=762
- iter 0, gcam->neg = 149
- after 24 iterations, nbhd size=1, neg = 0
- 0534: dt=8.390244, rms=0.421 (-0.039%), neg=0, invalid=762
- 0535: dt=0.001688, rms=0.421 (0.000%), neg=0, invalid=762
- 0536: dt=0.000000, rms=0.421 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.428, neg=0, invalid=762
- 0537: dt=0.000000, rms=0.428 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.428, neg=0, invalid=762
- 0538: dt=0.000000, rms=0.428 (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=0.416, neg=0, invalid=762
- iter 0, gcam->neg = 923
- after 18 iterations, nbhd size=1, neg = 0
- 0539: dt=1.338590, rms=0.405 (2.806%), neg=0, invalid=762
- 0540: dt=0.000013, rms=0.405 (0.000%), neg=0, invalid=762
- 0541: dt=0.000013, rms=0.405 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.405, neg=0, invalid=762
- 0542: dt=0.064000, rms=0.405 (0.027%), neg=0, invalid=762
- 0543: dt=0.024000, rms=0.405 (0.002%), neg=0, invalid=762
- 0544: dt=0.024000, rms=0.405 (-0.001%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 3 hours, 12 minutes and 47 seconds.
- mri_ca_register utimesec 12613.419468
- mri_ca_register stimesec 9.147609
- mri_ca_register ru_maxrss 1338828
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 5090117
- mri_ca_register ru_majflt 0
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 0
- mri_ca_register ru_oublock 62888
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 5756
- mri_ca_register ru_nivcsw 27758
- FSRUNTIME@ mri_ca_register 3.2132 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Sun Oct 8 00:08:13 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-961
- 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-6.0.0/0051201/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 6.64
- 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 = 0.11226 ( 6)
- Left_Lateral_Ventricle (4): linear fit = 0.28 x + 0.0 (323 voxels, overlap=0.169)
- Left_Lateral_Ventricle (4): linear fit = 0.40 x + 0.0 (323 voxels, peak = 6), gca=8.0
- gca peak = 0.17677 (13)
- mri peak = 0.09570 ( 7)
- Right_Lateral_Ventricle (43): linear fit = 0.43 x + 0.0 (367 voxels, overlap=0.494)
- Right_Lateral_Ventricle (43): linear fit = 0.43 x + 0.0 (367 voxels, peak = 6), gca=5.5
- gca peak = 0.28129 (95)
- mri peak = 0.08702 (89)
- Right_Pallidum (52): linear fit = 0.93 x + 0.0 (685 voxels, overlap=0.765)
- Right_Pallidum (52): linear fit = 0.93 x + 0.0 (685 voxels, peak = 88), gca=87.9
- gca peak = 0.16930 (96)
- mri peak = 0.08616 (84)
- Left_Pallidum (13): linear fit = 0.90 x + 0.0 (710 voxels, overlap=0.289)
- Left_Pallidum (13): linear fit = 0.90 x + 0.0 (710 voxels, peak = 87), gca=86.9
- gca peak = 0.24553 (55)
- mri peak = 0.08360 (58)
- Right_Hippocampus (53): linear fit = 1.02 x + 0.0 (659 voxels, overlap=1.011)
- Right_Hippocampus (53): linear fit = 1.02 x + 0.0 (659 voxels, peak = 56), gca=56.4
- gca peak = 0.30264 (59)
- mri peak = 0.11443 (52)
- Left_Hippocampus (17): linear fit = 0.92 x + 0.0 (576 voxels, overlap=1.009)
- Left_Hippocampus (17): linear fit = 0.92 x + 0.0 (576 voxels, peak = 54), gca=54.0
- gca peak = 0.07580 (103)
- mri peak = 0.07231 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (32261 voxels, overlap=0.643)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (32261 voxels, peak = 107), gca=106.6
- gca peak = 0.07714 (104)
- mri peak = 0.06991 (105)
- Left_Cerebral_White_Matter (2): linear fit = 1.03 x + 0.0 (34133 voxels, overlap=0.704)
- Left_Cerebral_White_Matter (2): linear fit = 1.03 x + 0.0 (34133 voxels, peak = 108), gca=107.6
- gca peak = 0.09712 (58)
- mri peak = 0.04938 (49)
- Left_Cerebral_Cortex (3): linear fit = 0.82 x + 0.0 (24245 voxels, overlap=0.553)
- Left_Cerebral_Cortex (3): linear fit = 0.82 x + 0.0 (24245 voxels, peak = 48), gca=47.8
- gca peak = 0.11620 (58)
- mri peak = 0.04660 (53)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (24637 voxels, overlap=0.777)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (24637 voxels, peak = 52), gca=51.9
- gca peak = 0.30970 (66)
- mri peak = 0.09573 (65)
- Right_Caudate (50): linear fit = 0.98 x + 0.0 (866 voxels, overlap=1.010)
- Right_Caudate (50): linear fit = 0.98 x + 0.0 (866 voxels, peak = 64), gca=64.3
- gca peak = 0.15280 (69)
- mri peak = 0.09901 (65)
- Left_Caudate (11): linear fit = 0.86 x + 0.0 (710 voxels, overlap=0.449)
- Left_Caudate (11): linear fit = 0.86 x + 0.0 (710 voxels, peak = 59), gca=59.0
- gca peak = 0.13902 (56)
- mri peak = 0.05514 (53)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (16623 voxels, overlap=0.987)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (16623 voxels, peak = 53), gca=52.9
- gca peak = 0.14777 (55)
- mri peak = 0.05429 (53)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (18657 voxels, overlap=0.988)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (18657 voxels, peak = 52), gca=52.0
- gca peak = 0.16765 (84)
- mri peak = 0.08858 (87)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (4411 voxels, overlap=0.904)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (4411 voxels, peak = 86), gca=86.1
- gca peak = 0.18739 (84)
- mri peak = 0.06913 (86)
- Right_Cerebellum_White_Matter (46): linear fit = 1.02 x + 0.0 (4484 voxels, overlap=0.945)
- Right_Cerebellum_White_Matter (46): linear fit = 1.02 x + 0.0 (4484 voxels, peak = 86), gca=86.1
- gca peak = 0.29869 (57)
- mri peak = 0.09898 (54)
- Left_Amygdala (18): linear fit = 0.94 x + 0.0 (355 voxels, overlap=1.024)
- Left_Amygdala (18): linear fit = 0.94 x + 0.0 (355 voxels, peak = 54), gca=53.9
- gca peak = 0.33601 (57)
- mri peak = 0.09325 (59)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (427 voxels, overlap=1.028)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (427 voxels, peak = 60), gca=59.6
- gca peak = 0.11131 (90)
- mri peak = 0.07931 (81)
- Left_Thalamus_Proper (10): linear fit = 0.94 x + 0.0 (4060 voxels, overlap=0.804)
- Left_Thalamus_Proper (10): linear fit = 0.94 x + 0.0 (4060 voxels, peak = 85), gca=85.1
- gca peak = 0.11793 (83)
- mri peak = 0.06956 (79)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (3969 voxels, overlap=0.978)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (3969 voxels, peak = 83), gca=82.6
- gca peak = 0.08324 (81)
- mri peak = 0.08370 (72)
- Left_Putamen (12): linear fit = 0.90 x + 0.0 (1984 voxels, overlap=0.652)
- Left_Putamen (12): linear fit = 0.90 x + 0.0 (1984 voxels, peak = 73), gca=73.3
- gca peak = 0.10360 (77)
- mri peak = 0.06925 (76)
- Right_Putamen (51): linear fit = 0.94 x + 0.0 (2223 voxels, overlap=0.834)
- Right_Putamen (51): linear fit = 0.94 x + 0.0 (2223 voxels, peak = 72), gca=72.0
- gca peak = 0.08424 (78)
- mri peak = 0.09547 (81)
- Brain_Stem (16): linear fit = 1.05 x + 0.0 (10216 voxels, overlap=0.476)
- Brain_Stem (16): linear fit = 1.05 x + 0.0 (10216 voxels, peak = 82), gca=82.3
- gca peak = 0.12631 (89)
- mri peak = 0.06584 (92)
- Right_VentralDC (60): linear fit = 1.03 x + 0.0 (1096 voxels, overlap=0.824)
- Right_VentralDC (60): linear fit = 1.03 x + 0.0 (1096 voxels, peak = 92), gca=92.1
- gca peak = 0.14500 (87)
- mri peak = 0.06864 (86)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1264 voxels, overlap=0.916)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1264 voxels, peak = 87), gca=86.6
- gca peak = 0.14975 (24)
- mri peak = 0.09415 ( 6)
- gca peak = 0.19357 (14)
- mri peak = 0.13875 (10)
- Fourth_Ventricle (15): linear fit = 0.62 x + 0.0 (249 voxels, overlap=0.720)
- Fourth_Ventricle (15): linear fit = 0.62 x + 0.0 (249 voxels, peak = 9), gca=8.8
- 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 0.94 x + 0.0
- estimating mean wm scale to be 1.03 x + 0.0
- estimating mean csf scale to be 0.41 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.30838 ( 7)
- mri peak = 0.11226 ( 6)
- Left_Lateral_Ventricle (4): linear fit = 0.76 x + 0.0 (323 voxels, overlap=0.999)
- Left_Lateral_Ventricle (4): linear fit = 0.76 x + 0.0 (323 voxels, peak = 5), gca=5.4
- gca peak = 0.28863 ( 6)
- mri peak = 0.09570 ( 7)
- Right_Lateral_Ventricle (43): linear fit = 1.09 x + 0.0 (367 voxels, overlap=0.992)
- Right_Lateral_Ventricle (43): linear fit = 1.09 x + 0.0 (367 voxels, peak = 7), gca=6.5
- gca peak = 0.24050 (89)
- mri peak = 0.08702 (89)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (685 voxels, overlap=1.011)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (685 voxels, peak = 89), gca=88.6
- gca peak = 0.16354 (87)
- mri peak = 0.08616 (84)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (710 voxels, overlap=1.006)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (710 voxels, peak = 87), gca=86.6
- gca peak = 0.29045 (57)
- mri peak = 0.08360 (58)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (659 voxels, overlap=1.008)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (659 voxels, peak = 57), gca=57.0
- gca peak = 0.32257 (54)
- mri peak = 0.11443 (52)
- Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (576 voxels, overlap=1.006)
- Left_Hippocampus (17): linear fit = 1.00 x + 0.0 (576 voxels, peak = 54), gca=54.0
- gca peak = 0.07500 (106)
- mri peak = 0.07231 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (32261 voxels, overlap=0.793)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (32261 voxels, peak = 105), gca=105.5
- gca peak = 0.07663 (108)
- mri peak = 0.06991 (105)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (34133 voxels, overlap=0.844)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (34133 voxels, peak = 107), gca=107.5
- gca peak = 0.11699 (48)
- mri peak = 0.04938 (49)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (24245 voxels, overlap=0.999)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (24245 voxels, peak = 48), gca=48.0
- gca peak = 0.12847 (52)
- mri peak = 0.04660 (53)
- Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (24637 voxels, overlap=0.998)
- Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (24637 voxels, peak = 51), gca=51.2
- gca peak = 0.25157 (65)
- mri peak = 0.09573 (65)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (866 voxels, overlap=1.008)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (866 voxels, peak = 65), gca=65.0
- gca peak = 0.14240 (66)
- mri peak = 0.09901 (65)
- Left_Caudate (11): linear fit = 1.02 x + 0.0 (710 voxels, overlap=0.995)
- Left_Caudate (11): linear fit = 1.02 x + 0.0 (710 voxels, peak = 68), gca=67.7
- gca peak = 0.14838 (52)
- mri peak = 0.05514 (53)
- Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (16623 voxels, overlap=1.000)
- Left_Cerebellum_Cortex (8): linear fit = 1.00 x + 0.0 (16623 voxels, peak = 52), gca=52.0
- gca peak = 0.15520 (52)
- mri peak = 0.05429 (53)
- Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (18657 voxels, overlap=0.998)
- Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (18657 voxels, peak = 52), gca=52.0
- gca peak = 0.15784 (86)
- mri peak = 0.08858 (87)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4411 voxels, overlap=0.960)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (4411 voxels, peak = 86), gca=85.6
- gca peak = 0.15942 (86)
- mri peak = 0.06913 (86)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4484 voxels, overlap=0.982)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (4484 voxels, peak = 86), gca=85.6
- gca peak = 0.29807 (54)
- mri peak = 0.09898 (54)
- Left_Amygdala (18): linear fit = 0.98 x + 0.0 (355 voxels, overlap=1.024)
- Left_Amygdala (18): linear fit = 0.98 x + 0.0 (355 voxels, peak = 53), gca=52.7
- gca peak = 0.28990 (60)
- mri peak = 0.09325 (59)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (427 voxels, overlap=1.021)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (427 voxels, peak = 60), gca=60.0
- gca peak = 0.12189 (85)
- mri peak = 0.07931 (81)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (4060 voxels, overlap=0.941)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (4060 voxels, peak = 85), gca=84.6
- gca peak = 0.10211 (80)
- mri peak = 0.06956 (79)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (3969 voxels, overlap=0.972)
- Right_Thalamus_Proper (49): linear fit = 1.00 x + 0.0 (3969 voxels, peak = 80), gca=79.6
- gca peak = 0.09293 (68)
- mri peak = 0.08370 (72)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1984 voxels, overlap=0.938)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1984 voxels, peak = 68), gca=68.0
- gca peak = 0.09691 (72)
- mri peak = 0.06925 (76)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (2223 voxels, overlap=0.992)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (2223 voxels, peak = 72), gca=71.6
- gca peak = 0.07729 (85)
- mri peak = 0.09547 (81)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (10216 voxels, overlap=0.713)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (10216 voxels, peak = 85), gca=84.6
- gca peak = 0.12015 (92)
- mri peak = 0.06584 (92)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1096 voxels, overlap=0.869)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1096 voxels, peak = 92), gca=91.5
- gca peak = 0.17427 (85)
- mri peak = 0.06864 (86)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1264 voxels, overlap=0.915)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1264 voxels, peak = 85), gca=84.6
- gca peak = 0.37832 (11)
- mri peak = 0.09415 ( 6)
- gca peak = 0.36190 ( 6)
- mri peak = 0.13875 (10)
- Fourth_Ventricle (15): linear fit = 1.55 x + 0.0 (249 voxels, overlap=0.952)
- Fourth_Ventricle (15): linear fit = 1.55 x + 0.0 (249 voxels, peak = 9), gca=9.3
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.20333 (25)
- gca peak Left_Thalamus = 0.72551 (89)
- gca peak Third_Ventricle = 0.37832 (11)
- gca peak Fourth_Ventricle = 0.36190 ( 6)
- gca peak CSF = 0.36174 (15)
- gca peak Left_Accumbens_area = 0.81854 (53)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.67372 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.19331 (24)
- gca peak Right_Accumbens_area = 0.32270 (63)
- gca peak Right_vessel = 0.81794 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.89563 (13)
- gca peak WM_hypointensities = 0.07011 (79)
- gca peak non_WM_hypointensities = 0.08309 (45)
- gca peak Optic_Chiasm = 0.71127 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 0.99 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 0.93 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
- 78192 voxels changed in iteration 0 of unlikely voxel relabeling
- 109 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
- 31554 gm and wm labels changed (%25 to gray, %75 to white out of all changed labels)
- 516 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 80748 changed. image ll: -2.135, PF=0.500
- pass 2: 23928 changed. image ll: -2.134, PF=0.500
- pass 3: 7863 changed.
- pass 4: 2960 changed.
- 42217 voxels changed in iteration 0 of unlikely voxel relabeling
- 241 voxels changed in iteration 1 of unlikely voxel relabeling
- 5 voxels changed in iteration 2 of unlikely voxel relabeling
- 1 voxels changed in iteration 3 of unlikely voxel relabeling
- 0 voxels changed in iteration 4 of unlikely voxel relabeling
- 5528 voxels changed in iteration 0 of unlikely voxel relabeling
- 111 voxels changed in iteration 1 of unlikely voxel relabeling
- 33 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 4719 voxels changed in iteration 0 of unlikely voxel relabeling
- 52 voxels changed in iteration 1 of unlikely voxel relabeling
- 2 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 4550 voxels changed in iteration 0 of unlikely voxel relabeling
- 27 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 4020.733755
- mri_ca_label stimesec 1.687743
- mri_ca_label ru_maxrss 2105576
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 829757
- mri_ca_label ru_majflt 0
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 0
- mri_ca_label ru_oublock 496
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 323
- mri_ca_label ru_nivcsw 5892
- auto-labeling took 66 minutes and 18 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/transforms/cc_up.lta 0051201
- 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-6.0.0/0051201/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/norm.mgz
- 46854 voxels in left wm, 72498 in right wm, xrange [118, 131]
- searching rotation angles z=[-10 4], y=[-4 10]
-
searching scale 1 Z rot -9.6
searching scale 1 Z rot -9.3
searching scale 1 Z rot -9.1
searching scale 1 Z rot -8.8
searching scale 1 Z rot -8.6
searching scale 1 Z rot -8.3
searching scale 1 Z rot -8.1
searching scale 1 Z rot -7.8
searching scale 1 Z rot -7.6
searching scale 1 Z rot -7.3
searching scale 1 Z rot -7.1
searching scale 1 Z rot -6.8
searching scale 1 Z rot -6.6
searching scale 1 Z rot -6.3
searching scale 1 Z rot -6.1
searching scale 1 Z rot -5.8
searching scale 1 Z rot -5.6
searching scale 1 Z rot -5.3
searching scale 1 Z rot -5.1
searching scale 1 Z rot -4.8
searching scale 1 Z rot -4.6
searching scale 1 Z rot -4.3
searching scale 1 Z rot -4.1
searching scale 1 Z rot -3.8
searching scale 1 Z rot -3.6
searching scale 1 Z rot -3.3
searching scale 1 Z rot -3.1
searching scale 1 Z rot -2.8
searching scale 1 Z rot -2.6
searching scale 1 Z rot -2.3
searching scale 1 Z rot -2.1
searching scale 1 Z rot -1.8
searching scale 1 Z rot -1.6
searching scale 1 Z rot -1.3
searching scale 1 Z rot -1.1
searching scale 1 Z rot -0.8
searching scale 1 Z rot -0.6
searching scale 1 Z rot -0.3
searching scale 1 Z rot -0.1
searching scale 1 Z rot 0.2
searching scale 1 Z rot 0.4
searching scale 1 Z rot 0.7
searching scale 1 Z rot 0.9
searching scale 1 Z rot 1.2
searching scale 1 Z rot 1.4
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 global minimum found at slice 126.0, rotations (2.96, -2.56)
- final transformation (x=126.0, yr=2.961, zr=-2.555):
- 0.99767 0.04458 0.05161 -8.35296;
- -0.04452 0.99901 -0.00230 25.97720;
- -0.05166 -0.00000 0.99866 21.65990;
- 0.00000 0.00000 0.00000 1.00000;
- updating x range to be [127, 132] in xformed coordinates
- best xformed slice 129
- cc center is found at 129 108 113
- eigenvectors:
- 0.00147 -0.00480 0.99999;
- 0.08473 -0.99639 -0.00491;
- 0.99640 0.08473 -0.00106;
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/aseg.auto.mgz...
- corpus callosum segmentation took 1.2 minutes
- #--------------------------------------
- #@# Merge ASeg Sun Oct 8 01:15:45 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Sun Oct 8 01:15:45 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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...
- 2192 control points removed
- Building bias image
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 0...
- Smoothing with sigma 8
- Applying bias correction
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Iterating 2 times
- ---------------------------------
- 3d normalization pass 1 of 2
- white matter peak found at 110
- white matter peak found at 108
- gm peak at 56 (56), valley at 0 (-1)
- csf peak at 28, setting threshold to 46
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- ---------------------------------
- 3d normalization pass 2 of 2
- white matter peak found at 110
- white matter peak found at 110
- gm peak at 54 (54), valley at 0 (-1)
- csf peak at 27, setting threshold to 45
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to brain.mgz
- 3D bias adjustment took 3 minutes and 16 seconds.
- #--------------------------------------------
- #@# Mask BFS Sun Oct 8 01:19:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1615966 voxels in mask (pct= 9.63)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Sun Oct 8 01:19:05 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 (106.0): 106.7 +- 5.1 [79.0 --> 125.0]
- GM (66.0) : 65.1 +- 9.8 [30.0 --> 95.0]
- setting bottom of white matter range to 74.9
- setting top of gray matter range to 84.8
- 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...
- 10076 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 6857 filled
- 181 bright non-wm voxels segmented.
- 4968 diagonally connected voxels added...
- white matter segmentation took 1.5 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 0.64 minutes
- reading wm segmentation from wm.seg.mgz...
- 596 voxels added to wm to prevent paths from MTL structures to cortex
- 2878 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 42325 voxels turned on, 33239 voxels turned off.
- propagating editing to output volume from wm.seg.mgz
- 115,126,128 old 88 new 88
- 115,126,128 old 88 new 88
- writing edited volume to wm.asegedit.mgz....
- mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz
- Iteration Number : 1
- pass 1 (xy+): 28 found - 28 modified | TOTAL: 28
- pass 2 (xy+): 0 found - 28 modified | TOTAL: 28
- pass 1 (xy-): 31 found - 31 modified | TOTAL: 59
- pass 2 (xy-): 0 found - 31 modified | TOTAL: 59
- pass 1 (yz+): 26 found - 26 modified | TOTAL: 85
- pass 2 (yz+): 0 found - 26 modified | TOTAL: 85
- pass 1 (yz-): 49 found - 49 modified | TOTAL: 134
- pass 2 (yz-): 0 found - 49 modified | TOTAL: 134
- pass 1 (xz+): 21 found - 21 modified | TOTAL: 155
- pass 2 (xz+): 0 found - 21 modified | TOTAL: 155
- pass 1 (xz-): 22 found - 22 modified | TOTAL: 177
- pass 2 (xz-): 0 found - 22 modified | TOTAL: 177
- Iteration Number : 1
- pass 1 (+++): 24 found - 24 modified | TOTAL: 24
- pass 2 (+++): 0 found - 24 modified | TOTAL: 24
- pass 1 (+++): 24 found - 24 modified | TOTAL: 48
- pass 2 (+++): 0 found - 24 modified | TOTAL: 48
- pass 1 (+++): 14 found - 14 modified | TOTAL: 62
- pass 2 (+++): 0 found - 14 modified | TOTAL: 62
- pass 1 (+++): 28 found - 28 modified | TOTAL: 90
- pass 2 (+++): 0 found - 28 modified | TOTAL: 90
- Iteration Number : 1
- pass 1 (++): 215 found - 215 modified | TOTAL: 215
- pass 2 (++): 0 found - 215 modified | TOTAL: 215
- pass 1 (+-): 204 found - 204 modified | TOTAL: 419
- pass 2 (+-): 0 found - 204 modified | TOTAL: 419
- pass 1 (--): 138 found - 138 modified | TOTAL: 557
- pass 2 (--): 0 found - 138 modified | TOTAL: 557
- pass 1 (-+): 227 found - 227 modified | TOTAL: 784
- pass 2 (-+): 0 found - 227 modified | TOTAL: 784
- Iteration Number : 2
- pass 1 (xy+): 5 found - 5 modified | TOTAL: 5
- pass 2 (xy+): 0 found - 5 modified | TOTAL: 5
- pass 1 (xy-): 8 found - 8 modified | TOTAL: 13
- pass 2 (xy-): 0 found - 8 modified | TOTAL: 13
- pass 1 (yz+): 12 found - 12 modified | TOTAL: 25
- pass 2 (yz+): 0 found - 12 modified | TOTAL: 25
- pass 1 (yz-): 8 found - 8 modified | TOTAL: 33
- pass 2 (yz-): 0 found - 8 modified | TOTAL: 33
- pass 1 (xz+): 3 found - 3 modified | TOTAL: 36
- pass 2 (xz+): 0 found - 3 modified | TOTAL: 36
- pass 1 (xz-): 8 found - 8 modified | TOTAL: 44
- pass 2 (xz-): 0 found - 8 modified | TOTAL: 44
- Iteration Number : 2
- pass 1 (+++): 1 found - 1 modified | TOTAL: 1
- pass 2 (+++): 0 found - 1 modified | TOTAL: 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 1
- pass 1 (+++): 2 found - 2 modified | TOTAL: 3
- pass 2 (+++): 0 found - 2 modified | TOTAL: 3
- pass 1 (+++): 0 found - 0 modified | TOTAL: 3
- Iteration Number : 2
- pass 1 (++): 5 found - 5 modified | TOTAL: 5
- pass 2 (++): 0 found - 5 modified | TOTAL: 5
- pass 1 (+-): 2 found - 2 modified | TOTAL: 7
- pass 2 (+-): 0 found - 2 modified | TOTAL: 7
- pass 1 (--): 1 found - 1 modified | TOTAL: 8
- pass 2 (--): 0 found - 1 modified | TOTAL: 8
- pass 1 (-+): 1 found - 1 modified | TOTAL: 9
- pass 2 (-+): 0 found - 1 modified | TOTAL: 9
- Iteration Number : 3
- pass 1 (xy+): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy+): 0 found - 1 modified | TOTAL: 1
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 1
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 1
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 3
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 3
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 4
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 4
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 4
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 1108 (out of 516065: 0.214702)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Sun Oct 8 01:21:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04962 1.09636 0.10534 -25.88426;
- -0.06651 -0.13857 1.04446 11.01706;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 1.03301 0.04590 0.06002 -15.40875;
- -0.04962 1.09636 0.10534 -25.88426;
- -0.06651 -0.13857 1.04446 11.01706;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 1132 (min = 350, max = 1400), aspect = 0.49 (min = 0.10, max = 0.75)
- no need to search
- using seed (127, 116, 146), TAL = (1.0, 18.0, 12.0)
- talairach voxel to voxel transform
- 0.96255 -0.04669 -0.05060 14.18058;
- 0.03720 0.89882 -0.09279 24.86091;
- 0.06623 0.11627 0.94190 -6.34668;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (127, 116, 146) --> (1.0, 18.0, 12.0)
- done.
- writing output to filled.mgz...
- filling took 0.7 minutes
- talairach cc position changed to (1.00, 18.00, 12.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(19.00, 18.00, 12.00) SRC: (106.29, 119.63, 151.88)
- search lh wm seed point around talairach space (-17.00, 18.00, 12.00), SRC: (140.95, 120.97, 154.26)
- compute mri_fill using aseg
- Erasing Brain Stem and Cerebellum ...
- Define left and right masks using aseg:
- Building Voronoi diagram ...
- Using the Voronoi diagram to separate WM into two hemispheres ...
- Find the largest connected component for each hemisphere ...
- #--------------------------------------------
- #@# Tessellate lh Sun Oct 8 01:22:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-): 2 found - 2 modified | TOTAL: 2
- pass 2 (xy-): 0 found - 2 modified | TOTAL: 2
- pass 1 (yz+): 1 found - 1 modified | TOTAL: 3
- pass 2 (yz+): 0 found - 1 modified | TOTAL: 3
- pass 1 (yz-): 1 found - 1 modified | TOTAL: 4
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 4
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 4
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 4
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 1 found - 1 modified | TOTAL: 1
- pass 2 (++): 0 found - 1 modified | TOTAL: 1
- pass 1 (+-): 1 found - 1 modified | TOTAL: 2
- pass 2 (+-): 0 found - 1 modified | TOTAL: 2
- pass 1 (--): 0 found - 0 modified | TOTAL: 2
- pass 1 (-+): 0 found - 0 modified | TOTAL: 2
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 6 (out of 245431: 0.002445)
- Ambiguous edge configurations...
- mri_pretess done
- mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix
- $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- slice 50: 1348 vertices, 1513 faces
- slice 60: 8027 vertices, 8356 faces
- slice 70: 18671 vertices, 19032 faces
- slice 80: 29822 vertices, 30228 faces
- slice 90: 42357 vertices, 42846 faces
- slice 100: 54745 vertices, 55239 faces
- slice 110: 68182 vertices, 68694 faces
- slice 120: 80694 vertices, 81202 faces
- slice 130: 92838 vertices, 93340 faces
- slice 140: 105134 vertices, 105660 faces
- slice 150: 115864 vertices, 116372 faces
- slice 160: 125575 vertices, 126071 faces
- slice 170: 133684 vertices, 134132 faces
- slice 180: 140407 vertices, 140858 faces
- slice 190: 145732 vertices, 146108 faces
- slice 200: 148817 vertices, 149094 faces
- slice 210: 149164 vertices, 149390 faces
- slice 220: 149164 vertices, 149390 faces
- slice 230: 149164 vertices, 149390 faces
- slice 240: 149164 vertices, 149390 faces
- slice 250: 149164 vertices, 149390 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...
- 149164 voxel in cpt #1: X=-226 [v=149164,e=448170,f=298780] located at (-25.528404, -11.970348, 7.141743)
- For the whole surface: X=-226 [v=149164,e=448170,f=298780]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Tessellate rh Sun Oct 8 01:22:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz
- Iteration Number : 1
- pass 1 (xy+): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy+): 0 found - 1 modified | TOTAL: 1
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 1
- pass 1 (yz+): 5 found - 5 modified | TOTAL: 6
- pass 2 (yz+): 0 found - 5 modified | TOTAL: 6
- pass 1 (yz-): 1 found - 1 modified | TOTAL: 7
- pass 2 (yz-): 0 found - 1 modified | TOTAL: 7
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 7
- pass 1 (xz-): 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 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 9 (out of 250769: 0.003589)
- 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: 1567 vertices, 1699 faces
- slice 60: 8337 vertices, 8699 faces
- slice 70: 20075 vertices, 20495 faces
- slice 80: 32458 vertices, 32939 faces
- slice 90: 45376 vertices, 45868 faces
- slice 100: 58737 vertices, 59235 faces
- slice 110: 72345 vertices, 72840 faces
- slice 120: 85076 vertices, 85562 faces
- slice 130: 97356 vertices, 97811 faces
- slice 140: 109337 vertices, 109852 faces
- slice 150: 120649 vertices, 121123 faces
- slice 160: 129532 vertices, 129954 faces
- slice 170: 136978 vertices, 137380 faces
- slice 180: 143170 vertices, 143550 faces
- slice 190: 148385 vertices, 148712 faces
- slice 200: 151408 vertices, 151634 faces
- slice 210: 151604 vertices, 151772 faces
- slice 220: 151604 vertices, 151772 faces
- slice 230: 151604 vertices, 151772 faces
- slice 240: 151604 vertices, 151772 faces
- slice 250: 151604 vertices, 151772 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...
- 151604 voxel in cpt #1: X=-168 [v=151604,e=455316,f=303544] located at (30.817327, -13.710146, 9.106798)
- For the whole surface: X=-168 [v=151604,e=455316,f=303544]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Sun Oct 8 01:22:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Sun Oct 8 01:22:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 32513 of (32513 32516) to complete...
- Waiting for PID 32516 of (32513 32516) 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 (32513 32516) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Sun Oct 8 01:22:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Sun Oct 8 01:22:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 32560 of (32560 32563) to complete...
- Waiting for PID 32563 of (32560 32563) 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 = 46.4 mm, total surface area = 76534 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 0.7 minutes
-
step 000: RMS=0.171 (target=0.015)
step 005: RMS=0.134 (target=0.015)
step 010: RMS=0.104 (target=0.015)
step 015: RMS=0.092 (target=0.015)
step 020: RMS=0.084 (target=0.015)
step 025: RMS=0.076 (target=0.015)
step 030: RMS=0.069 (target=0.015)
step 035: RMS=0.064 (target=0.015)
step 040: RMS=0.061 (target=0.015)
step 045: RMS=0.059 (target=0.015)
step 050: RMS=0.058 (target=0.015)
step 055: RMS=0.058 (target=0.015)
step 060: RMS=0.056 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 44.186282
- mris_inflate stimesec 0.097985
- mris_inflate ru_maxrss 219076
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 31711
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 10504
- mris_inflate ru_oublock 10520
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2333
- mris_inflate ru_nivcsw 3375
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 46.6 mm, total surface area = 78097 mm^2
- writing inflated surface to ../surf/rh.inflated.nofix
- inflation took 0.9 minutes
-
step 000: RMS=0.170 (target=0.015)
step 005: RMS=0.131 (target=0.015)
step 010: RMS=0.103 (target=0.015)
step 015: RMS=0.091 (target=0.015)
step 020: RMS=0.081 (target=0.015)
step 025: RMS=0.073 (target=0.015)
step 030: RMS=0.067 (target=0.015)
step 035: RMS=0.064 (target=0.015)
step 040: RMS=0.061 (target=0.015)
step 045: RMS=0.059 (target=0.015)
step 050: RMS=0.056 (target=0.015)
step 055: RMS=0.056 (target=0.015)
step 060: RMS=0.056 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 55.628543
- mris_inflate stimesec 0.133979
- mris_inflate ru_maxrss 221976
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 31924
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 10672
- mris_inflate ru_oublock 10688
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2173
- mris_inflate ru_nivcsw 3249
- PIDs (32560 32563) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Sun Oct 8 01:23:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Sun Oct 8 01:23:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 32628 of (32628 32631) to complete...
- Waiting for PID 32631 of (32628 32631) 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 0.95 +- 0.59 (0.00-->8.50) (max @ vno 62399 --> 63688)
- face area 0.03 +- 0.03 (-0.35-->0.63)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.314...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=176.111, avgs=0
- 005/300: dt: 0.9000, rms radial error=175.852, avgs=0
- 010/300: dt: 0.9000, rms radial error=175.298, avgs=0
- 015/300: dt: 0.9000, rms radial error=174.570, avgs=0
- 020/300: dt: 0.9000, rms radial error=173.742, avgs=0
- 025/300: dt: 0.9000, rms radial error=172.856, avgs=0
- 030/300: dt: 0.9000, rms radial error=171.938, avgs=0
- 035/300: dt: 0.9000, rms radial error=171.006, avgs=0
- 040/300: dt: 0.9000, rms radial error=170.067, avgs=0
- 045/300: dt: 0.9000, rms radial error=169.125, avgs=0
- 050/300: dt: 0.9000, rms radial error=168.184, avgs=0
- 055/300: dt: 0.9000, rms radial error=167.246, avgs=0
- 060/300: dt: 0.9000, rms radial error=166.311, avgs=0
- 065/300: dt: 0.9000, rms radial error=165.380, avgs=0
- 070/300: dt: 0.9000, rms radial error=164.453, avgs=0
- 075/300: dt: 0.9000, rms radial error=163.531, avgs=0
- 080/300: dt: 0.9000, rms radial error=162.614, avgs=0
- 085/300: dt: 0.9000, rms radial error=161.702, avgs=0
- 090/300: dt: 0.9000, rms radial error=160.795, avgs=0
- 095/300: dt: 0.9000, rms radial error=159.894, avgs=0
- 100/300: dt: 0.9000, rms radial error=158.999, avgs=0
- 105/300: dt: 0.9000, rms radial error=158.109, avgs=0
- 110/300: dt: 0.9000, rms radial error=157.223, avgs=0
- 115/300: dt: 0.9000, rms radial error=156.341, avgs=0
- 120/300: dt: 0.9000, rms radial error=155.465, avgs=0
- 125/300: dt: 0.9000, rms radial error=154.593, avgs=0
- 130/300: dt: 0.9000, rms radial error=153.726, avgs=0
- 135/300: dt: 0.9000, rms radial error=152.863, avgs=0
- 140/300: dt: 0.9000, rms radial error=152.005, avgs=0
- 145/300: dt: 0.9000, rms radial error=151.152, avgs=0
- 150/300: dt: 0.9000, rms radial error=150.303, avgs=0
- 155/300: dt: 0.9000, rms radial error=149.459, avgs=0
- 160/300: dt: 0.9000, rms radial error=148.620, avgs=0
- 165/300: dt: 0.9000, rms radial error=147.785, avgs=0
- 170/300: dt: 0.9000, rms radial error=146.955, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.129, avgs=0
- 180/300: dt: 0.9000, rms radial error=145.308, avgs=0
- 185/300: dt: 0.9000, rms radial error=144.491, avgs=0
- 190/300: dt: 0.9000, rms radial error=143.679, avgs=0
- 195/300: dt: 0.9000, rms radial error=142.871, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.067, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.269, avgs=0
- 210/300: dt: 0.9000, rms radial error=140.474, avgs=0
- 215/300: dt: 0.9000, rms radial error=139.684, avgs=0
- 220/300: dt: 0.9000, rms radial error=138.899, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.117, avgs=0
- 230/300: dt: 0.9000, rms radial error=137.340, avgs=0
- 235/300: dt: 0.9000, rms radial error=136.568, avgs=0
- 240/300: dt: 0.9000, rms radial error=135.799, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.035, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.275, avgs=0
- 255/300: dt: 0.9000, rms radial error=133.519, avgs=0
- 260/300: dt: 0.9000, rms radial error=132.768, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.020, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.277, avgs=0
- 275/300: dt: 0.9000, rms radial error=130.537, avgs=0
- 280/300: dt: 0.9000, rms radial error=129.802, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.071, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.343, avgs=0
- 295/300: dt: 0.9000, rms radial error=127.620, avgs=0
- 300/300: dt: 0.9000, rms radial error=126.901, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 17536.54
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00012
- epoch 2 (K=40.0), pass 1, starting sse = 2996.57
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00013
- epoch 3 (K=160.0), pass 1, starting sse = 335.60
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.04/10 = 0.00421
- epoch 4 (K=640.0), pass 1, starting sse = 30.85
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.04/10 = 0.00395
- final distance error %27.37
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.08 hours
- mris_sphere utimesec 307.220295
- mris_sphere stimesec 0.194970
- mris_sphere ru_maxrss 219292
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 31763
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10544
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 7730
- mris_sphere ru_nivcsw 18912
- FSRUNTIME@ mris_sphere 0.0812 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 0.94 +- 0.61 (0.00-->7.56) (max @ vno 110085 --> 110086)
- face area 0.03 +- 0.04 (-0.38-->0.70)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.314...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=175.866, avgs=0
- 005/300: dt: 0.9000, rms radial error=175.607, avgs=0
- 010/300: dt: 0.9000, rms radial error=175.052, avgs=0
- 015/300: dt: 0.9000, rms radial error=174.324, avgs=0
- 020/300: dt: 0.9000, rms radial error=173.498, avgs=0
- 025/300: dt: 0.9000, rms radial error=172.617, avgs=0
- 030/300: dt: 0.9000, rms radial error=171.704, avgs=0
- 035/300: dt: 0.9000, rms radial error=170.775, avgs=0
- 040/300: dt: 0.9000, rms radial error=169.838, avgs=0
- 045/300: dt: 0.9000, rms radial error=168.899, avgs=0
- 050/300: dt: 0.9000, rms radial error=167.961, avgs=0
- 055/300: dt: 0.9000, rms radial error=167.024, avgs=0
- 060/300: dt: 0.9000, rms radial error=166.092, avgs=0
- 065/300: dt: 0.9000, rms radial error=165.165, avgs=0
- 070/300: dt: 0.9000, rms radial error=164.242, avgs=0
- 075/300: dt: 0.9000, rms radial error=163.322, avgs=0
- 080/300: dt: 0.9000, rms radial error=162.408, avgs=0
- 085/300: dt: 0.9000, rms radial error=161.503, avgs=0
- 090/300: dt: 0.9000, rms radial error=160.598, avgs=0
- 095/300: dt: 0.9000, rms radial error=159.707, avgs=0
- 100/300: dt: 0.9000, rms radial error=158.814, avgs=0
- 105/300: dt: 0.9000, rms radial error=157.933, avgs=0
- 110/300: dt: 0.9000, rms radial error=157.051, avgs=0
- 115/300: dt: 0.9000, rms radial error=156.174, avgs=0
- 120/300: dt: 0.9000, rms radial error=155.301, avgs=0
- 125/300: dt: 0.9000, rms radial error=154.433, avgs=0
- 130/300: dt: 0.9000, rms radial error=153.569, avgs=0
- 135/300: dt: 0.9000, rms radial error=152.710, avgs=0
- 140/300: dt: 0.9000, rms radial error=151.856, avgs=0
- 145/300: dt: 0.9000, rms radial error=151.005, avgs=0
- 150/300: dt: 0.9000, rms radial error=150.160, avgs=0
- 155/300: dt: 0.9000, rms radial error=149.319, avgs=0
- 160/300: dt: 0.9000, rms radial error=148.482, avgs=0
- 165/300: dt: 0.9000, rms radial error=147.651, avgs=0
- 170/300: dt: 0.9000, rms radial error=146.823, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.000, avgs=0
- 180/300: dt: 0.9000, rms radial error=145.181, avgs=0
- 185/300: dt: 0.9000, rms radial error=144.367, avgs=0
- 190/300: dt: 0.9000, rms radial error=143.557, avgs=0
- 195/300: dt: 0.9000, rms radial error=142.752, avgs=0
- 200/300: dt: 0.9000, rms radial error=141.950, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.154, avgs=0
- 210/300: dt: 0.9000, rms radial error=140.362, avgs=0
- 215/300: dt: 0.9000, rms radial error=139.574, avgs=0
- 220/300: dt: 0.9000, rms radial error=138.791, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.012, avgs=0
- 230/300: dt: 0.9000, rms radial error=137.236, avgs=0
- 235/300: dt: 0.9000, rms radial error=136.465, avgs=0
- 240/300: dt: 0.9000, rms radial error=135.699, avgs=0
- 245/300: dt: 0.9000, rms radial error=134.937, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.179, avgs=0
- 255/300: dt: 0.9000, rms radial error=133.424, avgs=0
- 260/300: dt: 0.9000, rms radial error=132.675, avgs=0
- 265/300: dt: 0.9000, rms radial error=131.928, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.188, avgs=0
- 275/300: dt: 0.9000, rms radial error=130.450, avgs=0
- 280/300: dt: 0.9000, rms radial error=129.718, avgs=0
- 285/300: dt: 0.9000, rms radial error=128.991, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.266, avgs=0
- 295/300: dt: 0.9000, rms radial error=127.545, avgs=0
- 300/300: dt: 0.9000, rms radial error=126.830, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 17836.40
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00008
- epoch 2 (K=40.0), pass 1, starting sse = 3067.34
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00001
- epoch 3 (K=160.0), pass 1, starting sse = 333.21
- 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 = 29.68
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.07/12 = 0.00592
- final distance error %27.70
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.07 hours
- mris_sphere utimesec 267.069399
- mris_sphere stimesec 0.212967
- mris_sphere ru_maxrss 222184
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 31974
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10712
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 8789
- mris_sphere ru_nivcsw 19507
- FSRUNTIME@ mris_sphere 0.0742 hours 1 threads
- PIDs (32628 32631) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Sun Oct 8 01:28:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Sun Oct 8 01:28:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Sun Oct 8 01:28:08 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051201 lh
- #@# Fix Topology rh Sun Oct 8 01:28:08 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051201 rh
- Waiting for PID 682 of (682 685) to complete...
- Waiting for PID 685 of (682 685) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051201 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=-226 (nv=149164, nf=298780, ne=448170, g=114)
- 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...
- 12070 ambiguous faces found in tessellation
- segmenting defects...
- 107 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 63 into 64
- -merging segment 79 into 65
- -merging segment 78 into 73
- -merging segment 77 into 74
- -merging segment 95 into 92
- -merging segment 100 into 99
- 101 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.7473 (-4.8736)
- -vertex loglikelihood: -6.7933 (-3.3967)
- -normal dot loglikelihood: -3.5330 (-3.5330)
- -quad curv loglikelihood: -6.2779 (-3.1389)
- Total Loglikelihood : -26.3515
- CORRECTING DEFECT 0 (vertices=152, convex hull=153, v0=497)
- After retessellation of defect 0 (v0=497), euler #=-102 (141580,421034,279352) : difference with theory (-98) = 4
- CORRECTING DEFECT 1 (vertices=31, convex hull=69, v0=642)
- After retessellation of defect 1 (v0=642), euler #=-101 (141600,421122,279421) : difference with theory (-97) = 4
- CORRECTING DEFECT 2 (vertices=27, convex hull=69, v0=1070)
- After retessellation of defect 2 (v0=1070), euler #=-100 (141612,421184,279472) : difference with theory (-96) = 4
- CORRECTING DEFECT 3 (vertices=24, convex hull=32, v0=2250)
- After retessellation of defect 3 (v0=2250), euler #=-99 (141614,421197,279484) : difference with theory (-95) = 4
- CORRECTING DEFECT 4 (vertices=48, convex hull=87, v0=4268)
- After retessellation of defect 4 (v0=4268), euler #=-98 (141639,421310,279573) : difference with theory (-94) = 4
- CORRECTING DEFECT 5 (vertices=39, convex hull=70, v0=4838)
- After retessellation of defect 5 (v0=4838), euler #=-97 (141652,421382,279633) : difference with theory (-93) = 4
- CORRECTING DEFECT 6 (vertices=93, convex hull=104, v0=6646)
- After retessellation of defect 6 (v0=6646), euler #=-96 (141677,421502,279729) : difference with theory (-92) = 4
- CORRECTING DEFECT 7 (vertices=37, convex hull=89, v0=11723)
- After retessellation of defect 7 (v0=11723), euler #=-95 (141694,421586,279797) : difference with theory (-91) = 4
- CORRECTING DEFECT 8 (vertices=117, convex hull=104, v0=12367)
- After retessellation of defect 8 (v0=12367), euler #=-94 (141733,421749,279922) : difference with theory (-90) = 4
- CORRECTING DEFECT 9 (vertices=44, convex hull=66, v0=12976)
- After retessellation of defect 9 (v0=12976), euler #=-93 (141746,421815,279976) : difference with theory (-89) = 4
- CORRECTING DEFECT 10 (vertices=70, convex hull=100, v0=13071)
- After retessellation of defect 10 (v0=13071), euler #=-92 (141787,421978,280099) : difference with theory (-88) = 4
- CORRECTING DEFECT 11 (vertices=29, convex hull=60, v0=13140)
- After retessellation of defect 11 (v0=13140), euler #=-91 (141801,422040,280148) : difference with theory (-87) = 4
- CORRECTING DEFECT 12 (vertices=104, convex hull=112, v0=20763)
- After retessellation of defect 12 (v0=20763), euler #=-90 (141852,422244,280302) : difference with theory (-86) = 4
- CORRECTING DEFECT 13 (vertices=13, convex hull=30, v0=21279)
- After retessellation of defect 13 (v0=21279), euler #=-89 (141853,422258,280316) : difference with theory (-85) = 4
- CORRECTING DEFECT 14 (vertices=52, convex hull=101, v0=21407)
- After retessellation of defect 14 (v0=21407), euler #=-88 (141887,422399,280424) : difference with theory (-84) = 4
- CORRECTING DEFECT 15 (vertices=49, convex hull=26, v0=25811)
- After retessellation of defect 15 (v0=25811), euler #=-87 (141891,422423,280445) : difference with theory (-83) = 4
- CORRECTING DEFECT 16 (vertices=64, convex hull=55, v0=27083)
- After retessellation of defect 16 (v0=27083), euler #=-87 (141909,422506,280510) : difference with theory (-82) = 5
- CORRECTING DEFECT 17 (vertices=20, convex hull=33, v0=29540)
- After retessellation of defect 17 (v0=29540), euler #=-86 (141915,422536,280535) : difference with theory (-81) = 5
- CORRECTING DEFECT 18 (vertices=113, convex hull=110, v0=30075)
- After retessellation of defect 18 (v0=30075), euler #=-85 (141960,422717,280672) : difference with theory (-80) = 5
- CORRECTING DEFECT 19 (vertices=99, convex hull=112, v0=30889)
- After retessellation of defect 19 (v0=30889), euler #=-84 (141976,422820,280760) : difference with theory (-79) = 5
- CORRECTING DEFECT 20 (vertices=49, convex hull=90, v0=31297)
- After retessellation of defect 20 (v0=31297), euler #=-83 (142006,422950,280861) : difference with theory (-78) = 5
- CORRECTING DEFECT 21 (vertices=64, convex hull=108, v0=31828)
- After retessellation of defect 21 (v0=31828), euler #=-82 (142040,423098,280976) : difference with theory (-77) = 5
- CORRECTING DEFECT 22 (vertices=63, convex hull=104, v0=34852)
- After retessellation of defect 22 (v0=34852), euler #=-81 (142079,423258,281098) : difference with theory (-76) = 5
- CORRECTING DEFECT 23 (vertices=30, convex hull=80, v0=35483)
- After retessellation of defect 23 (v0=35483), euler #=-80 (142095,423336,281161) : difference with theory (-75) = 5
- CORRECTING DEFECT 24 (vertices=43, convex hull=79, v0=36444)
- After retessellation of defect 24 (v0=36444), euler #=-79 (142109,423408,281220) : difference with theory (-74) = 5
- CORRECTING DEFECT 25 (vertices=38, convex hull=87, v0=37944)
- After retessellation of defect 25 (v0=37944), euler #=-78 (142133,423515,281304) : difference with theory (-73) = 5
- CORRECTING DEFECT 26 (vertices=29, convex hull=68, v0=42340)
- After retessellation of defect 26 (v0=42340), euler #=-77 (142142,423568,281349) : difference with theory (-72) = 5
- CORRECTING DEFECT 27 (vertices=56, convex hull=106, v0=44401)
- After retessellation of defect 27 (v0=44401), euler #=-76 (142183,423739,281480) : difference with theory (-71) = 5
- CORRECTING DEFECT 28 (vertices=34, convex hull=59, v0=46336)
- After retessellation of defect 28 (v0=46336), euler #=-75 (142204,423822,281543) : difference with theory (-70) = 5
- CORRECTING DEFECT 29 (vertices=48, convex hull=100, v0=47494)
- After retessellation of defect 29 (v0=47494), euler #=-74 (142227,423930,281629) : difference with theory (-69) = 5
- CORRECTING DEFECT 30 (vertices=31, convex hull=50, v0=47600)
- After retessellation of defect 30 (v0=47600), euler #=-73 (142236,423975,281666) : difference with theory (-68) = 5
- CORRECTING DEFECT 31 (vertices=73, convex hull=132, v0=49499)
- After retessellation of defect 31 (v0=49499), euler #=-72 (142290,424193,281831) : difference with theory (-67) = 5
- CORRECTING DEFECT 32 (vertices=81, convex hull=124, v0=49746)
- After retessellation of defect 32 (v0=49746), euler #=-71 (142343,424409,281995) : difference with theory (-66) = 5
- CORRECTING DEFECT 33 (vertices=35, convex hull=78, v0=53442)
- After retessellation of defect 33 (v0=53442), euler #=-70 (142352,424466,282044) : difference with theory (-65) = 5
- CORRECTING DEFECT 34 (vertices=87, convex hull=113, v0=54122)
- After retessellation of defect 34 (v0=54122), euler #=-69 (142392,424643,282182) : difference with theory (-64) = 5
- CORRECTING DEFECT 35 (vertices=165, convex hull=207, v0=54354)
- After retessellation of defect 35 (v0=54354), euler #=-68 (142460,424943,282415) : difference with theory (-63) = 5
- CORRECTING DEFECT 36 (vertices=19, convex hull=36, v0=55764)
- After retessellation of defect 36 (v0=55764), euler #=-67 (142467,424975,282441) : difference with theory (-62) = 5
- CORRECTING DEFECT 37 (vertices=21, convex hull=25, v0=55922)
- After retessellation of defect 37 (v0=55922), euler #=-66 (142472,424997,282459) : difference with theory (-61) = 5
- CORRECTING DEFECT 38 (vertices=14, convex hull=35, v0=59051)
- After retessellation of defect 38 (v0=59051), euler #=-65 (142474,425014,282475) : difference with theory (-60) = 5
- CORRECTING DEFECT 39 (vertices=13, convex hull=22, v0=59965)
- After retessellation of defect 39 (v0=59965), euler #=-64 (142476,425026,282486) : difference with theory (-59) = 5
- CORRECTING DEFECT 40 (vertices=68, convex hull=74, v0=62194)
- After retessellation of defect 40 (v0=62194), euler #=-63 (142504,425143,282576) : difference with theory (-58) = 5
- CORRECTING DEFECT 41 (vertices=31, convex hull=69, v0=63220)
- After retessellation of defect 41 (v0=63220), euler #=-62 (142525,425232,282645) : difference with theory (-57) = 5
- CORRECTING DEFECT 42 (vertices=35, convex hull=81, v0=66310)
- After retessellation of defect 42 (v0=66310), euler #=-61 (142541,425319,282717) : difference with theory (-56) = 5
- CORRECTING DEFECT 43 (vertices=33, convex hull=32, v0=66505)
- After retessellation of defect 43 (v0=66505), euler #=-60 (142547,425351,282744) : difference with theory (-55) = 5
- CORRECTING DEFECT 44 (vertices=33, convex hull=60, v0=67224)
- After retessellation of defect 44 (v0=67224), euler #=-59 (142559,425412,282794) : difference with theory (-54) = 5
- CORRECTING DEFECT 45 (vertices=68, convex hull=78, v0=71882)
- After retessellation of defect 45 (v0=71882), euler #=-58 (142592,425546,282896) : difference with theory (-53) = 5
- CORRECTING DEFECT 46 (vertices=11, convex hull=20, v0=74424)
- After retessellation of defect 46 (v0=74424), euler #=-57 (142594,425557,282906) : difference with theory (-52) = 5
- CORRECTING DEFECT 47 (vertices=21, convex hull=37, v0=78061)
- After retessellation of defect 47 (v0=78061), euler #=-56 (142604,425601,282941) : difference with theory (-51) = 5
- CORRECTING DEFECT 48 (vertices=43, convex hull=73, v0=79114)
- After retessellation of defect 48 (v0=79114), euler #=-55 (142619,425679,283005) : difference with theory (-50) = 5
- CORRECTING DEFECT 49 (vertices=93, convex hull=53, v0=79364)
- After retessellation of defect 49 (v0=79364), euler #=-54 (142633,425748,283061) : difference with theory (-49) = 5
- CORRECTING DEFECT 50 (vertices=67, convex hull=108, v0=81443)
- After retessellation of defect 50 (v0=81443), euler #=-53 (142670,425908,283185) : difference with theory (-48) = 5
- CORRECTING DEFECT 51 (vertices=85, convex hull=97, v0=86363)
- After retessellation of defect 51 (v0=86363), euler #=-52 (142693,426024,283279) : difference with theory (-47) = 5
- CORRECTING DEFECT 52 (vertices=56, convex hull=98, v0=87064)
- After retessellation of defect 52 (v0=87064), euler #=-51 (142729,426176,283396) : difference with theory (-46) = 5
- CORRECTING DEFECT 53 (vertices=122, convex hull=116, v0=87639)
- After retessellation of defect 53 (v0=87639), euler #=-50 (142760,426318,283508) : difference with theory (-45) = 5
- CORRECTING DEFECT 54 (vertices=25, convex hull=57, v0=88008)
- After retessellation of defect 54 (v0=88008), euler #=-49 (142773,426379,283557) : difference with theory (-44) = 5
- CORRECTING DEFECT 55 (vertices=44, convex hull=64, v0=91468)
- After retessellation of defect 55 (v0=91468), euler #=-48 (142798,426480,283634) : difference with theory (-43) = 5
- CORRECTING DEFECT 56 (vertices=29, convex hull=57, v0=94531)
- After retessellation of defect 56 (v0=94531), euler #=-47 (142817,426555,283691) : difference with theory (-42) = 5
- CORRECTING DEFECT 57 (vertices=30, convex hull=35, v0=94960)
- After retessellation of defect 57 (v0=94960), euler #=-46 (142819,426575,283710) : difference with theory (-41) = 5
- CORRECTING DEFECT 58 (vertices=158, convex hull=101, v0=95032)
- After retessellation of defect 58 (v0=95032), euler #=-45 (142862,426746,283839) : difference with theory (-40) = 5
- CORRECTING DEFECT 59 (vertices=112, convex hull=119, v0=95923)
- After retessellation of defect 59 (v0=95923), euler #=-44 (142911,426945,283990) : difference with theory (-39) = 5
- CORRECTING DEFECT 60 (vertices=24, convex hull=60, v0=96231)
- After retessellation of defect 60 (v0=96231), euler #=-43 (142924,427010,284043) : difference with theory (-38) = 5
- CORRECTING DEFECT 61 (vertices=22, convex hull=63, v0=96335)
- After retessellation of defect 61 (v0=96335), euler #=-42 (142938,427074,284094) : difference with theory (-37) = 5
- CORRECTING DEFECT 62 (vertices=52, convex hull=87, v0=96997)
- After retessellation of defect 62 (v0=96997), euler #=-41 (142954,427161,284166) : difference with theory (-36) = 5
- CORRECTING DEFECT 63 (vertices=191, convex hull=221, v0=99600)
- After retessellation of defect 63 (v0=99600), euler #=-39 (142987,427360,284334) : difference with theory (-35) = 4
- CORRECTING DEFECT 64 (vertices=517, convex hull=292, v0=101318)
- After retessellation of defect 64 (v0=101318), euler #=-37 (143074,427777,284666) : difference with theory (-34) = 3
- CORRECTING DEFECT 65 (vertices=61, convex hull=86, v0=101549)
- After retessellation of defect 65 (v0=101549), euler #=-36 (143106,427909,284767) : difference with theory (-33) = 3
- CORRECTING DEFECT 66 (vertices=53, convex hull=109, v0=103134)
- After retessellation of defect 66 (v0=103134), euler #=-35 (143141,428063,284887) : difference with theory (-32) = 3
- CORRECTING DEFECT 67 (vertices=155, convex hull=69, v0=105970)
- After retessellation of defect 67 (v0=105970), euler #=-34 (143147,428114,284933) : difference with theory (-31) = 3
- CORRECTING DEFECT 68 (vertices=38, convex hull=45, v0=107104)
- After retessellation of defect 68 (v0=107104), euler #=-33 (143164,428182,284985) : difference with theory (-30) = 3
- CORRECTING DEFECT 69 (vertices=294, convex hull=180, v0=108028)
- After retessellation of defect 69 (v0=108028), euler #=-33 (143245,428524,285246) : difference with theory (-29) = 4
- CORRECTING DEFECT 70 (vertices=8, convex hull=22, v0=108208)
- After retessellation of defect 70 (v0=108208), euler #=-32 (143245,428531,285254) : difference with theory (-28) = 4
- CORRECTING DEFECT 71 (vertices=32, convex hull=68, v0=108757)
- After retessellation of defect 71 (v0=108757), euler #=-31 (143263,428612,285318) : difference with theory (-27) = 4
- CORRECTING DEFECT 72 (vertices=75, convex hull=158, v0=110659)
- After retessellation of defect 72 (v0=110659), euler #=-29 (143313,428834,285492) : difference with theory (-26) = 3
- CORRECTING DEFECT 73 (vertices=120, convex hull=142, v0=113444)
- After retessellation of defect 73 (v0=113444), euler #=-27 (143342,428987,285618) : difference with theory (-25) = 2
- CORRECTING DEFECT 74 (vertices=22, convex hull=46, v0=113446)
- After retessellation of defect 74 (v0=113446), euler #=-26 (143353,429041,285662) : difference with theory (-24) = 2
- CORRECTING DEFECT 75 (vertices=215, convex hull=231, v0=113527)
- After retessellation of defect 75 (v0=113527), euler #=-25 (143441,429415,285949) : difference with theory (-23) = 2
- CORRECTING DEFECT 76 (vertices=19, convex hull=19, v0=116120)
- After retessellation of defect 76 (v0=116120), euler #=-24 (143442,429423,285957) : difference with theory (-22) = 2
- CORRECTING DEFECT 77 (vertices=722, convex hull=369, v0=116713)
- After retessellation of defect 77 (v0=116713), euler #=-23 (143600,430096,286473) : difference with theory (-21) = 2
- CORRECTING DEFECT 78 (vertices=47, convex hull=51, v0=116809)
- After retessellation of defect 78 (v0=116809), euler #=-22 (143614,430160,286524) : difference with theory (-20) = 2
- CORRECTING DEFECT 79 (vertices=15, convex hull=22, v0=118480)
- After retessellation of defect 79 (v0=118480), euler #=-21 (143617,430174,286536) : difference with theory (-19) = 2
- CORRECTING DEFECT 80 (vertices=59, convex hull=69, v0=119566)
- After retessellation of defect 80 (v0=119566), euler #=-20 (143653,430314,286641) : difference with theory (-18) = 2
- CORRECTING DEFECT 81 (vertices=40, convex hull=36, v0=120788)
- After retessellation of defect 81 (v0=120788), euler #=-19 (143662,430353,286672) : difference with theory (-17) = 2
- CORRECTING DEFECT 82 (vertices=81, convex hull=77, v0=123639)
- After retessellation of defect 82 (v0=123639), euler #=-18 (143677,430431,286736) : difference with theory (-16) = 2
- CORRECTING DEFECT 83 (vertices=91, convex hull=77, v0=124505)
- After retessellation of defect 83 (v0=124505), euler #=-17 (143699,430533,286817) : difference with theory (-15) = 2
- CORRECTING DEFECT 84 (vertices=32, convex hull=70, v0=124745)
- After retessellation of defect 84 (v0=124745), euler #=-16 (143716,430606,286874) : difference with theory (-14) = 2
- CORRECTING DEFECT 85 (vertices=32, convex hull=71, v0=126313)
- After retessellation of defect 85 (v0=126313), euler #=-15 (143732,430683,286936) : difference with theory (-13) = 2
- CORRECTING DEFECT 86 (vertices=53, convex hull=90, v0=132455)
- After retessellation of defect 86 (v0=132455), euler #=-14 (143762,430812,287036) : difference with theory (-12) = 2
- CORRECTING DEFECT 87 (vertices=23, convex hull=46, v0=133605)
- After retessellation of defect 87 (v0=133605), euler #=-13 (143771,430856,287072) : difference with theory (-11) = 2
- CORRECTING DEFECT 88 (vertices=112, convex hull=128, v0=136375)
- After retessellation of defect 88 (v0=136375), euler #=-11 (143803,431012,287198) : difference with theory (-10) = 1
- CORRECTING DEFECT 89 (vertices=42, convex hull=26, v0=136611)
- After retessellation of defect 89 (v0=136611), euler #=-10 (143804,431022,287208) : difference with theory (-9) = 1
- CORRECTING DEFECT 90 (vertices=133, convex hull=104, v0=136708)
- After retessellation of defect 90 (v0=136708), euler #=-9 (143845,431192,287338) : difference with theory (-8) = 1
- CORRECTING DEFECT 91 (vertices=84, convex hull=40, v0=139825)
- After retessellation of defect 91 (v0=139825), euler #=-8 (143857,431239,287374) : difference with theory (-7) = 1
- CORRECTING DEFECT 92 (vertices=23, convex hull=41, v0=141453)
- After retessellation of defect 92 (v0=141453), euler #=-7 (143860,431263,287396) : difference with theory (-6) = 1
- CORRECTING DEFECT 93 (vertices=296, convex hull=129, v0=142047)
- After retessellation of defect 93 (v0=142047), euler #=-6 (143904,431462,287552) : difference with theory (-5) = 1
- CORRECTING DEFECT 94 (vertices=58, convex hull=116, v0=142202)
- After retessellation of defect 94 (v0=142202), euler #=-4 (143929,431590,287657) : difference with theory (-4) = 0
- CORRECTING DEFECT 95 (vertices=64, convex hull=99, v0=144352)
- After retessellation of defect 95 (v0=144352), euler #=-3 (143949,431691,287739) : difference with theory (-3) = 0
- CORRECTING DEFECT 96 (vertices=29, convex hull=66, v0=147283)
- After retessellation of defect 96 (v0=147283), euler #=-2 (143958,431745,287785) : difference with theory (-2) = 0
- CORRECTING DEFECT 97 (vertices=45, convex hull=74, v0=147498)
- After retessellation of defect 97 (v0=147498), euler #=-1 (143975,431827,287851) : difference with theory (-1) = 0
- CORRECTING DEFECT 98 (vertices=34, convex hull=20, v0=147838)
- After retessellation of defect 98 (v0=147838), euler #=0 (143976,431841,287865) : difference with theory (0) = 0
- CORRECTING DEFECT 99 (vertices=158, convex hull=108, v0=148281)
- After retessellation of defect 99 (v0=148281), euler #=1 (144010,431990,287981) : difference with theory (1) = 0
- CORRECTING DEFECT 100 (vertices=71, convex hull=82, v0=148627)
- After retessellation of defect 100 (v0=148627), euler #=2 (144031,432087,288058) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.27 (0.02-->10.16) (max @ vno 102161 --> 111721)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.27 (0.02-->10.16) (max @ vno 102161 --> 111721)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 294 mutations (33.7%), 578 crossovers (66.3%), 354 vertices were eliminated
- building final representation...
- 5133 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=144031, nf=288058, ne=432087, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 59.2 minutes
- 0 defective edges
- removing intersecting faces
- 000: 690 intersecting
- 001: 28 intersecting
- 002: 7 intersecting
- mris_fix_topology utimesec 3550.057309
- mris_fix_topology stimesec 0.423935
- mris_fix_topology ru_maxrss 469944
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 56199
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 10504
- mris_fix_topology ru_oublock 14176
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 712
- mris_fix_topology ru_nivcsw 5407
- FSRUNTIME@ mris_fix_topology lh 0.9863 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051201 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=-168 (nv=151604, nf=303544, ne=455316, g=85)
- 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 7 iterations
- marking ambiguous vertices...
- 10351 ambiguous faces found in tessellation
- segmenting defects...
- 92 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 5 into 4
- -merging segment 47 into 40
- -merging segment 48 into 40
- -merging segment 63 into 40
- -merging segment 60 into 66
- 87 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.7235 (-4.8617)
- -vertex loglikelihood: -6.7454 (-3.3727)
- -normal dot loglikelihood: -3.5521 (-3.5521)
- -quad curv loglikelihood: -6.2391 (-3.1195)
- Total Loglikelihood : -26.2601
- CORRECTING DEFECT 0 (vertices=34, convex hull=66, v0=97)
- After retessellation of defect 0 (v0=97), euler #=-87 (145190,432767,287490) : difference with theory (-84) = 3
- CORRECTING DEFECT 1 (vertices=87, convex hull=85, v0=588)
- After retessellation of defect 1 (v0=588), euler #=-86 (145228,432916,287602) : difference with theory (-83) = 3
- CORRECTING DEFECT 2 (vertices=35, convex hull=63, v0=803)
- After retessellation of defect 2 (v0=803), euler #=-85 (145240,432979,287654) : difference with theory (-82) = 3
- CORRECTING DEFECT 3 (vertices=26, convex hull=54, v0=1327)
- After retessellation of defect 3 (v0=1327), euler #=-84 (145249,433024,287691) : difference with theory (-81) = 3
- CORRECTING DEFECT 4 (vertices=104, convex hull=139, v0=5511)
- After retessellation of defect 4 (v0=5511), euler #=-82 (145292,433217,287843) : difference with theory (-80) = 2
- CORRECTING DEFECT 5 (vertices=39, convex hull=62, v0=10168)
- After retessellation of defect 5 (v0=10168), euler #=-81 (145304,433279,287894) : difference with theory (-79) = 2
- CORRECTING DEFECT 6 (vertices=93, convex hull=117, v0=17163)
- After retessellation of defect 6 (v0=17163), euler #=-80 (145340,433443,288023) : difference with theory (-78) = 2
- CORRECTING DEFECT 7 (vertices=30, convex hull=28, v0=23937)
- After retessellation of defect 7 (v0=23937), euler #=-79 (145340,433453,288034) : difference with theory (-77) = 2
- CORRECTING DEFECT 8 (vertices=47, convex hull=101, v0=25572)
- After retessellation of defect 8 (v0=25572), euler #=-78 (145368,433579,288133) : difference with theory (-76) = 2
- CORRECTING DEFECT 9 (vertices=26, convex hull=67, v0=25855)
- After retessellation of defect 9 (v0=25855), euler #=-77 (145379,433636,288180) : difference with theory (-75) = 2
- CORRECTING DEFECT 10 (vertices=32, convex hull=64, v0=26807)
- After retessellation of defect 10 (v0=26807), euler #=-76 (145399,433725,288250) : difference with theory (-74) = 2
- CORRECTING DEFECT 11 (vertices=22, convex hull=49, v0=30037)
- After retessellation of defect 11 (v0=30037), euler #=-75 (145408,433768,288285) : difference with theory (-73) = 2
- CORRECTING DEFECT 12 (vertices=64, convex hull=66, v0=30746)
- After retessellation of defect 12 (v0=30746), euler #=-74 (145425,433848,288349) : difference with theory (-72) = 2
- CORRECTING DEFECT 13 (vertices=22, convex hull=23, v0=30788)
- After retessellation of defect 13 (v0=30788), euler #=-73 (145429,433866,288364) : difference with theory (-71) = 2
- CORRECTING DEFECT 14 (vertices=36, convex hull=83, v0=31303)
- After retessellation of defect 14 (v0=31303), euler #=-72 (145438,433927,288417) : difference with theory (-70) = 2
- CORRECTING DEFECT 15 (vertices=8, convex hull=34, v0=35299)
- After retessellation of defect 15 (v0=35299), euler #=-71 (145440,433944,288433) : difference with theory (-69) = 2
- CORRECTING DEFECT 16 (vertices=31, convex hull=28, v0=39228)
- After retessellation of defect 16 (v0=39228), euler #=-70 (145444,433965,288451) : difference with theory (-68) = 2
- CORRECTING DEFECT 17 (vertices=58, convex hull=87, v0=42216)
- After retessellation of defect 17 (v0=42216), euler #=-69 (145472,434089,288548) : difference with theory (-67) = 2
- CORRECTING DEFECT 18 (vertices=99, convex hull=87, v0=42595)
- After retessellation of defect 18 (v0=42595), euler #=-68 (145495,434194,288631) : difference with theory (-66) = 2
- CORRECTING DEFECT 19 (vertices=42, convex hull=66, v0=42922)
- After retessellation of defect 19 (v0=42922), euler #=-67 (145508,434261,288686) : difference with theory (-65) = 2
- CORRECTING DEFECT 20 (vertices=37, convex hull=79, v0=44659)
- After retessellation of defect 20 (v0=44659), euler #=-66 (145522,434337,288749) : difference with theory (-64) = 2
- CORRECTING DEFECT 21 (vertices=34, convex hull=61, v0=48328)
- After retessellation of defect 21 (v0=48328), euler #=-65 (145539,434414,288810) : difference with theory (-63) = 2
- CORRECTING DEFECT 22 (vertices=120, convex hull=194, v0=51915)
- After retessellation of defect 22 (v0=51915), euler #=-64 (145609,434718,289045) : difference with theory (-62) = 2
- CORRECTING DEFECT 23 (vertices=48, convex hull=107, v0=53178)
- After retessellation of defect 23 (v0=53178), euler #=-63 (145629,434828,289136) : difference with theory (-61) = 2
- CORRECTING DEFECT 24 (vertices=345, convex hull=246, v0=55656)
- After retessellation of defect 24 (v0=55656), euler #=-62 (145674,435082,289346) : difference with theory (-60) = 2
- CORRECTING DEFECT 25 (vertices=122, convex hull=127, v0=58696)
- After retessellation of defect 25 (v0=58696), euler #=-61 (145720,435278,289497) : difference with theory (-59) = 2
- CORRECTING DEFECT 26 (vertices=47, convex hull=73, v0=59424)
- After retessellation of defect 26 (v0=59424), euler #=-60 (145734,435350,289556) : difference with theory (-58) = 2
- CORRECTING DEFECT 27 (vertices=10, convex hull=28, v0=61037)
- After retessellation of defect 27 (v0=61037), euler #=-59 (145738,435373,289576) : difference with theory (-57) = 2
- CORRECTING DEFECT 28 (vertices=51, convex hull=84, v0=63792)
- After retessellation of defect 28 (v0=63792), euler #=-58 (145768,435502,289676) : difference with theory (-56) = 2
- CORRECTING DEFECT 29 (vertices=17, convex hull=48, v0=66907)
- After retessellation of defect 29 (v0=66907), euler #=-57 (145778,435547,289712) : difference with theory (-55) = 2
- CORRECTING DEFECT 30 (vertices=13, convex hull=12, v0=69206)
- After retessellation of defect 30 (v0=69206), euler #=-56 (145780,435554,289718) : difference with theory (-54) = 2
- CORRECTING DEFECT 31 (vertices=17, convex hull=31, v0=73635)
- After retessellation of defect 31 (v0=73635), euler #=-55 (145783,435574,289736) : difference with theory (-53) = 2
- CORRECTING DEFECT 32 (vertices=90, convex hull=126, v0=75017)
- After retessellation of defect 32 (v0=75017), euler #=-54 (145840,435797,289903) : difference with theory (-52) = 2
- CORRECTING DEFECT 33 (vertices=72, convex hull=75, v0=75986)
- After retessellation of defect 33 (v0=75986), euler #=-53 (145875,435936,290008) : difference with theory (-51) = 2
- CORRECTING DEFECT 34 (vertices=204, convex hull=72, v0=76964)
- After retessellation of defect 34 (v0=76964), euler #=-52 (145884,435993,290057) : difference with theory (-50) = 2
- CORRECTING DEFECT 35 (vertices=23, convex hull=43, v0=82080)
- After retessellation of defect 35 (v0=82080), euler #=-51 (145893,436033,290089) : difference with theory (-49) = 2
- CORRECTING DEFECT 36 (vertices=38, convex hull=85, v0=84894)
- After retessellation of defect 36 (v0=84894), euler #=-50 (145913,436129,290166) : difference with theory (-48) = 2
- CORRECTING DEFECT 37 (vertices=64, convex hull=88, v0=87744)
- After retessellation of defect 37 (v0=87744), euler #=-49 (145935,436240,290256) : difference with theory (-47) = 2
- CORRECTING DEFECT 38 (vertices=13, convex hull=12, v0=93766)
- After retessellation of defect 38 (v0=93766), euler #=-48 (145938,436250,290264) : difference with theory (-46) = 2
- CORRECTING DEFECT 39 (vertices=1047, convex hull=529, v0=93928)
- L defect detected...
- After retessellation of defect 39 (v0=93928), euler #=-45 (146202,437336,291089) : difference with theory (-45) = 0
- CORRECTING DEFECT 40 (vertices=7, convex hull=17, v0=94742)
- After retessellation of defect 40 (v0=94742), euler #=-44 (146204,437345,291097) : difference with theory (-44) = 0
- CORRECTING DEFECT 41 (vertices=27, convex hull=33, v0=98075)
- After retessellation of defect 41 (v0=98075), euler #=-43 (146209,437371,291119) : difference with theory (-43) = 0
- CORRECTING DEFECT 42 (vertices=66, convex hull=75, v0=98481)
- After retessellation of defect 42 (v0=98481), euler #=-42 (146247,437511,291222) : difference with theory (-42) = 0
- CORRECTING DEFECT 43 (vertices=54, convex hull=93, v0=99559)
- After retessellation of defect 43 (v0=99559), euler #=-41 (146283,437659,291335) : difference with theory (-41) = 0
- CORRECTING DEFECT 44 (vertices=6, convex hull=9, v0=100237)
- After retessellation of defect 44 (v0=100237), euler #=-40 (146284,437664,291340) : difference with theory (-40) = 0
- CORRECTING DEFECT 45 (vertices=289, convex hull=180, v0=100390)
- After retessellation of defect 45 (v0=100390), euler #=-40 (146401,438113,291672) : difference with theory (-39) = 1
- CORRECTING DEFECT 46 (vertices=19, convex hull=26, v0=104503)
- After retessellation of defect 46 (v0=104503), euler #=-39 (146405,438131,291687) : difference with theory (-38) = 1
- CORRECTING DEFECT 47 (vertices=119, convex hull=101, v0=106222)
- After retessellation of defect 47 (v0=106222), euler #=-38 (146457,438336,291841) : difference with theory (-37) = 1
- CORRECTING DEFECT 48 (vertices=6, convex hull=18, v0=106486)
- After retessellation of defect 48 (v0=106486), euler #=-37 (146459,438348,291852) : difference with theory (-36) = 1
- CORRECTING DEFECT 49 (vertices=235, convex hull=57, v0=107846)
- After retessellation of defect 49 (v0=107846), euler #=-36 (146473,438418,291909) : difference with theory (-35) = 1
- CORRECTING DEFECT 50 (vertices=53, convex hull=63, v0=108059)
- After retessellation of defect 50 (v0=108059), euler #=-35 (146495,438507,291977) : difference with theory (-34) = 1
- CORRECTING DEFECT 51 (vertices=22, convex hull=19, v0=108729)
- After retessellation of defect 51 (v0=108729), euler #=-34 (146499,438522,291989) : difference with theory (-33) = 1
- CORRECTING DEFECT 52 (vertices=38, convex hull=69, v0=108798)
- After retessellation of defect 52 (v0=108798), euler #=-33 (146508,438579,292038) : difference with theory (-32) = 1
- CORRECTING DEFECT 53 (vertices=26, convex hull=32, v0=109337)
- After retessellation of defect 53 (v0=109337), euler #=-32 (146509,438592,292051) : difference with theory (-31) = 1
- CORRECTING DEFECT 54 (vertices=14, convex hull=18, v0=110226)
- After retessellation of defect 54 (v0=110226), euler #=-31 (146512,438606,292063) : difference with theory (-30) = 1
- CORRECTING DEFECT 55 (vertices=40, convex hull=48, v0=110441)
- After retessellation of defect 55 (v0=110441), euler #=-30 (146518,438641,292093) : difference with theory (-29) = 1
- CORRECTING DEFECT 56 (vertices=20, convex hull=53, v0=111278)
- After retessellation of defect 56 (v0=111278), euler #=-29 (146529,438692,292134) : difference with theory (-28) = 1
- CORRECTING DEFECT 57 (vertices=62, convex hull=93, v0=111725)
- After retessellation of defect 57 (v0=111725), euler #=-28 (146558,438820,292234) : difference with theory (-27) = 1
- CORRECTING DEFECT 58 (vertices=150, convex hull=49, v0=112274)
- After retessellation of defect 58 (v0=112274), euler #=-27 (146568,438867,292272) : difference with theory (-26) = 1
- CORRECTING DEFECT 59 (vertices=28, convex hull=75, v0=117470)
- After retessellation of defect 59 (v0=117470), euler #=-26 (146582,438940,292332) : difference with theory (-25) = 1
- CORRECTING DEFECT 60 (vertices=57, convex hull=70, v0=120199)
- After retessellation of defect 60 (v0=120199), euler #=-25 (146600,439025,292400) : difference with theory (-24) = 1
- CORRECTING DEFECT 61 (vertices=211, convex hull=145, v0=123944)
- After retessellation of defect 61 (v0=123944), euler #=-23 (146643,439226,292560) : difference with theory (-23) = 0
- CORRECTING DEFECT 62 (vertices=27, convex hull=54, v0=125520)
- After retessellation of defect 62 (v0=125520), euler #=-22 (146652,439272,292598) : difference with theory (-22) = 0
- CORRECTING DEFECT 63 (vertices=6, convex hull=12, v0=128116)
- After retessellation of defect 63 (v0=128116), euler #=-21 (146653,439279,292605) : difference with theory (-21) = 0
- CORRECTING DEFECT 64 (vertices=42, convex hull=86, v0=129445)
- After retessellation of defect 64 (v0=129445), euler #=-20 (146676,439380,292684) : difference with theory (-20) = 0
- CORRECTING DEFECT 65 (vertices=67, convex hull=63, v0=129532)
- After retessellation of defect 65 (v0=129532), euler #=-19 (146694,439459,292746) : difference with theory (-19) = 0
- CORRECTING DEFECT 66 (vertices=35, convex hull=65, v0=130358)
- After retessellation of defect 66 (v0=130358), euler #=-18 (146714,439545,292813) : difference with theory (-18) = 0
- CORRECTING DEFECT 67 (vertices=30, convex hull=76, v0=132943)
- After retessellation of defect 67 (v0=132943), euler #=-17 (146727,439613,292869) : difference with theory (-17) = 0
- CORRECTING DEFECT 68 (vertices=85, convex hull=51, v0=133294)
- After retessellation of defect 68 (v0=133294), euler #=-16 (146736,439660,292908) : difference with theory (-16) = 0
- CORRECTING DEFECT 69 (vertices=60, convex hull=87, v0=133349)
- After retessellation of defect 69 (v0=133349), euler #=-15 (146775,439813,293023) : difference with theory (-15) = 0
- CORRECTING DEFECT 70 (vertices=102, convex hull=78, v0=135227)
- After retessellation of defect 70 (v0=135227), euler #=-14 (146801,439924,293109) : difference with theory (-14) = 0
- CORRECTING DEFECT 71 (vertices=17, convex hull=23, v0=135410)
- After retessellation of defect 71 (v0=135410), euler #=-13 (146801,439931,293117) : difference with theory (-13) = 0
- CORRECTING DEFECT 72 (vertices=123, convex hull=112, v0=135796)
- After retessellation of defect 72 (v0=135796), euler #=-12 (146837,440091,293242) : difference with theory (-12) = 0
- CORRECTING DEFECT 73 (vertices=5, convex hull=12, v0=135995)
- After retessellation of defect 73 (v0=135995), euler #=-11 (146837,440094,293246) : difference with theory (-11) = 0
- CORRECTING DEFECT 74 (vertices=46, convex hull=76, v0=136209)
- After retessellation of defect 74 (v0=136209), euler #=-10 (146864,440206,293332) : difference with theory (-10) = 0
- CORRECTING DEFECT 75 (vertices=467, convex hull=197, v0=136906)
- After retessellation of defect 75 (v0=136906), euler #=-9 (146957,440581,293615) : difference with theory (-9) = 0
- CORRECTING DEFECT 76 (vertices=23, convex hull=22, v0=138980)
- After retessellation of defect 76 (v0=138980), euler #=-8 (146957,440590,293625) : difference with theory (-8) = 0
- CORRECTING DEFECT 77 (vertices=19, convex hull=20, v0=139291)
- After retessellation of defect 77 (v0=139291), euler #=-7 (146957,440597,293633) : difference with theory (-7) = 0
- CORRECTING DEFECT 78 (vertices=13, convex hull=21, v0=142439)
- After retessellation of defect 78 (v0=142439), euler #=-6 (146958,440608,293644) : difference with theory (-6) = 0
- CORRECTING DEFECT 79 (vertices=30, convex hull=79, v0=144155)
- After retessellation of defect 79 (v0=144155), euler #=-5 (146975,440692,293712) : difference with theory (-5) = 0
- CORRECTING DEFECT 80 (vertices=14, convex hull=26, v0=144452)
- After retessellation of defect 80 (v0=144452), euler #=-4 (146975,440701,293722) : difference with theory (-4) = 0
- CORRECTING DEFECT 81 (vertices=51, convex hull=83, v0=146011)
- After retessellation of defect 81 (v0=146011), euler #=-3 (147002,440819,293814) : difference with theory (-3) = 0
- CORRECTING DEFECT 82 (vertices=33, convex hull=74, v0=147692)
- After retessellation of defect 82 (v0=147692), euler #=-2 (147012,440877,293863) : difference with theory (-2) = 0
- CORRECTING DEFECT 83 (vertices=27, convex hull=71, v0=149121)
- After retessellation of defect 83 (v0=149121), euler #=-1 (147027,440947,293919) : difference with theory (-1) = 0
- CORRECTING DEFECT 84 (vertices=108, convex hull=147, v0=149219)
- After retessellation of defect 84 (v0=149219), euler #=0 (147076,441162,294086) : difference with theory (0) = 0
- CORRECTING DEFECT 85 (vertices=62, convex hull=91, v0=150204)
- After retessellation of defect 85 (v0=150204), euler #=1 (147108,441295,294188) : difference with theory (1) = 0
- CORRECTING DEFECT 86 (vertices=24, convex hull=56, v0=150475)
- After retessellation of defect 86 (v0=150475), euler #=2 (147117,441345,294230) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.26 (0.02-->17.18) (max @ vno 104594 --> 119857)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.26 (0.02-->17.18) (max @ vno 104594 --> 119857)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 271 mutations (35.5%), 492 crossovers (64.5%), 221 vertices were eliminated
- building final representation...
- 4487 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=147117, nf=294230, ne=441345, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 52.3 minutes
- 0 defective edges
- removing intersecting faces
- 000: 566 intersecting
- 001: 5 intersecting
- mris_fix_topology utimesec 3140.645549
- mris_fix_topology stimesec 0.223965
- mris_fix_topology ru_maxrss 490480
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 55191
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 10672
- mris_fix_topology ru_oublock 14368
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 562
- mris_fix_topology ru_nivcsw 7744
- FSRUNTIME@ mris_fix_topology rh 0.8725 hours 1 threads
- PIDs (682 685) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 144031 - 432087 + 288058 = 2 --> 0 holes
- F =2V-4: 288058 = 288062-4 (0)
- 2E=3F: 864174 = 864174 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 147117 - 441345 + 294230 = 2 --> 0 holes
- F =2V-4: 294230 = 294234-4 (0)
- 2E=3F: 882690 = 882690 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 117 intersecting
- 001: 14 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 108 intersecting
- 001: 5 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Sun Oct 8 02:27:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051201 lh
- #--------------------------------------------
- #@# Make White Surf rh Sun Oct 8 02:27:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051201 rh
- Waiting for PID 4892 of (4892 4895) to complete...
- Waiting for PID 4895 of (4892 4895) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051201 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-6.0.0/0051201/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- 25573 bright wm thresholded.
- 247 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.orig...
- computing class statistics...
- border white: 261624 voxels (1.56%)
- border gray 313529 voxels (1.87%)
- WM (95.0): 95.3 +- 10.0 [70.0 --> 110.0]
- GM (62.0) : 62.2 +- 11.4 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 45.6 (was 70)
- setting MAX_BORDER_WHITE to 110.0 (was 105)
- setting MIN_BORDER_WHITE to 57.0 (was 85)
- setting MAX_CSF to 34.3 (was 40)
- setting MAX_GRAY to 90.0 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 45.6 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 22.9 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.81 +- 0.24 (0.01-->5.03) (max @ vno 117845 --> 143496)
- face area 0.27 +- 0.13 (0.00-->5.62)
- mean absolute distance = 0.64 +- 0.76
- 3417 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+-10.4, GM=57+-7.8
- mean inside = 89.4, mean outside = 66.3
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=71.3, 117 (117) missing vertices, mean dist 0.3 [0.5 (%32.9)->0.7 (%67.1))]
- %71 local maxima, %25 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.92 +- 0.27 (0.07-->5.15) (max @ vno 117845 --> 143496)
- face area 0.27 +- 0.14 (0.00-->5.08)
- mean absolute distance = 0.30 +- 0.51
- 2923 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=4909569.0, rms=12.479
- 001: dt: 0.5000, sse=2822783.5, rms=9.065 (27.355%)
- 002: dt: 0.5000, sse=1970882.9, rms=7.178 (20.814%)
- 003: dt: 0.5000, sse=1538651.1, rms=5.991 (16.549%)
- 004: dt: 0.5000, sse=1335957.8, rms=5.334 (10.957%)
- 005: dt: 0.5000, sse=1242183.6, rms=4.976 (6.710%)
- 006: dt: 0.5000, sse=1193413.5, rms=4.806 (3.412%)
- 007: dt: 0.5000, sse=1162950.9, rms=4.701 (2.191%)
- 008: dt: 0.5000, sse=1151119.1, rms=4.648 (1.131%)
- rms = 4.60, time step reduction 1 of 3 to 0.250...
- 009: dt: 0.5000, sse=1141250.8, rms=4.600 (1.035%)
- 010: dt: 0.2500, sse=856833.8, rms=3.222 (29.955%)
- 011: dt: 0.2500, sse=790580.4, rms=2.815 (12.622%)
- 012: dt: 0.2500, sse=776955.2, rms=2.728 (3.093%)
- 013: dt: 0.2500, sse=765631.4, rms=2.645 (3.061%)
- rms = 2.63, time step reduction 2 of 3 to 0.125...
- 014: dt: 0.2500, sse=763462.3, rms=2.627 (0.689%)
- 015: dt: 0.1250, sse=724663.4, rms=2.337 (11.039%)
- rms = 2.30, time step reduction 3 of 3 to 0.062...
- 016: dt: 0.1250, sse=720339.1, rms=2.302 (1.489%)
- positioning took 1.7 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=74.6, 162 (25) missing vertices, mean dist -0.1 [0.3 (%70.6)->0.3 (%29.4))]
- %78 local maxima, %17 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.91 +- 0.27 (0.09-->5.07) (max @ vno 117845 --> 143496)
- face area 0.35 +- 0.18 (0.00-->6.41)
- mean absolute distance = 0.25 +- 0.39
- 3341 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1362854.6, rms=4.784
- 017: dt: 0.5000, sse=1161703.0, rms=3.951 (17.405%)
- rms = 4.36, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=944136.4, rms=2.763 (30.076%)
- 019: dt: 0.2500, sse=883579.7, rms=2.327 (15.758%)
- 020: dt: 0.2500, sse=861398.4, rms=2.138 (8.158%)
- rms = 2.12, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=856661.7, rms=2.125 (0.608%)
- 022: dt: 0.1250, sse=831531.1, rms=1.888 (11.114%)
- rms = 1.86, time step reduction 3 of 3 to 0.062...
- 023: dt: 0.1250, sse=828650.1, rms=1.862 (1.398%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 1 vertex label from ripped group
- mean border=76.9, 178 (15) missing vertices, mean dist -0.1 [0.3 (%64.0)->0.2 (%36.0))]
- %84 local maxima, %11 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 0.91 +- 0.27 (0.06-->5.05) (max @ vno 117845 --> 143496)
- face area 0.35 +- 0.17 (0.00-->6.29)
- mean absolute distance = 0.24 +- 0.35
- 3459 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1019494.4, rms=3.283
- rms = 3.90, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=872086.0, rms=2.319 (29.370%)
- 025: dt: 0.2500, sse=822338.8, rms=1.852 (20.128%)
- rms = 1.81, time step reduction 2 of 3 to 0.125...
- 026: dt: 0.2500, sse=815150.5, rms=1.815 (2.010%)
- 027: dt: 0.1250, sse=798393.3, rms=1.638 (9.730%)
- rms = 1.63, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=796448.6, rms=1.627 (0.665%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=77.8, 209 (13) missing vertices, mean dist -0.0 [0.3 (%54.0)->0.2 (%46.0))]
- %86 local maxima, % 9 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=827961.0, rms=2.001
- rms = 2.77, time step reduction 1 of 3 to 0.250...
- 029: dt: 0.2500, sse=771093.8, rms=1.399 (30.084%)
- 030: dt: 0.2500, sse=757741.6, rms=1.206 (13.817%)
- rms = 1.21, time step reduction 2 of 3 to 0.125...
- rms = 1.19, time step reduction 3 of 3 to 0.062...
- 031: dt: 0.1250, sse=755358.4, rms=1.193 (1.053%)
- positioning took 0.5 minutes
- generating cortex label...
- 12 non-cortical segments detected
- only using segment with 7173 vertices
- erasing segment 1 (vno[0] = 95365)
- erasing segment 2 (vno[0] = 96222)
- erasing segment 3 (vno[0] = 96283)
- erasing segment 4 (vno[0] = 98530)
- erasing segment 5 (vno[0] = 99794)
- erasing segment 6 (vno[0] = 102948)
- erasing segment 7 (vno[0] = 103045)
- erasing segment 8 (vno[0] = 112513)
- erasing segment 9 (vno[0] = 142483)
- erasing segment 10 (vno[0] = 142486)
- erasing segment 11 (vno[0] = 142868)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.area
- vertex spacing 0.91 +- 0.27 (0.04-->5.04) (max @ vno 117845 --> 143496)
- face area 0.34 +- 0.17 (0.00-->6.29)
- refinement took 5.5 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051201 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-6.0.0/0051201/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- 25573 bright wm thresholded.
- 247 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.orig...
- computing class statistics...
- border white: 261624 voxels (1.56%)
- border gray 313529 voxels (1.87%)
- WM (95.0): 95.3 +- 10.0 [70.0 --> 110.0]
- GM (62.0) : 62.2 +- 11.4 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 46.6 (was 70)
- setting MAX_BORDER_WHITE to 111.0 (was 105)
- setting MIN_BORDER_WHITE to 58.0 (was 85)
- setting MAX_CSF to 35.3 (was 40)
- setting MAX_GRAY to 91.0 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 46.6 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 23.9 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.81 +- 0.23 (0.02-->4.22) (max @ vno 101275 --> 146335)
- face area 0.28 +- 0.13 (0.00-->3.63)
- mean absolute distance = 0.63 +- 0.74
- 4027 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=101+-10.4, GM=58+-8.7
- mean inside = 90.0, mean outside = 67.0
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=72.4, 125 (125) missing vertices, mean dist 0.3 [0.5 (%34.2)->0.7 (%65.8))]
- %74 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 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.92 +- 0.27 (0.06-->4.45) (max @ vno 101275 --> 146335)
- face area 0.28 +- 0.14 (0.00-->3.40)
- mean absolute distance = 0.30 +- 0.50
- 2777 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=4908217.5, rms=12.274
- 001: dt: 0.5000, sse=2759657.0, rms=8.781 (28.458%)
- 002: dt: 0.5000, sse=1912908.9, rms=6.892 (21.513%)
- 003: dt: 0.5000, sse=1514680.9, rms=5.777 (16.170%)
- 004: dt: 0.5000, sse=1325867.4, rms=5.165 (10.603%)
- 005: dt: 0.5000, sse=1230525.2, rms=4.836 (6.370%)
- 006: dt: 0.5000, sse=1188647.2, rms=4.674 (3.337%)
- 007: dt: 0.5000, sse=1165883.8, rms=4.589 (1.829%)
- 008: dt: 0.5000, sse=1152913.9, rms=4.531 (1.253%)
- rms = 4.50, time step reduction 1 of 3 to 0.250...
- 009: dt: 0.5000, sse=1151082.1, rms=4.498 (0.734%)
- 010: dt: 0.2500, sse=861542.2, rms=3.119 (30.661%)
- 011: dt: 0.2500, sse=798517.6, rms=2.721 (12.757%)
- 012: dt: 0.2500, sse=784504.6, rms=2.633 (3.221%)
- 013: dt: 0.2500, sse=774613.3, rms=2.551 (3.123%)
- rms = 2.52, time step reduction 2 of 3 to 0.125...
- 014: dt: 0.2500, sse=771642.9, rms=2.524 (1.051%)
- 015: dt: 0.1250, sse=731893.2, rms=2.236 (11.410%)
- rms = 2.20, time step reduction 3 of 3 to 0.062...
- 016: dt: 0.1250, sse=727503.4, rms=2.198 (1.706%)
- positioning took 1.7 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=75.9, 194 (49) missing vertices, mean dist -0.2 [0.3 (%72.0)->0.3 (%28.0))]
- %81 local maxima, %15 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.91 +- 0.26 (0.07-->4.49) (max @ vno 101275 --> 146335)
- face area 0.35 +- 0.17 (0.00-->5.43)
- mean absolute distance = 0.24 +- 0.38
- 3145 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1448938.9, rms=4.968
- 017: dt: 0.5000, sse=1182813.5, rms=3.882 (21.848%)
- rms = 4.29, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=961760.7, rms=2.722 (29.896%)
- 019: dt: 0.2500, sse=895401.0, rms=2.263 (16.856%)
- 020: dt: 0.2500, sse=872769.4, rms=2.060 (8.959%)
- rms = 2.04, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=867786.6, rms=2.044 (0.777%)
- 022: dt: 0.1250, sse=842391.8, rms=1.804 (11.763%)
- rms = 1.78, time step reduction 3 of 3 to 0.062...
- 023: dt: 0.1250, sse=841759.1, rms=1.779 (1.371%)
- 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 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- mean border=78.1, 202 (34) missing vertices, mean dist -0.1 [0.3 (%64.2)->0.2 (%35.8))]
- %86 local maxima, %10 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.91 +- 0.26 (0.06-->4.49) (max @ vno 101275 --> 146335)
- face area 0.35 +- 0.17 (0.00-->5.62)
- mean absolute distance = 0.23 +- 0.34
- 3160 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1022936.9, rms=3.155
- rms = 3.78, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=879278.8, rms=2.210 (29.959%)
- 025: dt: 0.2500, sse=832934.2, rms=1.764 (20.181%)
- rms = 1.74, time step reduction 2 of 3 to 0.125...
- 026: dt: 0.2500, sse=826288.2, rms=1.742 (1.247%)
- 027: dt: 0.1250, sse=812859.1, rms=1.576 (9.505%)
- rms = 1.57, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=810356.4, rms=1.568 (0.505%)
- positioning took 0.6 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 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- mean border=78.9, 201 (27) missing vertices, mean dist -0.0 [0.2 (%53.9)->0.2 (%46.1))]
- %88 local maxima, % 8 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=835902.2, rms=1.890
- rms = 2.65, time step reduction 1 of 3 to 0.250...
- 029: dt: 0.2500, sse=783638.1, rms=1.326 (29.853%)
- 030: dt: 0.2500, sse=773337.0, rms=1.154 (12.984%)
- rms = 1.16, time step reduction 2 of 3 to 0.125...
- rms = 1.14, time step reduction 3 of 3 to 0.062...
- 031: dt: 0.1250, sse=769959.9, rms=1.141 (1.063%)
- positioning took 0.5 minutes
- generating cortex label...
- 17 non-cortical segments detected
- only using segment with 6960 vertices
- erasing segment 1 (vno[0] = 68983)
- erasing segment 2 (vno[0] = 84054)
- erasing segment 3 (vno[0] = 100449)
- erasing segment 4 (vno[0] = 101245)
- erasing segment 5 (vno[0] = 103372)
- erasing segment 6 (vno[0] = 104465)
- erasing segment 7 (vno[0] = 104545)
- erasing segment 8 (vno[0] = 105813)
- erasing segment 9 (vno[0] = 106575)
- erasing segment 10 (vno[0] = 107646)
- erasing segment 11 (vno[0] = 108539)
- erasing segment 12 (vno[0] = 108630)
- erasing segment 13 (vno[0] = 108671)
- erasing segment 14 (vno[0] = 109646)
- erasing segment 15 (vno[0] = 109798)
- erasing segment 16 (vno[0] = 146379)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.area
- vertex spacing 0.91 +- 0.26 (0.04-->4.49) (max @ vno 59731 --> 60883)
- face area 0.34 +- 0.17 (0.00-->5.59)
- refinement took 5.6 minutes
- PIDs (4892 4895) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Sun Oct 8 02:33:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Sun Oct 8 02:33:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 5397 of (5397 5400) to complete...
- Waiting for PID 5400 of (5397 5400) 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 (5397 5400) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Sun Oct 8 02:33:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Sun Oct 8 02:33:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 5452 of (5452 5455) to complete...
- Waiting for PID 5455 of (5452 5455) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 46.4 mm, total surface area = 88569 mm^2
- writing inflated surface to ../surf/lh.inflated
- writing sulcal depths to ../surf/lh.sulc
-
step 000: RMS=0.190 (target=0.015)
step 005: RMS=0.134 (target=0.015)
step 010: RMS=0.104 (target=0.015)
step 015: RMS=0.086 (target=0.015)
step 020: RMS=0.072 (target=0.015)
step 025: RMS=0.060 (target=0.015)
step 030: RMS=0.051 (target=0.015)
step 035: RMS=0.043 (target=0.015)
step 040: RMS=0.038 (target=0.015)
step 045: RMS=0.033 (target=0.015)
step 050: RMS=0.030 (target=0.015)
step 055: RMS=0.028 (target=0.015)
step 060: RMS=0.026 (target=0.015)
- inflation complete.
- inflation took 0.7 minutes
- mris_inflate utimesec 43.878329
- mris_inflate stimesec 0.101984
- mris_inflate ru_maxrss 211748
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 31029
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 11280
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2281
- mris_inflate ru_nivcsw 3313
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 46.6 mm, total surface area = 90609 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.190 (target=0.015)
step 005: RMS=0.134 (target=0.015)
step 010: RMS=0.103 (target=0.015)
step 015: RMS=0.087 (target=0.015)
step 020: RMS=0.072 (target=0.015)
step 025: RMS=0.061 (target=0.015)
step 030: RMS=0.051 (target=0.015)
step 035: RMS=0.043 (target=0.015)
step 040: RMS=0.038 (target=0.015)
step 045: RMS=0.033 (target=0.015)
step 050: RMS=0.031 (target=0.015)
step 055: RMS=0.029 (target=0.015)
step 060: RMS=0.027 (target=0.015)
- inflation complete.
- inflation took 0.7 minutes
- mris_inflate utimesec 43.595372
- mris_inflate stimesec 0.122981
- mris_inflate ru_maxrss 215592
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 31478
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 11520
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2284
- mris_inflate ru_nivcsw 3306
- PIDs (5452 5455) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Sun Oct 8 02:34:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf
- mris_curvature -w lh.white.preaparc
- rm -f lh.white.H
- ln -s lh.white.preaparc.H lh.white.H
- rm -f lh.white.K
- ln -s lh.white.preaparc.K lh.white.K
- mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 lh.inflated
- #--------------------------------------------
- #@# Curv .H and .K rh Sun Oct 8 02:34:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 5538 of (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) to complete...
- Waiting for PID 5541 of (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) to complete...
- Waiting for PID 5544 of (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) to complete...
- Waiting for PID 5547 of (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) to complete...
- Waiting for PID 5550 of (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) to complete...
- Waiting for PID 5553 of (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) to complete...
- Waiting for PID 5556 of (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) to complete...
- Waiting for PID 5559 of (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) to complete...
- Waiting for PID 5562 of (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) to complete...
- Waiting for PID 5565 of (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) to complete...
- Waiting for PID 5568 of (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) to complete...
- Waiting for PID 5571 of (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = 12.083*4pi (151.836) --> -11 handles
- ICI = 226.9, FI = 2154.6, variation=34571.461
- 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
- 182 vertices thresholded to be in k1 ~ [-0.22 0.48], k2 ~ [-0.16 0.10]
- total integrated curvature = 0.425*4pi (5.337) --> 1 handles
- ICI = 1.4, FI = 9.6, variation=162.710
- 163 vertices thresholded to be in [-0.02 0.02]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 131 vertices thresholded to be in [-0.13 0.15]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.016, std = 0.021
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = 12.492*4pi (156.985) --> -11 handles
- ICI = 228.5, FI = 2170.1, variation=34800.940
- 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
- 189 vertices thresholded to be in k1 ~ [-0.30 0.31], k2 ~ [-0.15 0.06]
- total integrated curvature = 0.449*4pi (5.643) --> 1 handles
- ICI = 1.4, FI = 9.8, variation=165.138
- 141 vertices thresholded to be in [-0.01 0.02]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 140 vertices thresholded to be in [-0.16 0.14]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.016, std = 0.022
- done.
- PIDs (5538 5541 5544 5547 5550 5553 5556 5559 5562 5565 5568 5571) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Sun Oct 8 02:36:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0051201 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 [ 0051201/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 [ 289 ]
- Gb_filter = 0
- WARN: S lookup min: -0.437820
- WARN: S explicit min: 0.000000 vertex = 330
- #-----------------------------------------
- #@# Curvature Stats rh Sun Oct 8 02:36:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0051201 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 [ 0051201/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 [ 266 ]
- Gb_filter = 0
- WARN: S lookup min: -2.125209
- WARN: S explicit min: 0.000000 vertex = 973
- #--------------------------------------------
- #@# Sphere lh Sun Oct 8 02:36:56 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Sun Oct 8 02:36:56 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 5760 of (5760 5764) to complete...
- Waiting for PID 5764 of (5760 5764) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 0.290...
- MRISunfold() max_passes = 1 -------
- tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
- using quadratic fit line minimization
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 1.000000
- desired_rms_height -1.000000
- momentum 0.900000
- nbhd_size 7
- max_nbrs 8
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 1234
- --------------------
- mrisRemoveNegativeArea()
- pass 1: epoch 1 of 3 starting distance error %20.95
- pass 1: epoch 2 of 3 starting distance error %20.95
- unfolding complete - removing small folds...
- starting distance error %20.75
- removing remaining folds...
- final distance error %20.78
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 243 negative triangles
- 195: dt=0.9900, 243 negative triangles
- 196: dt=0.9900, 98 negative triangles
- 197: dt=0.9900, 69 negative triangles
- 198: dt=0.9900, 59 negative triangles
- 199: dt=0.9900, 55 negative triangles
- 200: dt=0.9900, 44 negative triangles
- 201: dt=0.9900, 34 negative triangles
- 202: dt=0.9900, 41 negative triangles
- 203: dt=0.9900, 34 negative triangles
- 204: dt=0.9900, 25 negative triangles
- 205: dt=0.9900, 24 negative triangles
- 206: dt=0.9900, 23 negative triangles
- 207: dt=0.9900, 30 negative triangles
- 208: dt=0.9900, 19 negative triangles
- 209: dt=0.9900, 11 negative triangles
- 210: dt=0.9900, 16 negative triangles
- 211: dt=0.9900, 9 negative triangles
- 212: dt=0.9900, 11 negative triangles
- 213: dt=0.9900, 6 negative triangles
- 214: dt=0.9900, 3 negative triangles
- 215: dt=0.9900, 6 negative triangles
- 216: dt=0.9900, 1 negative triangles
- 217: dt=0.9900, 1 negative triangles
- 218: dt=0.9900, 1 negative triangles
- 219: dt=0.9900, 2 negative triangles
- 220: dt=0.9900, 2 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 1.08 hours
- mris_sphere utimesec 3902.696699
- mris_sphere stimesec 1.533766
- mris_sphere ru_maxrss 296508
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 52357
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10176
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 124196
- mris_sphere ru_nivcsw 326997
- FSRUNTIME@ mris_sphere 1.0845 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- setting seed for random number genererator to 1234
- $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- reading original vertex positions...
- unfolding cortex into spherical form...
- surface projected - minimizing metric distortion...
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.288...
- MRISunfold() max_passes = 1 -------
- tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
- using quadratic fit line minimization
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 1.000000
- desired_rms_height -1.000000
- momentum 0.900000
- nbhd_size 7
- max_nbrs 8
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 1234
- --------------------
- mrisRemoveNegativeArea()
- pass 1: epoch 1 of 3 starting distance error %21.37
- pass 1: epoch 2 of 3 starting distance error %21.33
- unfolding complete - removing small folds...
- starting distance error %21.19
- removing remaining folds...
- final distance error %21.22
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 330 negative triangles
- 221: dt=0.9900, 330 negative triangles
- 222: dt=0.9900, 172 negative triangles
- 223: dt=0.9900, 131 negative triangles
- 224: dt=0.9900, 108 negative triangles
- 225: dt=0.9900, 88 negative triangles
- 226: dt=0.9900, 89 negative triangles
- 227: dt=0.9900, 80 negative triangles
- 228: dt=0.9900, 78 negative triangles
- 229: dt=0.9900, 75 negative triangles
- 230: dt=0.9900, 63 negative triangles
- 231: dt=0.9900, 57 negative triangles
- 232: dt=0.9900, 58 negative triangles
- 233: dt=0.9900, 52 negative triangles
- 234: dt=0.9900, 49 negative triangles
- 235: dt=0.9900, 46 negative triangles
- 236: dt=0.9900, 40 negative triangles
- 237: dt=0.9900, 36 negative triangles
- 238: dt=0.9900, 35 negative triangles
- 239: dt=0.9900, 32 negative triangles
- 240: dt=0.9900, 32 negative triangles
- 241: dt=0.9900, 23 negative triangles
- 242: dt=0.9900, 26 negative triangles
- 243: dt=0.9900, 22 negative triangles
- 244: dt=0.9900, 29 negative triangles
- 245: dt=0.9900, 17 negative triangles
- 246: dt=0.9900, 18 negative triangles
- 247: dt=0.9900, 16 negative triangles
- 248: dt=0.9900, 18 negative triangles
- 249: dt=0.9900, 18 negative triangles
- 250: dt=0.9900, 15 negative triangles
- 251: dt=0.9900, 13 negative triangles
- 252: dt=0.9900, 14 negative triangles
- 253: dt=0.9900, 18 negative triangles
- 254: dt=0.9900, 15 negative triangles
- 255: dt=0.9900, 14 negative triangles
- 256: dt=0.9900, 14 negative triangles
- 257: dt=0.9900, 16 negative triangles
- 258: dt=0.9900, 15 negative triangles
- 259: dt=0.9900, 16 negative triangles
- 260: dt=0.9900, 15 negative triangles
- 261: dt=0.9405, 15 negative triangles
- 262: dt=0.9405, 14 negative triangles
- 263: dt=0.9405, 16 negative triangles
- 264: dt=0.9405, 16 negative triangles
- 265: dt=0.9405, 16 negative triangles
- 266: dt=0.9405, 15 negative triangles
- 267: dt=0.9405, 16 negative triangles
- 268: dt=0.9405, 18 negative triangles
- 269: dt=0.9405, 14 negative triangles
- 270: dt=0.9405, 14 negative triangles
- 271: dt=0.8935, 17 negative triangles
- 272: dt=0.8935, 12 negative triangles
- 273: dt=0.8935, 16 negative triangles
- 274: dt=0.8935, 14 negative triangles
- 275: dt=0.8935, 13 negative triangles
- 276: dt=0.8935, 12 negative triangles
- 277: dt=0.8935, 13 negative triangles
- 278: dt=0.8935, 7 negative triangles
- 279: dt=0.8935, 9 negative triangles
- 280: dt=0.8935, 6 negative triangles
- 281: dt=0.8935, 7 negative triangles
- 282: dt=0.8935, 9 negative triangles
- 283: dt=0.8935, 7 negative triangles
- 284: dt=0.8935, 12 negative triangles
- 285: dt=0.8935, 11 negative triangles
- 286: dt=0.8935, 6 negative triangles
- 287: dt=0.8935, 9 negative triangles
- 288: dt=0.8935, 6 negative triangles
- 289: dt=0.8935, 3 negative triangles
- 290: dt=0.8935, 4 negative triangles
- 291: dt=0.8935, 4 negative triangles
- 292: dt=0.8935, 2 negative triangles
- 293: dt=0.8935, 3 negative triangles
- 294: dt=0.8935, 3 negative triangles
- 295: dt=0.8935, 4 negative triangles
- 296: dt=0.8935, 3 negative triangles
- 297: dt=0.8935, 3 negative triangles
- 298: dt=0.8935, 2 negative triangles
- 299: dt=0.8935, 3 negative triangles
- 300: dt=0.8935, 1 negative triangles
- 301: dt=0.8935, 3 negative triangles
- 302: dt=0.8935, 3 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 1.21 hours
- mris_sphere utimesec 4684.318875
- mris_sphere stimesec 2.738583
- mris_sphere ru_maxrss 302200
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 52752
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 10416
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 150139
- mris_sphere ru_nivcsw 315546
- FSRUNTIME@ mris_sphere 1.2136 hours 1 threads
- PIDs (5760 5764) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Sun Oct 8 03:49:45 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 03:49:45 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 10096 of (10096 10099) to complete...
- Waiting for PID 10099 of (10096 10099) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 = 5.598
- curvature mean = 0.027, std = 0.812
- curvature mean = 0.012, std = 0.861
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (0.00, -16.00, 0.00) sse = 359948.8, tmin=1.2099
- d=32.00 min @ (0.00, 8.00, 8.00) sse = 267966.8, tmin=2.4344
- d=16.00 min @ (4.00, 0.00, -4.00) sse = 239605.2, tmin=3.6780
- d=4.00 min @ (-1.00, 0.00, 1.00) sse = 239114.0, tmin=6.2061
- d=2.00 min @ (0.50, 0.00, -0.50) sse = 238768.3, tmin=7.4767
- d=1.00 min @ (0.00, 0.00, 0.25) sse = 238685.0, tmin=8.7342
- tol=1.0e+00, sigma=0.5, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
- using quadratic fit line minimization
- MRISrigidBodyAlignGlobal() done 10.00 min
- curvature mean = 0.009, std = 0.827
- curvature mean = 0.005, std = 0.947
- curvature mean = 0.006, std = 0.838
- curvature mean = 0.002, std = 0.978
- curvature mean = 0.005, std = 0.840
- curvature mean = 0.000, std = 0.991
- 2 Reading smoothwm
- curvature mean = -0.033, std = 0.343
- curvature mean = 0.041, std = 0.248
- curvature mean = 0.071, std = 0.284
- curvature mean = 0.034, std = 0.307
- curvature mean = 0.053, std = 0.439
- curvature mean = 0.033, std = 0.335
- curvature mean = 0.031, std = 0.575
- curvature mean = 0.033, std = 0.347
- curvature mean = 0.011, std = 0.695
- MRISregister() return, current seed 0
- -01: dt=0.0000, 91 negative triangles
- 118: dt=0.9900, 91 negative triangles
- expanding nbhd size to 1
- 119: dt=0.9900, 119 negative triangles
- 120: dt=0.9900, 88 negative triangles
- 121: dt=0.9900, 86 negative triangles
- 122: dt=0.9900, 90 negative triangles
- 123: dt=0.9900, 89 negative triangles
- 124: dt=0.9900, 80 negative triangles
- 125: dt=0.9900, 75 negative triangles
- 126: dt=0.9900, 71 negative triangles
- 127: dt=0.9900, 72 negative triangles
- 128: dt=0.9900, 64 negative triangles
- 129: dt=0.9900, 53 negative triangles
- 130: dt=0.9900, 50 negative triangles
- 131: dt=0.9900, 50 negative triangles
- 132: dt=0.9900, 47 negative triangles
- 133: dt=0.9900, 46 negative triangles
- 134: dt=0.9900, 40 negative triangles
- 135: dt=0.9900, 40 negative triangles
- 136: dt=0.9900, 33 negative triangles
- 137: dt=0.9900, 31 negative triangles
- 138: dt=0.9900, 33 negative triangles
- 139: dt=0.9900, 38 negative triangles
- 140: dt=0.9900, 30 negative triangles
- 141: dt=0.9900, 30 negative triangles
- 142: dt=0.9900, 27 negative triangles
- 143: dt=0.9900, 29 negative triangles
- 144: dt=0.9900, 25 negative triangles
- 145: dt=0.9900, 24 negative triangles
- 146: dt=0.9900, 25 negative triangles
- 147: dt=0.9900, 26 negative triangles
- 148: dt=0.9900, 23 negative triangles
- 149: dt=0.9900, 23 negative triangles
- 150: dt=0.9900, 20 negative triangles
- 151: dt=0.9900, 22 negative triangles
- 152: dt=0.9900, 24 negative triangles
- 153: dt=0.9900, 21 negative triangles
- 154: dt=0.9900, 21 negative triangles
- 155: dt=0.9900, 17 negative triangles
- 156: dt=0.9900, 16 negative triangles
- 157: dt=0.9900, 17 negative triangles
- 158: dt=0.9900, 13 negative triangles
- 159: dt=0.9900, 12 negative triangles
- 160: dt=0.9900, 8 negative triangles
- 161: dt=0.9900, 9 negative triangles
- 162: dt=0.9900, 9 negative triangles
- 163: dt=0.9900, 8 negative triangles
- 164: dt=0.9900, 6 negative triangles
- 165: dt=0.9900, 5 negative triangles
- 166: dt=0.9900, 5 negative triangles
- 167: dt=0.9900, 6 negative triangles
- 168: dt=0.9900, 5 negative triangles
- 169: dt=0.9900, 4 negative triangles
- 170: dt=0.9900, 4 negative triangles
- 171: dt=0.9900, 4 negative triangles
- 172: dt=0.9900, 4 negative triangles
- 173: dt=0.9900, 4 negative triangles
- 174: dt=0.9900, 2 negative triangles
- 175: dt=0.9900, 4 negative triangles
- 176: dt=0.9900, 2 negative triangles
- 177: dt=0.9900, 2 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 1.42 hours
- mris_register utimesec 5106.407708
- mris_register stimesec 5.218206
- mris_register ru_maxrss 266552
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 38481
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 10136
- mris_register ru_oublock 10224
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 346257
- mris_register ru_nivcsw 232738
- FSRUNTIME@ mris_register 1.4217 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 = 5.695
- curvature mean = 0.030, std = 0.816
- curvature mean = 0.015, std = 0.857
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (0.00, -16.00, 0.00) sse = 360403.6, tmin=1.3538
- d=32.00 min @ (8.00, 8.00, 8.00) sse = 316346.7, tmin=2.7235
- d=16.00 min @ (-4.00, -4.00, 0.00) sse = 289583.2, tmin=4.1099
- d=8.00 min @ (-2.00, 2.00, -2.00) sse = 287768.7, tmin=5.5064
- d=4.00 min @ (1.00, -1.00, 1.00) sse = 285786.1, tmin=6.9120
- d=2.00 min @ (0.00, 0.50, 0.00) sse = 285542.7, tmin=8.3185
- d=1.00 min @ (-0.25, 0.00, -0.25) sse = 285464.8, tmin=9.7240
- d=0.50 min @ (0.12, 0.00, 0.12) sse = 285460.9, tmin=11.1657
- tol=1.0e+00, sigma=0.5, host=tars-, nav=1024, nbrs=1, l_extern=10000.000, l_parea=0.200, l_nlarea=1.000, l_corr=0.050, l_spring=0.500, l_dist=5.000
- using quadratic fit line minimization
- MRISrigidBodyAlignGlobal() done 11.17 min
- curvature mean = -0.001, std = 0.815
- curvature mean = 0.004, std = 0.945
- curvature mean = -0.008, std = 0.822
- curvature mean = 0.001, std = 0.977
- curvature mean = -0.012, std = 0.821
- curvature mean = 0.000, std = 0.991
- 2 Reading smoothwm
- curvature mean = -0.036, std = 0.404
- curvature mean = 0.035, std = 0.240
- curvature mean = 0.064, std = 0.244
- curvature mean = 0.028, std = 0.300
- curvature mean = 0.049, std = 0.375
- curvature mean = 0.026, std = 0.327
- curvature mean = 0.030, std = 0.492
- curvature mean = 0.026, std = 0.339
- curvature mean = 0.012, std = 0.601
- MRISregister() return, current seed 0
- -01: dt=0.0000, 141 negative triangles
- 125: dt=0.9900, 141 negative triangles
- expanding nbhd size to 1
- 126: dt=0.9900, 187 negative triangles
- 127: dt=0.9900, 127 negative triangles
- 128: dt=0.9900, 131 negative triangles
- 129: dt=0.9900, 137 negative triangles
- 130: dt=0.9900, 139 negative triangles
- 131: dt=0.9900, 136 negative triangles
- 132: dt=0.9900, 132 negative triangles
- 133: dt=0.9900, 122 negative triangles
- 134: dt=0.9900, 119 negative triangles
- 135: dt=0.9900, 111 negative triangles
- 136: dt=0.9900, 104 negative triangles
- 137: dt=0.9900, 98 negative triangles
- 138: dt=0.9900, 96 negative triangles
- 139: dt=0.9900, 86 negative triangles
- 140: dt=0.9900, 86 negative triangles
- 141: dt=0.9900, 82 negative triangles
- 142: dt=0.9900, 78 negative triangles
- 143: dt=0.9900, 74 negative triangles
- 144: dt=0.9900, 64 negative triangles
- 145: dt=0.9900, 60 negative triangles
- 146: dt=0.9900, 64 negative triangles
- 147: dt=0.9900, 56 negative triangles
- 148: dt=0.9900, 53 negative triangles
- 149: dt=0.9900, 49 negative triangles
- 150: dt=0.9900, 50 negative triangles
- 151: dt=0.9900, 43 negative triangles
- 152: dt=0.9900, 42 negative triangles
- 153: dt=0.9900, 44 negative triangles
- 154: dt=0.9900, 39 negative triangles
- 155: dt=0.9900, 32 negative triangles
- 156: dt=0.9900, 33 negative triangles
- 157: dt=0.9900, 30 negative triangles
- 158: dt=0.9900, 33 negative triangles
- 159: dt=0.9900, 30 negative triangles
- 160: dt=0.9900, 30 negative triangles
- 161: dt=0.9900, 26 negative triangles
- 162: dt=0.9900, 25 negative triangles
- 163: dt=0.9900, 23 negative triangles
- 164: dt=0.9900, 18 negative triangles
- 165: dt=0.9900, 19 negative triangles
- 166: dt=0.9900, 17 negative triangles
- 167: dt=0.9900, 18 negative triangles
- 168: dt=0.9900, 17 negative triangles
- 169: dt=0.9900, 17 negative triangles
- 170: dt=0.9900, 14 negative triangles
- 171: dt=0.9900, 14 negative triangles
- 172: dt=0.9900, 14 negative triangles
- 173: dt=0.9900, 16 negative triangles
- 174: dt=0.9900, 14 negative triangles
- 175: dt=0.9900, 14 negative triangles
- 176: dt=0.9900, 14 negative triangles
- 177: dt=0.9900, 13 negative triangles
- 178: dt=0.9900, 11 negative triangles
- 179: dt=0.9900, 12 negative triangles
- 180: dt=0.9900, 10 negative triangles
- 181: dt=0.9900, 11 negative triangles
- 182: dt=0.9900, 10 negative triangles
- 183: dt=0.9900, 8 negative triangles
- 184: dt=0.9900, 6 negative triangles
- 185: dt=0.9900, 6 negative triangles
- 186: dt=0.9900, 5 negative triangles
- 187: dt=0.9900, 5 negative triangles
- 188: dt=0.9900, 3 negative triangles
- 189: dt=0.9900, 2 negative triangles
- 190: dt=0.9900, 2 negative triangles
- 191: dt=0.9900, 2 negative triangles
- 192: dt=0.9900, 2 negative triangles
- 193: dt=0.9900, 2 negative triangles
- 194: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- registration took 1.62 hours
- mris_register utimesec 6245.823490
- mris_register stimesec 4.013389
- mris_register ru_maxrss 268060
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 37776
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 0
- mris_register ru_oublock 10456
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 296620
- mris_register ru_nivcsw 289144
- FSRUNTIME@ mris_register 1.6229 hours 1 threads
- PIDs (10096 10099) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Sun Oct 8 05:27:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Sun Oct 8 05:27:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 14345 of (14345 14348) to complete...
- Waiting for PID 14348 of (14345 14348) 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 (14345 14348) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Sun Oct 8 05:27:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 05:27:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 14394 of (14394 14397) to complete...
- Waiting for PID 14397 of (14394 14397) 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 (14394 14397) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Sun Oct 8 05:27:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051201 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 05:27:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051201 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 14443 of (14443 14446) to complete...
- Waiting for PID 14446 of (14443 14446) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051201 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...
- 1543 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3312 changed, 144031 examined...
- 001: 755 changed, 13804 examined...
- 002: 182 changed, 4226 examined...
- 003: 51 changed, 1116 examined...
- 004: 19 changed, 337 examined...
- 005: 13 changed, 111 examined...
- 006: 5 changed, 74 examined...
- 007: 1 changed, 31 examined...
- 008: 1 changed, 6 examined...
- 009: 0 changed, 7 examined...
- 221 labels changed using aseg
- 000: 128 total segments, 86 labels (382 vertices) changed
- 001: 45 total segments, 3 labels (4 vertices) changed
- 002: 42 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 15 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 2186 vertices marked for relabeling...
- 2186 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 16 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051201 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...
- 1301 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2959 changed, 147117 examined...
- 001: 634 changed, 12656 examined...
- 002: 131 changed, 3568 examined...
- 003: 41 changed, 801 examined...
- 004: 8 changed, 259 examined...
- 005: 4 changed, 56 examined...
- 006: 0 changed, 28 examined...
- 131 labels changed using aseg
- 000: 105 total segments, 68 labels (347 vertices) changed
- 001: 40 total segments, 3 labels (7 vertices) changed
- 002: 37 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 3 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1948 vertices marked for relabeling...
- 1948 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 16 seconds.
- PIDs (14443 14446) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Sun Oct 8 05:27:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051201 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Sun Oct 8 05:27:29 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051201 rh
- Waiting for PID 14494 of (14494 14497) to complete...
- Waiting for PID 14497 of (14494 14497) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051201 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-6.0.0/0051201/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- 25573 bright wm thresholded.
- 247 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.orig...
- computing class statistics...
- border white: 261624 voxels (1.56%)
- border gray 313529 voxels (1.87%)
- WM (95.0): 95.3 +- 10.0 [70.0 --> 110.0]
- GM (62.0) : 62.2 +- 11.4 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 45.6 (was 70)
- setting MAX_BORDER_WHITE to 110.0 (was 105)
- setting MIN_BORDER_WHITE to 57.0 (was 85)
- setting MAX_CSF to 34.3 (was 40)
- setting MAX_GRAY to 90.0 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 45.6 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 22.9 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=100+-10.4, GM=57+-7.8
- mean inside = 89.4, mean outside = 66.3
- 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 0.91 +- 0.27 (0.04-->5.04) (max @ vno 117845 --> 143496)
- face area 0.34 +- 0.17 (0.00-->6.27)
- mean absolute distance = 0.50 +- 0.71
- 2577 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 221 points - only 0.00% unknown
- deleting segment 1 with 38 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 2 with 4 points - only 0.00% unknown
- deleting segment 3 with 10 points - only 0.00% unknown
- deleting segment 4 with 11 points - only 0.00% unknown
- deleting segment 8 with 5 points - only 0.00% unknown
- deleting segment 9 with 14 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 10 with 2 points - only 0.00% unknown
- deleting segment 11 with 368 points - only 0.00% unknown
- deleting segment 12 with 12 points - only 0.00% unknown
- deleting segment 13 with 39 points - only 0.00% unknown
- deleting segment 14 with 28 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 15 with 2 points - only 0.00% unknown
- deleting segment 16 with 11 points - only 0.00% unknown
- deleting segment 17 with 21 points - only 0.00% unknown
- deleting segment 18 with 5 points - only 0.00% unknown
- deleting segment 19 with 7 points - only 0.00% unknown
- deleting segment 20 with 9 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 21 with 3 points - only 0.00% unknown
- mean border=70.9, 127 (127) missing vertices, mean dist 0.3 [0.6 (%14.3)->0.5 (%85.7))]
- %67 local maxima, %29 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 0.93 +- 0.28 (0.09-->5.40) (max @ vno 60215 --> 142419)
- face area 0.34 +- 0.18 (0.00-->5.99)
- mean absolute distance = 0.30 +- 0.52
- 2877 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2748002.2, rms=8.571
- 001: dt: 0.5000, sse=1486014.8, rms=5.269 (38.522%)
- 002: dt: 0.5000, sse=1299003.2, rms=4.608 (12.541%)
- rms = 4.60, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.5000, sse=1294538.1, rms=4.596 (0.274%)
- 004: dt: 0.2500, sse=969462.7, rms=3.015 (34.387%)
- 005: dt: 0.2500, sse=918167.4, rms=2.686 (10.941%)
- 006: dt: 0.2500, sse=908465.1, rms=2.601 (3.133%)
- 007: dt: 0.2500, sse=898096.4, rms=2.536 (2.528%)
- rms = 2.52, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=899501.2, rms=2.519 (0.663%)
- 009: dt: 0.1250, sse=872151.8, rms=2.322 (7.797%)
- rms = 2.30, time step reduction 3 of 3 to 0.062...
- 010: dt: 0.1250, sse=869400.1, rms=2.300 (0.975%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 174 points - only 0.00% unknown
- deleting segment 1 with 27 points - only 0.00% unknown
- deleting segment 2 with 7 points - only 0.00% unknown
- deleting segment 3 with 12 points - only 0.00% unknown
- deleting segment 4 with 9 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- deleting segment 8 with 16 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 9 with 2 points - only 0.00% unknown
- deleting segment 10 with 191 points - only 0.00% unknown
- deleting segment 12 with 22 points - only 0.00% unknown
- deleting segment 13 with 5 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 14 with 1 points - only 0.00% unknown
- deleting segment 15 with 27 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 16 with 2 points - only 0.00% unknown
- deleting segment 17 with 5 points - only 0.00% unknown
- deleting segment 18 with 7 points - only 0.00% unknown
- deleting segment 19 with 7 points - only 0.00% unknown
- deleting segment 20 with 5 points - only 0.00% unknown
- mean border=74.4, 151 (32) missing vertices, mean dist -0.2 [0.3 (%71.7)->0.2 (%28.3))]
- %78 local maxima, %18 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 0.92 +- 0.27 (0.08-->5.40) (max @ vno 60215 --> 142419)
- face area 0.36 +- 0.18 (0.00-->6.34)
- mean absolute distance = 0.25 +- 0.40
- 3572 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1368218.6, rms=4.712
- 011: dt: 0.5000, sse=1167508.1, rms=3.844 (18.424%)
- rms = 4.26, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.2500, sse=950681.5, rms=2.660 (30.804%)
- 013: dt: 0.2500, sse=894809.9, rms=2.218 (16.606%)
- 014: dt: 0.2500, sse=871378.0, rms=2.037 (8.161%)
- rms = 2.03, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=869169.7, rms=2.034 (0.142%)
- 016: dt: 0.1250, sse=844537.9, rms=1.803 (11.380%)
- rms = 1.78, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=843199.2, rms=1.780 (1.243%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 171 points - only 0.00% unknown
- deleting segment 1 with 28 points - only 0.00% unknown
- deleting segment 2 with 7 points - only 0.00% unknown
- deleting segment 3 with 8 points - only 0.00% unknown
- deleting segment 4 with 10 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 5 with 1 points - only 0.00% unknown
- deleting segment 6 with 6 points - only 0.00% unknown
- deleting segment 7 with 16 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 8 with 2 points - only 0.00% unknown
- deleting segment 9 with 206 points - only 0.00% unknown
- deleting segment 10 with 25 points - only 0.00% unknown
- deleting segment 11 with 5 points - only 0.00% unknown
- deleting segment 12 with 5 points - only 0.00% unknown
- deleting segment 13 with 27 points - only 0.00% unknown
- deleting segment 14 with 5 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 15 with 1 points - only 0.00% unknown
- deleting segment 16 with 5 points - only 0.00% unknown
- deleting segment 17 with 7 points - only 0.00% unknown
- deleting segment 18 with 9 points - only 0.00% unknown
- deleting segment 19 with 5 points - only 0.00% unknown
- mean border=76.7, 156 (18) missing vertices, mean dist -0.1 [0.3 (%64.2)->0.2 (%35.8))]
- %84 local maxima, %12 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.91 +- 0.27 (0.11-->5.40) (max @ vno 60215 --> 142419)
- face area 0.35 +- 0.18 (0.00-->6.14)
- mean absolute distance = 0.24 +- 0.35
- 3660 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1033911.4, rms=3.269
- rms = 3.87, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=884323.8, rms=2.292 (29.866%)
- 019: dt: 0.2500, sse=837147.3, rms=1.806 (21.227%)
- rms = 1.77, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=826799.4, rms=1.767 (2.123%)
- 021: dt: 0.1250, sse=808831.9, rms=1.591 (10.008%)
- rms = 1.58, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=808607.5, rms=1.580 (0.665%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 172 points - only 0.00% unknown
- deleting segment 1 with 29 points - only 0.00% unknown
- deleting segment 2 with 7 points - only 0.00% unknown
- deleting segment 3 with 6 points - only 0.00% unknown
- deleting segment 4 with 10 points - only 0.00% unknown
- deleting segment 5 with 9 points - only 0.00% unknown
- deleting segment 6 with 11 points - only 0.00% unknown
- deleting segment 7 with 17 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 8 with 2 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 9 with 1 points - only 0.00% unknown
- deleting segment 10 with 218 points - only 0.00% unknown
- deleting segment 11 with 25 points - only 0.00% unknown
- deleting segment 12 with 5 points - only 0.00% unknown
- deleting segment 13 with 30 points - only 0.00% unknown
- deleting segment 14 with 5 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 15 with 1 points - only 0.00% unknown
- deleting segment 16 with 5 points - only 0.00% unknown
- deleting segment 17 with 7 points - only 0.00% unknown
- deleting segment 18 with 9 points - only 0.00% unknown
- deleting segment 19 with 5 points - only 0.00% unknown
- mean border=77.7, 200 (13) missing vertices, mean dist -0.0 [0.3 (%54.1)->0.2 (%45.9))]
- %87 local maxima, % 9 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=840613.4, rms=1.979
- rms = 2.78, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=782491.2, rms=1.364 (31.044%)
- 024: dt: 0.2500, sse=773120.1, rms=1.175 (13.897%)
- rms = 1.19, 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=768775.0, rms=1.162 (1.124%)
- positioning took 0.5 minutes
- generating cortex label...
- 12 non-cortical segments detected
- only using segment with 7270 vertices
- erasing segment 1 (vno[0] = 86021)
- erasing segment 2 (vno[0] = 91909)
- erasing segment 3 (vno[0] = 96283)
- erasing segment 4 (vno[0] = 96459)
- erasing segment 5 (vno[0] = 98530)
- erasing segment 6 (vno[0] = 98547)
- erasing segment 7 (vno[0] = 102948)
- erasing segment 8 (vno[0] = 103045)
- erasing segment 9 (vno[0] = 112513)
- erasing segment 10 (vno[0] = 142483)
- erasing segment 11 (vno[0] = 142486)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.area
- vertex spacing 0.91 +- 0.27 (0.05-->5.46) (max @ vno 60215 --> 142419)
- face area 0.35 +- 0.18 (0.00-->6.22)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 3 with 7 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=44.2, 150 (150) missing vertices, mean dist 1.7 [1.1 (%0.0)->2.7 (%100.0))]
- %10 local maxima, %50 large gradients and %36 min vals, 557 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=32949002.0, rms=34.140
- 001: dt: 0.0500, sse=28568344.0, rms=31.735 (7.046%)
- 002: dt: 0.0500, sse=25408970.0, rms=29.879 (5.846%)
- 003: dt: 0.0500, sse=22997576.0, rms=28.382 (5.012%)
- 004: dt: 0.0500, sse=21065234.0, rms=27.122 (4.439%)
- 005: dt: 0.0500, sse=19459960.0, rms=26.029 (4.030%)
- 006: dt: 0.0500, sse=18089744.0, rms=25.059 (3.729%)
- 007: dt: 0.0500, sse=16897166.0, rms=24.182 (3.498%)
- 008: dt: 0.0500, sse=15842670.0, rms=23.380 (3.319%)
- 009: dt: 0.0500, sse=14901563.0, rms=22.639 (3.166%)
- 010: dt: 0.0500, sse=14053503.0, rms=21.951 (3.041%)
- positioning took 1.0 minutes
- mean border=44.1, 166 (92) missing vertices, mean dist 1.4 [0.2 (%0.1)->2.3 (%99.9))]
- %11 local maxima, %50 large gradients and %36 min vals, 501 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=14752311.0, rms=22.526
- 011: dt: 0.0500, sse=13978183.0, rms=21.895 (2.800%)
- 012: dt: 0.0500, sse=13273379.0, rms=21.305 (2.697%)
- 013: dt: 0.0500, sse=12628359.0, rms=20.750 (2.606%)
- 014: dt: 0.0500, sse=12038021.0, rms=20.228 (2.514%)
- 015: dt: 0.0500, sse=11496229.0, rms=19.737 (2.427%)
- 016: dt: 0.0500, sse=10997411.0, rms=19.274 (2.347%)
- 017: dt: 0.0500, sse=10537253.0, rms=18.836 (2.270%)
- 018: dt: 0.0500, sse=10112860.0, rms=18.424 (2.191%)
- 019: dt: 0.0500, sse=9720377.0, rms=18.033 (2.118%)
- 020: dt: 0.0500, sse=9357386.0, rms=17.665 (2.044%)
- positioning took 1.0 minutes
- mean border=44.0, 196 (67) missing vertices, mean dist 1.2 [0.1 (%1.3)->2.0 (%98.7))]
- %11 local maxima, %49 large gradients and %35 min vals, 499 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=9442338.0, rms=17.760
- 021: dt: 0.0500, sse=9098610.0, rms=17.406 (1.995%)
- 022: dt: 0.0500, sse=8779532.0, rms=17.070 (1.928%)
- 023: dt: 0.0500, sse=8480788.0, rms=16.750 (1.877%)
- 024: dt: 0.0500, sse=8203331.0, rms=16.446 (1.810%)
- 025: dt: 0.0500, sse=7945156.5, rms=16.159 (1.747%)
- 026: dt: 0.0500, sse=7704227.0, rms=15.886 (1.689%)
- 027: dt: 0.0500, sse=7477666.5, rms=15.625 (1.644%)
- 028: dt: 0.0500, sse=7261912.0, rms=15.372 (1.619%)
- 029: dt: 0.0500, sse=7057023.5, rms=15.128 (1.588%)
- 030: dt: 0.0500, sse=6862104.5, rms=14.892 (1.561%)
- positioning took 1.0 minutes
- mean border=43.9, 246 (58) missing vertices, mean dist 1.1 [0.1 (%9.6)->1.8 (%90.4))]
- %12 local maxima, %49 large gradients and %35 min vals, 501 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=6921743.5, rms=14.965
- 031: dt: 0.5000, sse=5525242.5, rms=13.164 (12.035%)
- 032: dt: 0.5000, sse=4595527.5, rms=11.805 (10.329%)
- 033: dt: 0.5000, sse=3922432.8, rms=10.714 (9.236%)
- 034: dt: 0.5000, sse=3438370.8, rms=9.847 (8.098%)
- 035: dt: 0.5000, sse=3068837.2, rms=9.131 (7.266%)
- 036: dt: 0.5000, sse=2785518.8, rms=8.537 (6.503%)
- 037: dt: 0.5000, sse=2557156.8, rms=8.031 (5.936%)
- 038: dt: 0.5000, sse=2371920.0, rms=7.592 (5.458%)
- 039: dt: 0.5000, sse=2223327.0, rms=7.225 (4.840%)
- 040: dt: 0.5000, sse=2106697.0, rms=6.918 (4.243%)
- 041: dt: 0.5000, sse=2013530.6, rms=6.668 (3.616%)
- 042: dt: 0.5000, sse=1948927.4, rms=6.485 (2.750%)
- 043: dt: 0.5000, sse=1899393.1, rms=6.343 (2.178%)
- 044: dt: 0.5000, sse=1868081.5, rms=6.249 (1.486%)
- 045: dt: 0.5000, sse=1839940.2, rms=6.166 (1.327%)
- 046: dt: 0.5000, sse=1821458.1, rms=6.108 (0.945%)
- 047: dt: 0.5000, sse=1799565.0, rms=6.044 (1.050%)
- rms = 6.01, time step reduction 1 of 3 to 0.250...
- 048: dt: 0.5000, sse=1789564.4, rms=6.011 (0.545%)
- 049: dt: 0.2500, sse=1714772.1, rms=5.745 (4.419%)
- 050: dt: 0.2500, sse=1692165.2, rms=5.672 (1.269%)
- rms = 5.67, time step reduction 2 of 3 to 0.125...
- 051: dt: 0.2500, sse=1690976.6, rms=5.666 (0.110%)
- rms = 5.62, time step reduction 3 of 3 to 0.062...
- 052: dt: 0.1250, sse=1679546.0, rms=5.625 (0.732%)
- positioning took 3.1 minutes
- mean border=42.9, 2494 (17) missing vertices, mean dist 0.2 [0.2 (%48.9)->0.8 (%51.1))]
- %23 local maxima, %39 large gradients and %32 min vals, 267 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=1932123.0, rms=5.602
- 053: dt: 0.5000, sse=1814015.6, rms=5.217 (6.867%)
- 054: dt: 0.5000, sse=1757865.0, rms=5.051 (3.183%)
- 055: dt: 0.5000, sse=1732528.8, rms=4.965 (1.703%)
- 056: dt: 0.5000, sse=1704289.1, rms=4.874 (1.841%)
- 057: dt: 0.5000, sse=1690737.9, rms=4.822 (1.054%)
- 058: dt: 0.5000, sse=1673514.6, rms=4.766 (1.177%)
- rms = 4.74, time step reduction 1 of 3 to 0.250...
- 059: dt: 0.5000, sse=1668196.8, rms=4.743 (0.472%)
- 060: dt: 0.2500, sse=1577445.1, rms=4.315 (9.032%)
- 061: dt: 0.2500, sse=1550727.0, rms=4.202 (2.610%)
- rms = 4.20, time step reduction 2 of 3 to 0.125...
- rms = 4.17, time step reduction 3 of 3 to 0.062...
- 062: dt: 0.1250, sse=1545036.6, rms=4.174 (0.681%)
- positioning took 1.8 minutes
- mean border=41.9, 2936 (13) missing vertices, mean dist 0.1 [0.2 (%47.0)->0.6 (%53.0))]
- %37 local maxima, %25 large gradients and %32 min vals, 338 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=1650121.4, rms=4.467
- rms = 4.65, time step reduction 1 of 3 to 0.250...
- 063: dt: 0.2500, sse=1610712.4, rms=4.293 (3.904%)
- 064: dt: 0.2500, sse=1595753.1, rms=4.228 (1.506%)
- rms = 4.20, time step reduction 2 of 3 to 0.125...
- 065: dt: 0.2500, sse=1588065.6, rms=4.204 (0.571%)
- 066: dt: 0.1250, sse=1573171.2, rms=4.133 (1.691%)
- rms = 4.11, time step reduction 3 of 3 to 0.062...
- 067: dt: 0.1250, sse=1568391.5, rms=4.115 (0.447%)
- positioning took 1.0 minutes
- mean border=41.3, 5144 (13) missing vertices, mean dist 0.1 [0.2 (%47.7)->0.5 (%52.3))]
- %42 local maxima, %19 large gradients and %31 min vals, 345 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-6.0.0/0051201/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1595958.2, rms=4.229
- rms = 4.35, time step reduction 1 of 3 to 0.250...
- 068: dt: 0.2500, sse=1573433.4, rms=4.129 (2.358%)
- 069: dt: 0.2500, sse=1551852.2, rms=4.050 (1.909%)
- rms = 4.01, time step reduction 2 of 3 to 0.125...
- 070: dt: 0.2500, sse=1539478.4, rms=4.006 (1.092%)
- 071: dt: 0.1250, sse=1522744.8, rms=3.926 (1.995%)
- rms = 3.90, time step reduction 3 of 3 to 0.062...
- 072: dt: 0.1250, sse=1515784.1, rms=3.899 (0.697%)
- positioning took 1.0 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.area.pial
- vertex spacing 1.07 +- 0.50 (0.04-->7.03) (max @ vno 92945 --> 92946)
- face area 0.45 +- 0.39 (0.00-->8.61)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 144031 vertices processed
- 25000 of 144031 vertices processed
- 50000 of 144031 vertices processed
- 75000 of 144031 vertices processed
- 100000 of 144031 vertices processed
- 125000 of 144031 vertices processed
- 0 of 144031 vertices processed
- 25000 of 144031 vertices processed
- 50000 of 144031 vertices processed
- 75000 of 144031 vertices processed
- 100000 of 144031 vertices processed
- 125000 of 144031 vertices processed
- thickness calculation complete, 382:1619 truncations.
- 24186 vertices at 0 distance
- 87029 vertices at 1 distance
- 94564 vertices at 2 distance
- 46902 vertices at 3 distance
- 16050 vertices at 4 distance
- 4824 vertices at 5 distance
- 1635 vertices at 6 distance
- 656 vertices at 7 distance
- 300 vertices at 8 distance
- 163 vertices at 9 distance
- 104 vertices at 10 distance
- 86 vertices at 11 distance
- 63 vertices at 12 distance
- 75 vertices at 13 distance
- 44 vertices at 14 distance
- 39 vertices at 15 distance
- 31 vertices at 16 distance
- 18 vertices at 17 distance
- 9 vertices at 18 distance
- 6 vertices at 19 distance
- 8 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.thickness
- positioning took 17.1 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051201 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-6.0.0/0051201/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- 25573 bright wm thresholded.
- 247 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.orig...
- computing class statistics...
- border white: 261624 voxels (1.56%)
- border gray 313529 voxels (1.87%)
- WM (95.0): 95.3 +- 10.0 [70.0 --> 110.0]
- GM (62.0) : 62.2 +- 11.4 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 46.6 (was 70)
- setting MAX_BORDER_WHITE to 111.0 (was 105)
- setting MIN_BORDER_WHITE to 58.0 (was 85)
- setting MAX_CSF to 35.3 (was 40)
- setting MAX_GRAY to 91.0 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 46.6 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 23.9 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=101+-10.4, GM=58+-8.7
- mean inside = 90.0, mean outside = 67.0
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.91 +- 0.26 (0.04-->4.49) (max @ vno 59731 --> 60883)
- face area 0.34 +- 0.17 (0.00-->5.58)
- mean absolute distance = 0.50 +- 0.71
- 2670 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 8 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 4 with 33 points - only 0.00% unknown
- deleting segment 5 with 304 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 6 with 2 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- deleting segment 8 with 5 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 9 with 1 points - only 0.00% unknown
- deleting segment 10 with 8 points - only 0.00% unknown
- deleting segment 11 with 7 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 12 with 1 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 13 with 1 points - only 0.00% unknown
- deleting segment 14 with 15 points - only 0.00% unknown
- deleting segment 15 with 12 points - only 0.00% unknown
- mean border=72.0, 157 (157) missing vertices, mean dist 0.3 [0.6 (%13.9)->0.5 (%86.1))]
- %70 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 0.93 +- 0.27 (0.10-->4.50) (max @ vno 59731 --> 60883)
- face area 0.34 +- 0.17 (0.00-->5.36)
- mean absolute distance = 0.30 +- 0.51
- 2719 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2793962.2, rms=8.536
- 001: dt: 0.5000, sse=1499434.5, rms=5.203 (39.046%)
- 002: dt: 0.5000, sse=1287172.6, rms=4.455 (14.377%)
- rms = 4.48, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.2500, sse=1045816.2, rms=3.339 (25.050%)
- 004: dt: 0.2500, sse=963321.0, rms=2.850 (14.656%)
- 005: dt: 0.2500, sse=924340.6, rms=2.598 (8.838%)
- 006: dt: 0.2500, sse=913656.4, rms=2.522 (2.908%)
- 007: dt: 0.2500, sse=908146.1, rms=2.454 (2.715%)
- rms = 2.42, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=908346.0, rms=2.418 (1.443%)
- 009: dt: 0.1250, sse=878355.8, rms=2.248 (7.045%)
- rms = 2.22, time step reduction 3 of 3 to 0.062...
- 010: dt: 0.1250, sse=875575.8, rms=2.220 (1.243%)
- positioning took 1.2 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 8 points - only 0.00% unknown
- deleting segment 2 with 26 points - only 0.00% unknown
- deleting segment 3 with 168 points - only 0.00% unknown
- deleting segment 5 with 9 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 6 with 2 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 8 with 1 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 9 with 1 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 10 with 2 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 11 with 1 points - only 0.00% unknown
- deleting segment 12 with 15 points - only 0.00% unknown
- deleting segment 13 with 15 points - only 0.00% unknown
- mean border=75.7, 217 (71) missing vertices, mean dist -0.2 [0.3 (%73.4)->0.2 (%26.6))]
- %80 local maxima, %16 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.91 +- 0.27 (0.08-->4.66) (max @ vno 59731 --> 60883)
- face area 0.36 +- 0.18 (0.00-->6.12)
- mean absolute distance = 0.24 +- 0.38
- 3143 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1452288.4, rms=4.920
- 011: dt: 0.5000, sse=1171207.5, rms=3.771 (23.348%)
- rms = 4.20, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.2500, sse=960303.0, rms=2.610 (30.781%)
- 013: dt: 0.2500, sse=899257.0, rms=2.147 (17.738%)
- 014: dt: 0.2500, sse=876441.9, rms=1.970 (8.260%)
- rms = 1.97, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=875485.8, rms=1.965 (0.234%)
- 016: dt: 0.1250, sse=851896.1, rms=1.729 (12.037%)
- rms = 1.71, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=850114.7, rms=1.708 (1.231%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 10 points - only 0.00% unknown
- deleting segment 1 with 30 points - only 0.00% unknown
- deleting segment 2 with 189 points - only 0.00% unknown
- deleting segment 4 with 9 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 5 with 2 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 6 with 3 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 8 with 1 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 9 with 2 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 10 with 1 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 11 with 2 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 12 with 1 points - only 0.00% unknown
- deleting segment 13 with 15 points - only 0.00% unknown
- deleting segment 14 with 17 points - only 0.00% unknown
- mean border=77.9, 199 (44) missing vertices, mean dist -0.1 [0.3 (%64.5)->0.2 (%35.5))]
- %86 local maxima, %10 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.91 +- 0.27 (0.11-->4.71) (max @ vno 59731 --> 60883)
- face area 0.35 +- 0.18 (0.00-->6.21)
- mean absolute distance = 0.23 +- 0.34
- 3233 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1030208.2, rms=3.144
- rms = 3.76, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=886980.7, rms=2.188 (30.424%)
- 019: dt: 0.2500, sse=838721.4, rms=1.725 (21.134%)
- rms = 1.70, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=832705.8, rms=1.701 (1.400%)
- 021: dt: 0.1250, sse=817689.6, rms=1.530 (10.044%)
- rms = 1.52, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=818142.5, rms=1.521 (0.591%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 10 points - only 0.00% unknown
- deleting segment 1 with 30 points - only 0.00% unknown
- deleting segment 2 with 212 points - only 0.00% unknown
- deleting segment 3 with 9 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 4 with 2 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 5 with 3 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 6 with 3 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 7 with 1 points - only 0.00% unknown
- deleting segment 8 with 10 points - only 0.00% unknown
- deleting segment 9 with 10 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 10 with 1 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 11 with 1 points - only 0.00% unknown
- deleting segment 12 with 15 points - only 0.00% unknown
- deleting segment 13 with 17 points - only 0.00% unknown
- mean border=78.8, 231 (35) missing vertices, mean dist -0.0 [0.2 (%54.1)->0.2 (%45.9))]
- %88 local maxima, % 8 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=0, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing white matter surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=846182.6, rms=1.877
- rms = 2.66, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=792588.7, rms=1.292 (31.159%)
- 024: dt: 0.2500, sse=790968.2, rms=1.123 (13.099%)
- rms = 1.14, time step reduction 2 of 3 to 0.125...
- rms = 1.11, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=783082.4, rms=1.110 (1.121%)
- positioning took 0.5 minutes
- generating cortex label...
- 20 non-cortical segments detected
- only using segment with 6949 vertices
- erasing segment 1 (vno[0] = 68983)
- erasing segment 2 (vno[0] = 84054)
- erasing segment 3 (vno[0] = 86446)
- erasing segment 4 (vno[0] = 99298)
- erasing segment 5 (vno[0] = 101245)
- erasing segment 6 (vno[0] = 101259)
- erasing segment 7 (vno[0] = 103371)
- erasing segment 8 (vno[0] = 103379)
- erasing segment 9 (vno[0] = 104545)
- erasing segment 10 (vno[0] = 106575)
- erasing segment 11 (vno[0] = 106824)
- erasing segment 12 (vno[0] = 107646)
- erasing segment 13 (vno[0] = 108539)
- erasing segment 14 (vno[0] = 108630)
- erasing segment 15 (vno[0] = 108671)
- erasing segment 16 (vno[0] = 109646)
- erasing segment 17 (vno[0] = 109798)
- erasing segment 18 (vno[0] = 146318)
- erasing segment 19 (vno[0] = 146380)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.area
- vertex spacing 0.91 +- 0.27 (0.05-->4.76) (max @ vno 59731 --> 60883)
- face area 0.35 +- 0.17 (0.00-->6.13)
- 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
- removing 1 vertex label from ripped group
- deleting segment 3 with 1 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=45.4, 161 (161) missing vertices, mean dist 1.6 [0.2 (%0.0)->2.8 (%100.0))]
- %10 local maxima, %45 large gradients and %41 min vals, 514 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=33573448.0, rms=34.075
- 001: dt: 0.0500, sse=29107536.0, rms=31.673 (7.049%)
- 002: dt: 0.0500, sse=25900438.0, rms=29.829 (5.823%)
- 003: dt: 0.0500, sse=23453456.0, rms=28.341 (4.988%)
- 004: dt: 0.0500, sse=21493948.0, rms=27.090 (4.412%)
- 005: dt: 0.0500, sse=19869088.0, rms=26.008 (3.996%)
- 006: dt: 0.0500, sse=18484460.0, rms=25.048 (3.689%)
- 007: dt: 0.0500, sse=17280546.0, rms=24.183 (3.454%)
- 008: dt: 0.0500, sse=16218445.0, rms=23.393 (3.267%)
- 009: dt: 0.0500, sse=15272388.0, rms=22.666 (3.107%)
- 010: dt: 0.0500, sse=14421012.0, rms=21.991 (2.977%)
- positioning took 1.0 minutes
- mean border=45.3, 178 (103) missing vertices, mean dist 1.4 [0.4 (%0.0)->2.4 (%100.0))]
- %11 local maxima, %45 large gradients and %40 min vals, 488 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=15146998.0, rms=22.573
- 011: dt: 0.0500, sse=14370329.0, rms=21.955 (2.734%)
- 012: dt: 0.0500, sse=13663711.0, rms=21.378 (2.628%)
- 013: dt: 0.0500, sse=13018494.0, rms=20.838 (2.530%)
- 014: dt: 0.0500, sse=12426879.0, rms=20.329 (2.441%)
- 015: dt: 0.0500, sse=11883753.0, rms=19.850 (2.354%)
- 016: dt: 0.0500, sse=11384296.0, rms=19.400 (2.270%)
- 017: dt: 0.0500, sse=10924022.0, rms=18.975 (2.190%)
- 018: dt: 0.0500, sse=10499003.0, rms=18.574 (2.113%)
- 019: dt: 0.0500, sse=10105678.0, rms=18.195 (2.041%)
- 020: dt: 0.0500, sse=9743145.0, rms=17.838 (1.960%)
- positioning took 1.0 minutes
- mean border=45.2, 212 (83) missing vertices, mean dist 1.2 [0.1 (%1.2)->2.1 (%98.8))]
- %12 local maxima, %45 large gradients and %40 min vals, 458 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=9845805.0, rms=17.948
- 021: dt: 0.0500, sse=9501876.0, rms=17.605 (1.911%)
- 022: dt: 0.0500, sse=9183114.0, rms=17.281 (1.840%)
- 023: dt: 0.0500, sse=8885924.0, rms=16.973 (1.781%)
- 024: dt: 0.0500, sse=8608873.0, rms=16.681 (1.721%)
- 025: dt: 0.0500, sse=8350897.0, rms=16.404 (1.659%)
- 026: dt: 0.0500, sse=8109754.0, rms=16.141 (1.603%)
- 027: dt: 0.0500, sse=7881554.0, rms=15.888 (1.567%)
- 028: dt: 0.0500, sse=7664877.0, rms=15.644 (1.536%)
- 029: dt: 0.0500, sse=7458631.5, rms=15.408 (1.509%)
- 030: dt: 0.0500, sse=7262329.0, rms=15.180 (1.481%)
- positioning took 1.0 minutes
- mean border=45.1, 270 (74) missing vertices, mean dist 1.0 [0.1 (%8.2)->1.9 (%91.8))]
- %12 local maxima, %45 large gradients and %39 min vals, 453 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=7335363.0, rms=15.266
- 031: dt: 0.5000, sse=5929348.0, rms=13.533 (11.353%)
- 032: dt: 0.5000, sse=4959721.5, rms=12.187 (9.946%)
- 033: dt: 0.5000, sse=4237422.5, rms=11.080 (9.085%)
- 034: dt: 0.5000, sse=3706472.5, rms=10.182 (8.105%)
- 035: dt: 0.5000, sse=3303978.0, rms=9.446 (7.230%)
- 036: dt: 0.5000, sse=2986462.8, rms=8.819 (6.639%)
- 037: dt: 0.5000, sse=2730681.8, rms=8.282 (6.084%)
- 038: dt: 0.5000, sse=2527681.0, rms=7.828 (5.489%)
- 039: dt: 0.5000, sse=2369909.8, rms=7.456 (4.745%)
- 040: dt: 0.5000, sse=2243340.5, rms=7.144 (4.191%)
- 041: dt: 0.5000, sse=2136827.0, rms=6.871 (3.819%)
- 042: dt: 0.5000, sse=2055933.0, rms=6.653 (3.171%)
- 043: dt: 0.5000, sse=1991938.1, rms=6.477 (2.643%)
- 044: dt: 0.5000, sse=1946078.5, rms=6.346 (2.028%)
- 045: dt: 0.5000, sse=1908949.6, rms=6.240 (1.670%)
- 046: dt: 0.5000, sse=1881123.6, rms=6.156 (1.346%)
- 047: dt: 0.5000, sse=1857439.5, rms=6.086 (1.139%)
- 048: dt: 0.5000, sse=1837754.6, rms=6.026 (0.984%)
- rms = 5.99, time step reduction 1 of 3 to 0.250...
- 049: dt: 0.5000, sse=1824973.4, rms=5.987 (0.649%)
- 050: dt: 0.2500, sse=1751292.6, rms=5.726 (4.360%)
- 051: dt: 0.2500, sse=1726664.5, rms=5.648 (1.365%)
- rms = 5.65, time step reduction 2 of 3 to 0.125...
- rms = 5.63, time step reduction 3 of 3 to 0.062...
- 052: dt: 0.1250, sse=1721596.9, rms=5.629 (0.325%)
- positioning took 3.2 minutes
- mean border=44.1, 2785 (36) missing vertices, mean dist 0.2 [0.2 (%46.3)->0.8 (%53.7))]
- %23 local maxima, %35 large gradients and %37 min vals, 237 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=1990620.4, rms=5.667
- 053: dt: 0.5000, sse=1856977.5, rms=5.239 (7.544%)
- 054: dt: 0.5000, sse=1792457.1, rms=5.047 (3.661%)
- 055: dt: 0.5000, sse=1773031.9, rms=4.984 (1.247%)
- 056: dt: 0.5000, sse=1739624.0, rms=4.877 (2.156%)
- rms = 4.86, time step reduction 1 of 3 to 0.250...
- 057: dt: 0.5000, sse=1736604.9, rms=4.865 (0.255%)
- 058: dt: 0.2500, sse=1636759.9, rms=4.422 (9.100%)
- 059: dt: 0.2500, sse=1605202.4, rms=4.294 (2.888%)
- rms = 4.29, time step reduction 2 of 3 to 0.125...
- 060: dt: 0.2500, sse=1603961.6, rms=4.286 (0.202%)
- 061: dt: 0.1250, sse=1586484.5, rms=4.204 (1.891%)
- rms = 4.19, time step reduction 3 of 3 to 0.062...
- 062: dt: 0.1250, sse=1582149.2, rms=4.187 (0.418%)
- positioning took 1.8 minutes
- mean border=43.2, 3147 (20) missing vertices, mean dist 0.1 [0.2 (%46.0)->0.6 (%54.0))]
- %36 local maxima, %22 large gradients and %36 min vals, 295 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=1679529.4, rms=4.482
- rms = 4.61, time step reduction 1 of 3 to 0.250...
- 063: dt: 0.2500, sse=1643591.9, rms=4.331 (3.374%)
- 064: dt: 0.2500, sse=1625273.6, rms=4.258 (1.694%)
- rms = 4.23, time step reduction 2 of 3 to 0.125...
- 065: dt: 0.2500, sse=1616927.2, rms=4.231 (0.625%)
- 066: dt: 0.1250, sse=1601033.9, rms=4.158 (1.721%)
- rms = 4.14, time step reduction 3 of 3 to 0.062...
- 067: dt: 0.1250, sse=1595203.5, rms=4.136 (0.532%)
- positioning took 1.1 minutes
- mean border=42.5, 5772 (18) missing vertices, mean dist 0.1 [0.2 (%46.5)->0.4 (%53.5))]
- %39 local maxima, %18 large gradients and %35 min vals, 292 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-6.0.0/0051201/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1622157.4, rms=4.237
- rms = 4.37, time step reduction 1 of 3 to 0.250...
- 068: dt: 0.2500, sse=1600186.0, rms=4.142 (2.232%)
- 069: dt: 0.2500, sse=1580006.1, rms=4.072 (1.688%)
- rms = 4.03, time step reduction 2 of 3 to 0.125...
- 070: dt: 0.2500, sse=1568487.9, rms=4.033 (0.958%)
- 071: dt: 0.1250, sse=1550889.5, rms=3.952 (2.021%)
- rms = 3.93, time step reduction 3 of 3 to 0.062...
- 072: dt: 0.1250, sse=1544126.8, rms=3.926 (0.649%)
- positioning took 1.1 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.area.pial
- vertex spacing 1.06 +- 0.49 (0.05-->7.69) (max @ vno 98001 --> 96846)
- face area 0.45 +- 0.38 (0.00-->7.21)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 147117 vertices processed
- 25000 of 147117 vertices processed
- 50000 of 147117 vertices processed
- 75000 of 147117 vertices processed
- 100000 of 147117 vertices processed
- 125000 of 147117 vertices processed
- 0 of 147117 vertices processed
- 25000 of 147117 vertices processed
- 50000 of 147117 vertices processed
- 75000 of 147117 vertices processed
- 100000 of 147117 vertices processed
- 125000 of 147117 vertices processed
- thickness calculation complete, 622:2041 truncations.
- 24831 vertices at 0 distance
- 86912 vertices at 1 distance
- 95921 vertices at 2 distance
- 48487 vertices at 3 distance
- 17120 vertices at 4 distance
- 5633 vertices at 5 distance
- 2134 vertices at 6 distance
- 937 vertices at 7 distance
- 348 vertices at 8 distance
- 214 vertices at 9 distance
- 137 vertices at 10 distance
- 107 vertices at 11 distance
- 80 vertices at 12 distance
- 56 vertices at 13 distance
- 52 vertices at 14 distance
- 35 vertices at 15 distance
- 32 vertices at 16 distance
- 29 vertices at 17 distance
- 27 vertices at 18 distance
- 23 vertices at 19 distance
- 47 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.thickness
- positioning took 17.6 minutes
- PIDs (14494 14497) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Sun Oct 8 05:45:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 0051201 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/lh.cortex.label
- Total face volume 293709
- Total vertex volume 289215 (mask=0)
- #@# 0051201 lh 289215
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Sun Oct 8 05:45:12 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 0051201 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/rh.cortex.label
- Total face volume 302980
- Total vertex volume 298887 (mask=0)
- #@# 0051201 rh 298887
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Sun Oct 8 05:45:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 0051201
- 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 = 403
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/ribbon.mgz
- mris_volmask took 17.50 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Sun Oct 8 06:02:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 0051201 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 0051201 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Sun Oct 8 06:02:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 0051201 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 0051201 rh pial
- Waiting for PID 18165 of (18165 18168 18171 18174) to complete...
- Waiting for PID 18168 of (18165 18168 18171 18174) to complete...
- Waiting for PID 18171 of (18165 18168 18171 18174) to complete...
- Waiting for PID 18174 of (18165 18168 18171 18174) 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 0051201 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 293709
- Total vertex volume 289215 (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) = 1572354 mm^3 (det: 1.238974 )
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 1576 1153 3053 2.591 0.428 0.106 0.023 12 1.4 bankssts
- 1173 787 2452 2.590 0.730 0.136 0.029 18 1.3 caudalanteriorcingulate
- 3901 2693 8017 2.537 0.606 0.128 0.038 49 6.4 caudalmiddlefrontal
- 2118 1458 3449 2.248 0.449 0.153 0.037 33 3.1 cuneus
- 594 378 2433 3.777 0.847 0.122 0.050 9 1.1 entorhinal
- 4913 3379 10741 2.718 0.643 0.129 0.033 72 6.4 fusiform
- 7856 5602 16301 2.432 0.667 0.138 0.038 128 12.1 inferiorparietal
- 5098 3674 13019 2.719 0.727 0.146 0.047 106 10.1 inferiortemporal
- 2282 1496 4506 2.587 0.861 0.122 0.034 33 2.5 isthmuscingulate
- 9187 6475 17593 2.474 0.581 0.151 0.037 143 14.0 lateraloccipital
- 4540 3174 9934 2.633 0.690 0.144 0.049 82 9.3 lateralorbitofrontal
- 4967 3526 8407 2.247 0.578 0.155 0.042 87 8.6 lingual
- 2955 2090 5663 2.472 0.677 0.118 0.030 40 3.3 medialorbitofrontal
- 5174 3686 13719 2.800 0.697 0.140 0.041 98 9.1 middletemporal
- 1085 720 2161 2.531 0.610 0.099 0.027 9 1.2 parahippocampal
- 2226 1544 4234 2.468 0.581 0.119 0.028 22 2.4 paracentral
- 1839 1271 4245 2.659 0.613 0.118 0.027 18 2.1 parsopercularis
- 912 635 2661 2.812 0.736 0.154 0.055 20 2.2 parsorbitalis
- 1900 1333 4611 2.680 0.704 0.124 0.031 22 2.5 parstriangularis
- 2151 1559 3055 1.984 0.452 0.152 0.043 29 4.1 pericalcarine
- 6108 4155 10274 2.130 0.716 0.120 0.034 78 8.8 postcentral
- 2177 1510 4823 2.766 0.797 0.148 0.037 41 2.8 posteriorcingulate
- 7755 5218 15493 2.608 0.610 0.123 0.036 79 11.0 precentral
- 6203 4351 12519 2.529 0.597 0.136 0.031 93 7.5 precuneus
- 1386 992 3779 3.094 0.917 0.152 0.052 32 3.0 rostralanteriorcingulate
- 8162 5730 17457 2.452 0.612 0.151 0.051 162 18.1 rostralmiddlefrontal
- 11475 8056 27219 2.768 0.648 0.131 0.038 140 17.6 superiorfrontal
- 8106 5474 14640 2.274 0.612 0.129 0.031 103 9.8 superiorparietal
- 6203 4288 14785 2.856 0.744 0.119 0.032 76 8.8 superiortemporal
- 6630 4694 15242 2.603 0.721 0.142 0.041 104 11.1 supramarginal
- 355 264 1138 2.576 0.795 0.184 0.076 11 1.1 frontalpole
- 673 483 2444 3.530 0.801 0.135 0.048 11 1.2 temporalpole
- 717 446 1224 2.500 0.360 0.128 0.033 8 0.9 transversetemporal
- 3858 2616 7897 3.016 0.757 0.134 0.045 58 6.9 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 0051201 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 293709
- Total vertex volume 289215 (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) = 1572354 mm^3 (det: 1.238974 )
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 1576 1172 3053 2.591 0.428 0.149 0.041 23 3.0 bankssts
- 1173 1051 2452 2.590 0.730 0.191 0.057 75 2.5 caudalanteriorcingulate
- 3901 3502 8017 2.537 0.606 0.169 0.047 62 8.2 caudalmiddlefrontal
- 2118 1683 3449 2.248 0.449 0.156 0.042 33 4.1 cuneus
- 594 837 2433 3.777 0.847 0.218 0.058 10 1.5 entorhinal
- 4913 4492 10741 2.718 0.643 0.176 0.048 86 10.8 fusiform
- 7856 7551 16301 2.432 0.667 0.179 0.045 122 16.8 inferiorparietal
- 5098 5685 13019 2.719 0.727 0.210 0.055 105 13.5 inferiortemporal
- 2282 1946 4506 2.587 0.861 0.162 0.044 45 4.1 isthmuscingulate
- 9187 7867 17593 2.474 0.581 0.157 0.041 158 16.9 lateraloccipital
- 4540 4120 9934 2.633 0.690 0.177 0.051 102 10.5 lateralorbitofrontal
- 4967 4216 8407 2.247 0.578 0.164 0.045 89 9.7 lingual
- 2955 2608 5663 2.472 0.677 0.154 0.040 43 5.2 medialorbitofrontal
- 5174 5743 13719 2.800 0.697 0.204 0.049 82 12.7 middletemporal
- 1085 997 2161 2.531 0.610 0.166 0.040 11 2.3 parahippocampal
- 2226 1880 4234 2.468 0.581 0.162 0.045 37 4.7 paracentral
- 1839 1894 4245 2.659 0.613 0.178 0.045 25 3.8 parsopercularis
- 912 1170 2661 2.812 0.736 0.226 0.052 15 2.4 parsorbitalis
- 1900 2004 4611 2.680 0.704 0.188 0.045 25 4.1 parstriangularis
- 2151 1503 3055 1.984 0.452 0.158 0.040 39 3.8 pericalcarine
- 6108 5481 10274 2.130 0.716 0.158 0.038 64 10.8 postcentral
- 2177 1887 4823 2.766 0.797 0.169 0.045 53 4.2 posteriorcingulate
- 7755 6229 15493 2.608 0.610 0.143 0.039 116 14.1 precentral
- 6203 5324 12519 2.529 0.597 0.159 0.041 107 10.9 precuneus
- 1386 1454 3779 3.094 0.917 0.204 0.059 39 3.6 rostralanteriorcingulate
- 8162 8190 17457 2.452 0.612 0.203 0.057 154 22.6 rostralmiddlefrontal
- 11475 11041 27219 2.768 0.648 0.174 0.047 174 24.8 superiorfrontal
- 8106 7041 14640 2.274 0.612 0.163 0.043 149 17.1 superiorparietal
- 6203 5793 14785 2.856 0.744 0.171 0.043 95 12.8 superiortemporal
- 6630 6617 15242 2.603 0.721 0.183 0.045 96 14.2 supramarginal
- 355 572 1138 2.576 0.795 0.268 0.061 4 1.2 frontalpole
- 673 897 2444 3.530 0.801 0.209 0.044 10 1.4 temporalpole
- 717 577 1224 2.500 0.360 0.138 0.036 7 1.2 transversetemporal
- 3858 2637 7897 3.016 0.757 0.154 0.103 152 23.3 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 0051201 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 302980
- Total vertex volume 298887 (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) = 1572354 mm^3 (det: 1.238974 )
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 1893 1342 3694 2.669 0.492 0.122 0.026 18 2.0 bankssts
- 1015 680 2431 2.676 0.937 0.125 0.031 12 1.2 caudalanteriorcingulate
- 3098 2126 6950 2.692 0.528 0.128 0.035 40 4.1 caudalmiddlefrontal
- 2534 1708 4179 2.231 0.533 0.157 0.045 41 4.6 cuneus
- 508 340 2010 3.642 0.746 0.116 0.069 7 0.7 entorhinal
- 4345 3038 10674 3.038 0.769 0.139 0.039 66 6.6 fusiform
- 7904 5462 16271 2.471 0.626 0.128 0.035 110 11.4 inferiorparietal
- 5789 4067 15002 2.920 0.745 0.123 0.030 82 7.0 inferiortemporal
- 1826 1220 3657 2.504 0.919 0.125 0.030 29 2.2 isthmuscingulate
- 8844 6087 15965 2.313 0.572 0.146 0.040 144 13.8 lateraloccipital
- 3847 2714 8641 2.813 0.734 0.151 0.046 72 7.6 lateralorbitofrontal
- 4876 3534 9147 2.309 0.657 0.154 0.045 96 9.0 lingual
- 3322 2345 7084 2.468 0.641 0.136 0.045 63 5.0 medialorbitofrontal
- 6888 4813 18446 3.002 0.704 0.131 0.038 159 11.2 middletemporal
- 1080 716 2327 2.782 0.662 0.096 0.025 8 0.9 parahippocampal
- 2487 1622 4839 2.705 0.651 0.105 0.025 18 2.6 paracentral
- 1925 1334 4355 2.803 0.519 0.133 0.041 33 3.4 parsopercularis
- 1237 870 3242 2.818 0.701 0.161 0.059 31 3.3 parsorbitalis
- 2273 1669 5366 2.645 0.529 0.148 0.044 51 4.1 parstriangularis
- 2365 1706 3322 2.111 0.540 0.140 0.035 30 3.4 pericalcarine
- 6538 4533 11347 2.193 0.636 0.125 0.034 87 9.3 postcentral
- 2271 1545 4987 2.758 0.825 0.138 0.031 39 2.9 posteriorcingulate
- 7742 5244 15421 2.653 0.551 0.116 0.033 92 11.4 precentral
- 6847 4725 13498 2.610 0.642 0.135 0.034 103 9.3 precuneus
- 780 526 1688 2.720 0.842 0.122 0.032 8 0.9 rostralanteriorcingulate
- 9738 6819 20006 2.448 0.589 0.145 0.047 192 20.5 rostralmiddlefrontal
- 11145 7824 26266 2.722 0.707 0.136 0.041 170 18.7 superiorfrontal
- 7594 5155 15174 2.446 0.666 0.136 0.037 105 11.0 superiorparietal
- 6397 4313 14293 2.930 0.638 0.107 0.025 61 6.4 superiortemporal
- 6625 4679 14837 2.720 0.580 0.138 0.037 112 10.4 supramarginal
- 441 309 1292 2.763 0.787 0.167 0.055 10 1.0 frontalpole
- 659 470 2484 3.593 0.955 0.136 0.046 9 1.1 temporalpole
- 565 368 917 2.461 0.485 0.146 0.040 8 0.7 transversetemporal
- 4191 2803 9062 3.111 0.779 0.132 0.054 83 8.6 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.pial.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 0051201 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 302980
- Total vertex volume 298887 (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) = 1572354 mm^3 (det: 1.238974 )
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 1893 1357 3694 2.669 0.492 0.155 0.047 34 4.2 bankssts
- 1015 988 2431 2.676 0.937 0.184 0.047 17 2.2 caudalanteriorcingulate
- 3098 2916 6950 2.692 0.528 0.164 0.041 46 6.0 caudalmiddlefrontal
- 2534 2151 4179 2.231 0.533 0.168 0.053 39 5.8 cuneus
- 508 728 2010 3.642 0.746 0.224 0.059 9 1.2 entorhinal
- 4345 3880 10674 3.038 0.769 0.173 0.050 91 9.7 fusiform
- 7904 7439 16271 2.471 0.626 0.173 0.042 106 15.9 inferiorparietal
- 5789 5892 15002 2.920 0.745 0.179 0.045 96 12.3 inferiortemporal
- 1826 1610 3657 2.504 0.919 0.153 0.042 26 3.4 isthmuscingulate
- 8844 7655 15965 2.313 0.572 0.161 0.041 152 16.8 lateraloccipital
- 3847 3350 8641 2.813 0.734 0.185 0.063 95 11.2 lateralorbitofrontal
- 4876 4535 9147 2.309 0.657 0.175 0.044 92 10.1 lingual
- 3322 3221 7084 2.468 0.641 0.180 0.049 52 7.6 medialorbitofrontal
- 6888 7225 18446 3.002 0.704 0.181 0.046 107 15.4 middletemporal
- 1080 968 2327 2.782 0.662 0.144 0.034 10 1.7 parahippocampal
- 2487 1926 4839 2.705 0.651 0.139 0.037 30 4.3 paracentral
- 1925 1742 4355 2.803 0.519 0.165 0.040 30 3.3 parsopercularis
- 1237 1426 3242 2.818 0.701 0.204 0.049 19 2.9 parsorbitalis
- 2273 2356 5366 2.645 0.529 0.199 0.055 51 5.8 parstriangularis
- 2365 1562 3322 2.111 0.540 0.140 0.038 47 3.7 pericalcarine
- 6538 5776 11347 2.193 0.636 0.152 0.035 83 10.2 postcentral
- 2271 1968 4987 2.758 0.825 0.176 0.049 61 5.1 posteriorcingulate
- 7742 6164 15421 2.653 0.551 0.137 0.036 113 12.7 precentral
- 6847 5583 13498 2.610 0.642 0.158 0.043 113 13.2 precuneus
- 780 683 1688 2.720 0.842 0.166 0.045 11 1.4 rostralanteriorcingulate
- 9738 9385 20006 2.448 0.589 0.189 0.052 155 23.8 rostralmiddlefrontal
- 11145 10885 26266 2.722 0.707 0.185 0.051 193 27.3 superiorfrontal
- 7594 6979 15174 2.446 0.666 0.176 0.047 135 16.9 superiorparietal
- 6397 5396 14293 2.930 0.638 0.147 0.034 84 10.2 superiortemporal
- 6625 6124 14837 2.720 0.580 0.171 0.043 104 13.1 supramarginal
- 441 641 1292 2.763 0.787 0.248 0.060 7 1.2 frontalpole
- 659 891 2484 3.593 0.955 0.201 0.047 12 1.3 temporalpole
- 565 397 917 2.461 0.485 0.127 0.037 5 0.9 transversetemporal
- 4191 2817 9062 3.111 0.779 0.147 0.052 101 8.7 insula
- PIDs (18165 18168 18171 18174) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Sun Oct 8 06:04:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051201 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 06:04:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051201 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 18695 of (18695 18698) to complete...
- Waiting for PID 18698 of (18695 18698) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051201 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...
- 4 labels changed using aseg
- relabeling using gibbs priors...
- 000: 9599 changed, 144031 examined...
- 001: 2212 changed, 37119 examined...
- 002: 681 changed, 11667 examined...
- 003: 277 changed, 3841 examined...
- 004: 130 changed, 1539 examined...
- 005: 72 changed, 726 examined...
- 006: 33 changed, 412 examined...
- 007: 16 changed, 187 examined...
- 008: 10 changed, 76 examined...
- 009: 7 changed, 58 examined...
- 010: 5 changed, 32 examined...
- 011: 4 changed, 22 examined...
- 012: 3 changed, 19 examined...
- 013: 1 changed, 18 examined...
- 014: 1 changed, 7 examined...
- 015: 1 changed, 7 examined...
- 016: 0 changed, 7 examined...
- 0 labels changed using aseg
- 000: 262 total segments, 179 labels (2089 vertices) changed
- 001: 89 total segments, 9 labels (23 vertices) changed
- 002: 80 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 52 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1127 vertices marked for relabeling...
- 1127 labels changed in reclassification.
- writing output to ../label/lh.aparc.a2009s.annot...
- classification took 0 minutes and 35 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051201 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...
- 1 labels changed using aseg
- relabeling using gibbs priors...
- 000: 9583 changed, 147117 examined...
- 001: 2173 changed, 37445 examined...
- 002: 646 changed, 11429 examined...
- 003: 248 changed, 3677 examined...
- 004: 128 changed, 1444 examined...
- 005: 69 changed, 715 examined...
- 006: 31 changed, 414 examined...
- 007: 14 changed, 191 examined...
- 008: 1 changed, 70 examined...
- 009: 0 changed, 10 examined...
- 1 labels changed using aseg
- 000: 260 total segments, 176 labels (2646 vertices) changed
- 001: 93 total segments, 9 labels (71 vertices) changed
- 002: 84 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 41 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1445 vertices marked for relabeling...
- 1445 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 35 seconds.
- PIDs (18695 18698) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Sun Oct 8 06:04:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 0051201 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Sun Oct 8 06:04:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 0051201 rh white
- Waiting for PID 18828 of (18828 18831) to complete...
- Waiting for PID 18831 of (18828 18831) 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 0051201 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 293709
- Total vertex volume 289215 (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) = 1572354 mm^3 (det: 1.238974 )
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 997 726 1983 2.153 0.656 0.164 0.059 28 2.5 G&S_frontomargin
- 1848 1278 3663 2.487 0.591 0.133 0.027 27 1.9 G&S_occipital_inf
- 1734 1184 3629 2.382 0.629 0.133 0.045 28 3.0 G&S_paracentral
- 1419 1010 3758 3.035 0.800 0.147 0.044 21 2.7 G&S_subcentral
- 569 419 1690 2.641 0.674 0.154 0.057 11 1.3 G&S_transv_frontopol
- 2540 1823 5747 2.778 0.791 0.139 0.042 44 4.6 G&S_cingul-Ant
- 1363 951 2760 2.707 0.573 0.105 0.020 10 1.1 G&S_cingul-Mid-Ant
- 1662 1148 3477 2.708 0.565 0.143 0.039 30 2.2 G&S_cingul-Mid-Post
- 844 607 2772 3.226 0.634 0.166 0.050 20 1.5 G_cingul-Post-dorsal
- 403 254 894 2.824 0.700 0.113 0.032 5 0.5 G_cingul-Post-ventral
- 1958 1372 3357 2.155 0.472 0.162 0.045 35 3.8 G_cuneus
- 1101 785 3468 2.989 0.561 0.142 0.038 19 1.7 G_front_inf-Opercular
- 338 233 1190 3.183 0.509 0.147 0.045 7 0.6 G_front_inf-Orbital
- 1059 767 3471 3.036 0.648 0.147 0.039 17 1.7 G_front_inf-Triangul
- 5058 3514 13593 2.673 0.626 0.161 0.061 123 13.3 G_front_middle
- 7893 5537 20983 2.870 0.682 0.146 0.045 129 14.7 G_front_sup
- 861 600 2089 3.014 0.855 0.156 0.057 18 2.0 G_Ins_lg&S_cent_ins
- 988 680 2964 3.294 0.788 0.150 0.056 21 2.4 G_insular_short
- 2891 2089 7409 2.770 0.595 0.160 0.045 60 5.3 G_occipital_middle
- 1284 852 2721 2.365 0.656 0.149 0.035 21 1.8 G_occipital_sup
- 2194 1512 5745 2.850 0.619 0.145 0.041 49 3.5 G_oc-temp_lat-fusifor
- 3048 2179 5559 2.179 0.654 0.174 0.053 65 6.8 G_oc-temp_med-Lingual
- 1142 750 3344 3.096 0.930 0.108 0.034 10 1.4 G_oc-temp_med-Parahip
- 2758 1903 7477 2.730 0.773 0.177 0.077 87 9.4 G_orbital
- 3200 2313 8310 2.578 0.760 0.164 0.057 78 7.1 G_pariet_inf-Angular
- 2932 2080 7732 2.691 0.743 0.145 0.045 56 5.0 G_pariet_inf-Supramar
- 3467 2343 7736 2.430 0.684 0.138 0.037 57 5.0 G_parietal_sup
- 2255 1512 4003 2.066 0.583 0.137 0.041 39 3.9 G_postcentral
- 3020 2049 7500 2.752 0.653 0.129 0.042 38 4.7 G_precentral
- 2989 2120 7640 2.672 0.637 0.151 0.034 59 4.1 G_precuneus
- 887 670 2318 2.558 0.745 0.143 0.046 17 1.5 G_rectus
- 510 317 923 2.870 0.885 0.100 0.036 5 0.4 G_subcallosal
- 533 314 995 2.504 0.363 0.128 0.037 7 0.8 G_temp_sup-G_T_transv
- 2012 1450 7164 3.119 0.744 0.152 0.046 44 3.7 G_temp_sup-Lateral
- 1136 763 3219 3.447 0.828 0.088 0.020 5 1.0 G_temp_sup-Plan_polar
- 1074 784 2808 2.749 0.676 0.134 0.035 16 1.6 G_temp_sup-Plan_tempo
- 3092 2216 8727 2.753 0.757 0.164 0.060 91 7.7 G_temporal_inf
- 2910 2072 9270 2.988 0.698 0.155 0.047 68 5.8 G_temporal_middle
- 336 216 425 2.198 0.389 0.088 0.019 1 0.3 Lat_Fis-ant-Horizont
- 282 210 407 2.185 0.429 0.089 0.015 1 0.1 Lat_Fis-ant-Vertical
- 1002 674 1474 2.790 0.590 0.111 0.023 6 1.0 Lat_Fis-post
- 2579 1910 5401 2.523 0.650 0.178 0.048 51 5.2 Pole_occipital
- 1530 1145 5662 3.330 0.872 0.170 0.061 33 4.0 Pole_temporal
- 2700 1931 3638 2.123 0.490 0.129 0.032 30 3.4 S_calcarine
- 3065 2066 3659 1.991 0.428 0.105 0.023 18 3.0 S_central
- 1434 989 2427 2.617 0.629 0.108 0.022 10 1.2 S_cingul-Marginalis
- 554 353 842 2.857 0.694 0.096 0.025 3 0.5 S_circular_insula_ant
- 1351 891 1999 2.759 0.600 0.091 0.020 5 1.2 S_circular_insula_inf
- 1508 1001 2180 2.628 0.435 0.102 0.023 9 1.5 S_circular_insula_sup
- 674 465 1253 2.676 0.536 0.125 0.036 7 1.0 S_collat_transv_ant
- 808 537 1306 2.330 0.748 0.140 0.033 11 1.1 S_collat_transv_post
- 1842 1275 2757 2.239 0.497 0.116 0.028 12 2.0 S_front_inf
- 1655 1152 2405 2.352 0.503 0.129 0.034 14 2.4 S_front_middle
- 3328 2329 6226 2.454 0.525 0.109 0.024 21 3.3 S_front_sup
- 551 381 918 2.112 0.578 0.134 0.031 5 0.8 S_interm_prim-Jensen
- 3075 2093 4326 2.202 0.478 0.103 0.020 18 2.6 S_intrapariet&P_trans
- 1732 1207 2346 2.214 0.420 0.132 0.027 15 2.1 S_oc_middle&Lunatus
- 1281 885 1669 2.134 0.375 0.128 0.028 14 1.5 S_oc_sup&transversal
- 821 582 1220 2.392 0.427 0.128 0.028 7 1.0 S_occipital_ant
- 976 703 1863 2.563 0.555 0.098 0.018 5 0.7 S_oc-temp_lat
- 2610 1795 3991 2.387 0.416 0.112 0.022 22 2.2 S_oc-temp_med&Lingual
- 452 326 693 2.296 0.508 0.144 0.036 5 0.8 S_orbital_lateral
- 845 607 1289 2.393 0.634 0.115 0.022 6 0.8 S_orbital_med-olfact
- 1690 1210 3344 2.566 0.574 0.129 0.033 20 2.2 S_orbital-H_Shaped
- 2111 1419 3183 2.382 0.547 0.125 0.023 22 2.2 S_parieto_occipital
- 1809 1117 2181 2.051 0.856 0.119 0.025 27 1.2 S_pericallosal
- 3145 2146 4167 2.128 0.507 0.124 0.031 31 4.0 S_postcentral
- 1566 1084 2749 2.558 0.565 0.105 0.027 11 1.7 S_precentral-inf-part
- 1693 1156 2783 2.599 0.556 0.111 0.022 10 1.7 S_precentral-sup-part
- 766 518 1154 2.352 0.632 0.090 0.013 4 0.5 S_suborbital
- 1508 1033 2381 2.404 0.483 0.123 0.027 16 1.8 S_subparietal
- 1757 1205 2748 2.524 0.621 0.108 0.027 19 2.0 S_temporal_inf
- 6617 4671 11487 2.446 0.527 0.116 0.029 66 8.6 S_temporal_sup
- 418 301 571 2.191 0.439 0.128 0.017 3 0.3 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 0051201 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 302980
- Total vertex volume 298887 (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) = 1572354 mm^3 (det: 1.238974 )
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 776 557 1525 2.335 0.552 0.145 0.036 12 1.3 G&S_frontomargin
- 1570 1099 3382 2.524 0.640 0.146 0.038 26 2.7 G&S_occipital_inf
- 1627 1014 3015 2.354 0.758 0.127 0.049 24 3.3 G&S_paracentral
- 1700 1229 4010 2.696 0.508 0.148 0.039 32 3.0 G&S_subcentral
- 1192 866 2590 2.216 0.560 0.176 0.071 47 4.4 G&S_transv_frontopol
- 3372 2366 6897 2.553 0.675 0.125 0.035 42 4.5 G&S_cingul-Ant
- 1390 981 3273 2.892 0.636 0.114 0.025 12 1.4 G&S_cingul-Mid-Ant
- 1690 1155 3547 2.827 0.510 0.119 0.026 21 1.9 G&S_cingul-Mid-Post
- 794 548 2737 3.381 0.707 0.162 0.042 18 1.3 G_cingul-Post-dorsal
- 407 261 1190 3.132 0.769 0.145 0.044 7 0.8 G_cingul-Post-ventral
- 2374 1627 3821 2.120 0.546 0.163 0.047 42 4.4 G_cuneus
- 1395 1013 4131 3.027 0.485 0.155 0.051 33 3.2 G_front_inf-Opercular
- 380 282 1129 2.696 0.639 0.150 0.043 7 0.6 G_front_inf-Orbital
- 1075 793 3073 2.736 0.548 0.179 0.063 46 2.9 G_front_inf-Triangul
- 5225 3578 13936 2.715 0.613 0.164 0.062 140 13.7 G_front_middle
- 7195 4998 19879 2.907 0.738 0.148 0.048 130 13.5 G_front_sup
- 1155 782 2668 3.183 0.995 0.147 0.073 41 3.9 G_Ins_lg&S_cent_ins
- 751 516 2386 3.356 0.774 0.167 0.087 21 2.0 G_insular_short
- 2688 1856 6247 2.520 0.649 0.154 0.046 55 4.5 G_occipital_middle
- 1429 971 3234 2.554 0.631 0.156 0.046 27 2.5 G_occipital_sup
- 1827 1255 5816 3.342 0.839 0.154 0.045 41 3.2 G_oc-temp_lat-fusifor
- 3111 2289 6352 2.267 0.680 0.170 0.054 78 6.9 G_oc-temp_med-Lingual
- 1011 662 3080 3.215 0.839 0.112 0.048 11 1.2 G_oc-temp_med-Parahip
- 2761 1965 7962 2.889 0.744 0.169 0.064 76 7.6 G_orbital
- 3653 2493 8738 2.533 0.677 0.151 0.047 77 7.3 G_pariet_inf-Angular
- 3535 2542 9502 2.846 0.561 0.150 0.044 80 6.6 G_pariet_inf-Supramar
- 2597 1752 6841 2.716 0.734 0.145 0.044 43 4.0 G_parietal_sup
- 2340 1570 4312 2.130 0.546 0.136 0.043 37 4.3 G_postcentral
- 2666 1751 6759 2.841 0.599 0.124 0.045 51 5.2 G_precentral
- 3243 2216 7740 2.648 0.691 0.154 0.044 70 5.7 G_precuneus
- 1005 685 2581 2.492 0.723 0.155 0.068 26 2.1 G_rectus
- 526 295 886 2.669 0.703 0.117 0.061 11 1.0 G_subcallosal
- 453 296 815 2.354 0.424 0.146 0.044 7 0.7 G_temp_sup-G_T_transv
- 2295 1511 6544 3.097 0.599 0.134 0.037 42 3.2 G_temp_sup-Lateral
- 918 624 2554 3.590 0.920 0.108 0.034 7 1.3 G_temp_sup-Plan_polar
- 1014 718 2271 2.879 0.666 0.102 0.023 9 0.8 G_temp_sup-Plan_tempo
- 3168 2249 9789 3.027 0.768 0.135 0.034 62 4.3 G_temporal_inf
- 4000 2860 12948 3.175 0.733 0.151 0.049 137 8.4 G_temporal_middle
- 354 243 518 2.643 0.416 0.109 0.020 2 0.3 Lat_Fis-ant-Horizont
- 297 220 469 2.343 0.311 0.104 0.016 1 0.2 Lat_Fis-ant-Vertical
- 1473 983 2182 2.675 0.415 0.107 0.024 10 1.3 Lat_Fis-post
- 3907 2760 6939 2.162 0.593 0.165 0.051 76 7.6 Pole_occipital
- 1968 1408 7200 3.259 0.939 0.154 0.057 35 4.5 Pole_temporal
- 2640 1835 3950 2.457 0.714 0.120 0.027 27 3.0 S_calcarine
- 2931 1985 3459 2.023 0.527 0.093 0.023 15 3.2 S_central
- 1511 1024 2400 2.509 0.583 0.100 0.019 9 1.2 S_cingul-Marginalis
- 513 344 849 2.799 0.601 0.094 0.024 2 0.4 S_circular_insula_ant
- 1462 957 2233 2.818 0.641 0.087 0.018 5 1.1 S_circular_insula_inf
- 1292 912 2124 2.897 0.411 0.113 0.024 6 1.3 S_circular_insula_sup
- 902 642 1877 3.238 0.472 0.102 0.025 4 0.8 S_collat_transv_ant
- 675 467 859 2.195 0.445 0.128 0.034 7 0.9 S_collat_transv_post
- 2052 1412 3213 2.350 0.420 0.111 0.023 17 2.0 S_front_inf
- 2840 2025 4627 2.311 0.514 0.117 0.027 25 3.1 S_front_middle
- 2364 1675 4045 2.435 0.507 0.112 0.030 17 2.7 S_front_sup
- 580 409 1018 2.320 0.436 0.125 0.033 5 0.9 S_interm_prim-Jensen
- 3058 2100 4344 2.228 0.463 0.113 0.022 22 2.9 S_intrapariet&P_trans
- 1099 762 1333 2.063 0.374 0.130 0.027 9 1.3 S_oc_middle&Lunatus
- 1159 813 1923 2.362 0.424 0.125 0.024 12 1.1 S_oc_sup&transversal
- 965 671 1403 2.318 0.409 0.106 0.023 6 0.7 S_occipital_ant
- 1239 866 1927 2.478 0.410 0.104 0.019 8 0.9 S_oc-temp_lat
- 2168 1514 3562 2.613 0.539 0.111 0.021 17 2.0 S_oc-temp_med&Lingual
- 593 426 965 2.129 0.528 0.131 0.039 8 1.0 S_orbital_lateral
- 800 566 1276 2.473 0.632 0.111 0.019 5 0.7 S_orbital_med-olfact
- 1464 1037 3064 2.982 0.683 0.145 0.038 23 2.6 S_orbital-H_Shaped
- 2383 1610 3776 2.477 0.567 0.117 0.025 22 2.4 S_parieto_occipital
- 1628 1043 1605 1.787 0.683 0.117 0.021 21 1.2 S_pericallosal
- 2729 1947 4195 2.434 0.524 0.123 0.025 27 2.8 S_postcentral
- 1329 914 2199 2.651 0.410 0.101 0.019 8 1.1 S_precentral-inf-part
- 1872 1265 2866 2.629 0.508 0.116 0.022 13 1.7 S_precentral-sup-part
- 392 323 763 2.566 0.596 0.145 0.022 4 0.4 S_suborbital
- 1492 1059 2498 2.509 0.437 0.119 0.025 14 1.6 S_subparietal
- 2013 1326 2925 2.590 0.473 0.087 0.014 7 1.2 S_temporal_inf
- 6875 4748 11702 2.619 0.487 0.107 0.022 48 6.4 S_temporal_sup
- 269 195 442 3.049 0.605 0.129 0.018 2 0.2 S_temporal_transverse
- PIDs (18828 18831) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Sun Oct 8 06:05:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051201 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 06:05:34 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051201 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 19007 of (19007 19010) to complete...
- Waiting for PID 19010 of (19007 19010) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051201 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...
- 1320 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2074 changed, 144031 examined...
- 001: 477 changed, 9661 examined...
- 002: 124 changed, 2764 examined...
- 003: 58 changed, 757 examined...
- 004: 23 changed, 342 examined...
- 005: 13 changed, 124 examined...
- 006: 10 changed, 74 examined...
- 007: 4 changed, 47 examined...
- 008: 0 changed, 22 examined...
- 142 labels changed using aseg
- 000: 61 total segments, 28 labels (264 vertices) changed
- 001: 33 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...
- 797 vertices marked for relabeling...
- 797 labels changed in reclassification.
- writing output to ../label/lh.aparc.DKTatlas.annot...
- classification took 0 minutes and 30 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051201 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...
- 1171 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2119 changed, 147117 examined...
- 001: 462 changed, 9724 examined...
- 002: 111 changed, 2630 examined...
- 003: 39 changed, 659 examined...
- 004: 31 changed, 250 examined...
- 005: 9 changed, 156 examined...
- 006: 3 changed, 44 examined...
- 007: 1 changed, 21 examined...
- 008: 1 changed, 7 examined...
- 009: 1 changed, 7 examined...
- 010: 2 changed, 5 examined...
- 011: 3 changed, 10 examined...
- 012: 2 changed, 15 examined...
- 013: 3 changed, 12 examined...
- 014: 3 changed, 14 examined...
- 015: 2 changed, 13 examined...
- 016: 4 changed, 12 examined...
- 017: 3 changed, 15 examined...
- 018: 2 changed, 14 examined...
- 019: 3 changed, 8 examined...
- 020: 2 changed, 9 examined...
- 021: 2 changed, 12 examined...
- 022: 0 changed, 18 examined...
- 149 labels changed using aseg
- 000: 72 total segments, 39 labels (346 vertices) changed
- 001: 34 total segments, 1 labels (1 vertices) changed
- 002: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 3 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1001 vertices marked for relabeling...
- 1001 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 31 seconds.
- PIDs (19007 19010) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Sun Oct 8 06:06:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 0051201 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Sun Oct 8 06:06:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 0051201 rh white
- Waiting for PID 19239 of (19239 19242) to complete...
- Waiting for PID 19242 of (19239 19242) 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 0051201 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 293709
- Total vertex volume 289215 (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) = 1572354 mm^3 (det: 1.238974 )
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 1950 1316 3925 2.628 0.638 0.125 0.026 27 2.0 caudalanteriorcingulate
- 4129 2882 8631 2.538 0.598 0.131 0.038 54 6.9 caudalmiddlefrontal
- 2815 1942 4693 2.256 0.485 0.145 0.034 40 3.8 cuneus
- 515 325 2062 3.714 0.886 0.110 0.037 5 0.7 entorhinal
- 4609 3179 10054 2.701 0.626 0.126 0.031 66 5.6 fusiform
- 7839 5597 16747 2.452 0.684 0.142 0.040 131 12.9 inferiorparietal
- 5152 3677 13594 2.789 0.765 0.149 0.050 113 10.9 inferiortemporal
- 2250 1479 4475 2.601 0.852 0.124 0.033 33 2.5 isthmuscingulate
- 9066 6387 17240 2.463 0.564 0.151 0.037 141 13.6 lateraloccipital
- 4844 3418 10759 2.605 0.698 0.155 0.057 111 11.8 lateralorbitofrontal
- 5153 3660 8657 2.231 0.573 0.156 0.042 90 9.1 lingual
- 2398 1720 4940 2.455 0.679 0.121 0.031 36 2.7 medialorbitofrontal
- 6866 4905 16891 2.734 0.669 0.135 0.038 114 11.1 middletemporal
- 1161 772 2320 2.523 0.620 0.097 0.026 10 1.2 parahippocampal
- 2624 1810 5037 2.491 0.591 0.120 0.030 27 3.1 paracentral
- 1687 1165 3868 2.657 0.619 0.119 0.029 18 2.0 parsopercularis
- 966 657 2262 2.667 0.626 0.126 0.033 13 1.3 parsorbitalis
- 2161 1509 5223 2.696 0.688 0.125 0.033 25 3.0 parstriangularis
- 2129 1534 3022 1.988 0.464 0.153 0.043 29 4.1 pericalcarine
- 6903 4709 11502 2.144 0.697 0.122 0.033 86 9.8 postcentral
- 2499 1710 5508 2.755 0.774 0.144 0.037 47 3.3 posteriorcingulate
- 7534 5041 14924 2.615 0.608 0.121 0.035 74 10.3 precentral
- 6064 4252 12491 2.535 0.604 0.136 0.031 94 7.4 precuneus
- 1936 1340 4478 2.968 0.875 0.141 0.046 37 3.5 rostralanteriorcingulate
- 6090 4289 13771 2.502 0.658 0.151 0.052 115 13.5 rostralmiddlefrontal
- 12143 8556 28885 2.714 0.670 0.135 0.040 162 20.4 superiorfrontal
- 6597 4463 11917 2.274 0.612 0.128 0.031 83 8.2 superiorparietal
- 7957 5562 19378 2.900 0.769 0.120 0.034 97 11.5 superiortemporal
- 6173 4326 13803 2.604 0.714 0.138 0.039 96 9.7 supramarginal
- 704 440 1210 2.505 0.357 0.131 0.033 9 0.9 transversetemporal
- 3126 2135 6950 2.997 0.736 0.129 0.039 43 5.1 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 0051201 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 302980
- Total vertex volume 298887 (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) = 1572354 mm^3 (det: 1.238974 )
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 1131 755 2625 2.653 0.921 0.126 0.031 13 1.4 caudalanteriorcingulate
- 3145 2163 7016 2.677 0.530 0.128 0.035 40 4.2 caudalmiddlefrontal
- 2943 1991 4763 2.218 0.525 0.150 0.041 43 4.8 cuneus
- 473 312 1787 3.623 0.730 0.116 0.070 7 0.7 entorhinal
- 3993 2789 9612 3.027 0.765 0.135 0.035 59 5.5 fusiform
- 8009 5509 16364 2.475 0.622 0.130 0.036 117 11.9 inferiorparietal
- 6258 4402 16513 2.928 0.754 0.126 0.033 90 8.3 inferiortemporal
- 1818 1218 3621 2.508 0.894 0.125 0.030 28 2.2 isthmuscingulate
- 8988 6203 16539 2.326 0.580 0.147 0.040 148 14.2 lateraloccipital
- 4543 3215 10083 2.758 0.750 0.158 0.053 112 11.3 lateralorbitofrontal
- 4820 3504 9064 2.300 0.650 0.155 0.046 96 9.0 lingual
- 2480 1717 5487 2.526 0.724 0.136 0.052 49 4.0 medialorbitofrontal
- 8036 5633 20293 2.931 0.699 0.129 0.035 165 12.1 middletemporal
- 1132 751 2404 2.763 0.678 0.095 0.024 8 0.9 parahippocampal
- 2607 1706 5093 2.707 0.650 0.105 0.026 19 2.7 paracentral
- 2194 1518 4874 2.778 0.520 0.135 0.043 44 4.1 parsopercularis
- 1032 684 2360 2.746 0.655 0.130 0.047 21 2.0 parsorbitalis
- 2418 1768 5547 2.612 0.540 0.149 0.043 52 4.3 parstriangularis
- 2269 1636 3166 2.105 0.525 0.142 0.036 29 3.4 pericalcarine
- 7245 5024 12757 2.228 0.661 0.126 0.036 101 11.1 postcentral
- 2391 1623 5224 2.772 0.823 0.137 0.031 40 3.0 posteriorcingulate
- 7344 4969 14897 2.670 0.545 0.116 0.033 89 11.0 precentral
- 7017 4841 14187 2.620 0.664 0.137 0.035 110 10.0 precuneus
- 1036 703 2143 2.660 0.797 0.112 0.029 9 1.1 rostralanteriorcingulate
- 7294 5076 15540 2.526 0.602 0.143 0.047 134 14.8 rostralmiddlefrontal
- 14508 10205 32950 2.627 0.697 0.139 0.043 243 25.8 superiorfrontal
- 6128 4150 12009 2.426 0.644 0.134 0.035 80 8.0 superiorparietal
- 8347 5669 19309 2.958 0.685 0.113 0.029 86 9.5 superiortemporal
- 6218 4389 14162 2.748 0.587 0.137 0.036 101 9.6 supramarginal
- 559 360 905 2.441 0.470 0.142 0.041 8 0.7 transversetemporal
- 3220 2232 7593 3.255 0.708 0.130 0.045 44 5.0 insula
- PIDs (19239 19242) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Sun Oct 8 06:06:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- pctsurfcon --s 0051201 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Sun Oct 8 06:06:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts
- pctsurfcon --s 0051201 --rh-only
- Waiting for PID 19498 of (19498 19508) to complete...
- Waiting for PID 19508 of (19498 19508) to complete...
- pctsurfcon --s 0051201 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts/pctsurfcon.log
- Sun Oct 8 06:06:51 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-6.0.0/0051201/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-961 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-6.0.0/0051201/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/tmp.pctsurfcon.19498/lh.wm.mgh --regheader 0051201 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 = 73222
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/tmp.pctsurfcon.19498/lh.wm.mgh
- Dim: 144031 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/tmp.pctsurfcon.19498/lh.gm.mgh --projfrac 0.3 --regheader 0051201 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 = 89700
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/tmp.pctsurfcon.19498/lh.gm.mgh
- Dim: 144031 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/tmp.pctsurfcon.19498/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/tmp.pctsurfcon.19498/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.w-g.pct.mgh --annot 0051201 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/surf/lh.w-g.pct.mgh --annot 0051201 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-961
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/surf/lh.w-g.pct.mgh
- Vertex Area is 0.693985 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 0051201 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/scripts/pctsurfcon.log
- Sun Oct 8 06:06:51 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-6.0.0/0051201/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-961 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-6.0.0/0051201/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/tmp.pctsurfcon.19508/rh.wm.mgh --regheader 0051201 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 = 74609
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/tmp.pctsurfcon.19508/rh.wm.mgh
- Dim: 147117 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/tmp.pctsurfcon.19508/rh.gm.mgh --projfrac 0.3 --regheader 0051201 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 0.00000;
- 0.00000 0.00000 1.00000 0.00000;
- 0.00000 -1.00000 0.00000 0.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------- original matrix -----------
- Loading label /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 = 91647
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/tmp.pctsurfcon.19508/rh.gm.mgh
- Dim: 147117 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/tmp.pctsurfcon.19508/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/tmp.pctsurfcon.19508/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.w-g.pct.mgh --annot 0051201 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/surf/rh.w-g.pct.mgh --annot 0051201 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-961
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/surf/rh.w-g.pct.mgh
- Vertex Area is 0.691512 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 (19498 19508) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Sun Oct 8 06:06:58 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 1017 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 1450 voxels changed to hypointensity...
- 2695 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Sun Oct 8 06:07:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201
- mri_aparc2aseg --s 0051201 --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 06:07:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201
- mri_aparc2aseg --s 0051201 --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 06:07:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201
- mri_aparc2aseg --s 0051201 --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 19861 of (19861 19864 19867) to complete...
- Waiting for PID 19864 of (19861 19864 19867) to complete...
- Waiting for PID 19867 of (19861 19864 19867) to complete...
- mri_aparc2aseg --s 0051201 --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 0051201
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/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-6.0.0/0051201/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 6.64
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 107
- rescaling Left_Cerebral_Cortex from 61 --> 48
- rescaling Left_Lateral_Ventricle from 13 --> 5
- rescaling Left_Inf_Lat_Vent from 34 --> 25
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 52
- rescaling Left_Thalamus from 94 --> 88
- rescaling Left_Thalamus_Proper from 84 --> 85
- rescaling Left_Caudate from 75 --> 68
- rescaling Left_Putamen from 80 --> 68
- rescaling Left_Pallidum from 98 --> 87
- rescaling Third_Ventricle from 25 --> 10
- rescaling Fourth_Ventricle from 22 --> 6
- rescaling Brain_Stem from 81 --> 85
- rescaling Left_Hippocampus from 57 --> 54
- rescaling Left_Amygdala from 56 --> 53
- rescaling CSF from 32 --> 14
- rescaling Left_Accumbens_area from 62 --> 54
- rescaling Left_VentralDC from 87 --> 85
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- rescaling Right_Cerebral_Cortex from 58 --> 51
- rescaling Right_Lateral_Ventricle from 13 --> 7
- rescaling Right_Inf_Lat_Vent from 25 --> 24
- rescaling Right_Cerebellum_White_Matter from 87 --> 86
- rescaling Right_Cerebellum_Cortex from 59 --> 52
- rescaling Right_Thalamus_Proper from 85 --> 80
- rescaling Right_Caudate from 62 --> 65
- rescaling Right_Putamen from 80 --> 72
- rescaling Right_Pallidum from 97 --> 89
- rescaling Right_Hippocampus from 53 --> 57
- rescaling Right_Amygdala from 55 --> 60
- rescaling Right_Accumbens_area from 65 --> 63
- rescaling Right_VentralDC from 86 --> 92
- rescaling Fifth_Ventricle from 40 --> 12
- rescaling WM_hypointensities from 78 --> 79
- rescaling non_WM_hypointensities from 40 --> 45
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 582548
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 154 changed.
- pass 2: 5 changed.
- pass 3: 2 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0051201 --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 0051201
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/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-6.0.0/0051201/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 6.64
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 107
- rescaling Left_Cerebral_Cortex from 61 --> 48
- rescaling Left_Lateral_Ventricle from 13 --> 5
- rescaling Left_Inf_Lat_Vent from 34 --> 25
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 52
- rescaling Left_Thalamus from 94 --> 88
- rescaling Left_Thalamus_Proper from 84 --> 85
- rescaling Left_Caudate from 75 --> 68
- rescaling Left_Putamen from 80 --> 68
- rescaling Left_Pallidum from 98 --> 87
- rescaling Third_Ventricle from 25 --> 10
- rescaling Fourth_Ventricle from 22 --> 6
- rescaling Brain_Stem from 81 --> 85
- rescaling Left_Hippocampus from 57 --> 54
- rescaling Left_Amygdala from 56 --> 53
- rescaling CSF from 32 --> 14
- rescaling Left_Accumbens_area from 62 --> 54
- rescaling Left_VentralDC from 87 --> 85
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- rescaling Right_Cerebral_Cortex from 58 --> 51
- rescaling Right_Lateral_Ventricle from 13 --> 7
- rescaling Right_Inf_Lat_Vent from 25 --> 24
- rescaling Right_Cerebellum_White_Matter from 87 --> 86
- rescaling Right_Cerebellum_Cortex from 59 --> 52
- rescaling Right_Thalamus_Proper from 85 --> 80
- rescaling Right_Caudate from 62 --> 65
- rescaling Right_Putamen from 80 --> 72
- rescaling Right_Pallidum from 97 --> 89
- rescaling Right_Hippocampus from 53 --> 57
- rescaling Right_Amygdala from 55 --> 60
- rescaling Right_Accumbens_area from 65 --> 63
- rescaling Right_VentralDC from 86 --> 92
- rescaling Fifth_Ventricle from 40 --> 12
- rescaling WM_hypointensities from 78 --> 79
- rescaling non_WM_hypointensities from 40 --> 45
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 582255
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 154 changed.
- pass 2: 5 changed.
- pass 3: 2 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0051201 --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 0051201
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/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-6.0.0/0051201/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 6.64
- reading 47 labels from mri/aseg.auto_noCCseg.label_intensities.txt
- rescaling Left_Cerebral_White_Matter from 107 --> 107
- rescaling Left_Cerebral_Cortex from 61 --> 48
- rescaling Left_Lateral_Ventricle from 13 --> 5
- rescaling Left_Inf_Lat_Vent from 34 --> 25
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 52
- rescaling Left_Thalamus from 94 --> 88
- rescaling Left_Thalamus_Proper from 84 --> 85
- rescaling Left_Caudate from 75 --> 68
- rescaling Left_Putamen from 80 --> 68
- rescaling Left_Pallidum from 98 --> 87
- rescaling Third_Ventricle from 25 --> 10
- rescaling Fourth_Ventricle from 22 --> 6
- rescaling Brain_Stem from 81 --> 85
- rescaling Left_Hippocampus from 57 --> 54
- rescaling Left_Amygdala from 56 --> 53
- rescaling CSF from 32 --> 14
- rescaling Left_Accumbens_area from 62 --> 54
- rescaling Left_VentralDC from 87 --> 85
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- rescaling Right_Cerebral_Cortex from 58 --> 51
- rescaling Right_Lateral_Ventricle from 13 --> 7
- rescaling Right_Inf_Lat_Vent from 25 --> 24
- rescaling Right_Cerebellum_White_Matter from 87 --> 86
- rescaling Right_Cerebellum_Cortex from 59 --> 52
- rescaling Right_Thalamus_Proper from 85 --> 80
- rescaling Right_Caudate from 62 --> 65
- rescaling Right_Putamen from 80 --> 72
- rescaling Right_Pallidum from 97 --> 89
- rescaling Right_Hippocampus from 53 --> 57
- rescaling Right_Amygdala from 55 --> 60
- rescaling Right_Accumbens_area from 65 --> 63
- rescaling Right_VentralDC from 86 --> 92
- rescaling Fifth_Ventricle from 40 --> 12
- rescaling WM_hypointensities from 78 --> 79
- rescaling non_WM_hypointensities from 40 --> 45
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 582255
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 154 changed.
- pass 2: 5 changed.
- pass 3: 2 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (19861 19864 19867) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Sun Oct 8 06:14:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Sun Oct 8 06:14:41 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-6.0.0/0051201/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-961 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-6.0.0/0051201/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-961
- 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 06:14:41 CEST 2017
- Ended at Sun Oct 8 06:14:48 CEST 2017
- Apas2aseg-Run-Time-Sec 7
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Sun Oct 8 06:14:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201
- 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 0051201
- $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 0051201
- sysname Linux
- hostname tars-961
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1572354 mm^3 (det: 1.238974 )
- Computing euler number
- orig.nofix lheno = -226, rheno = -168
- orig.nofix lhholes = 114, rhholes = 85
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 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 06:16:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201
- mri_aparc2aseg --s 0051201 --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 0051201
- 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-6.0.0/0051201/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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-6.0.0/0051201/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 7776 vertices from left hemi
- Ripped 7528 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-6.0.0/0051201/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 = 1020645
- Used brute-force search on 35 voxels
- Fixing Parahip LH WM
- Found 9 clusters
- 0 k 1.000000
- 1 k 1.000000
- 2 k 1337.000000
- 3 k 1.000000
- 4 k 1.000000
- 5 k 1.000000
- 6 k 1.000000
- 7 k 1.000000
- 8 k 1.000000
- Fixing Parahip RH WM
- Found 5 clusters
- 0 k 1.000000
- 1 k 1.000000
- 2 k 1.000000
- 3 k 1.000000
- 4 k 1452.000000
- 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 0051201 --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 0051201 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-961
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1572354 mm^3 (det: 1.238974 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 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-6.0.0/0051201/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Sun Oct 8 06:25:26 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 0051201 --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 0051201 --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 0051201 --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 0051201 --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 0051201 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 21274 of (21274 21280 21286 21292 21297) to complete...
- Waiting for PID 21280 of (21274 21280 21286 21292 21297) to complete...
- Waiting for PID 21286 of (21274 21280 21286 21292 21297) to complete...
- Waiting for PID 21292 of (21274 21280 21286 21292 21297) to complete...
- Waiting for PID 21297 of (21274 21280 21286 21292 21297) 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 352
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 4481
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 550
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 8459
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 128
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4205
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 356
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 6339
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 526
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 6310
- mri_label2label: Done
- PIDs (21274 21280 21286 21292 21297) 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 0051201 --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 0051201 --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 0051201 --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 0051201 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 21347 of (21347 21353 21359 21365) to complete...
- Waiting for PID 21353 of (21347 21353 21359 21365) to complete...
- Waiting for PID 21359 of (21347 21353 21359 21365) to complete...
- Waiting for PID 21365 of (21347 21353 21359 21365) 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 258
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4328
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 1739
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 15328
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 191
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 4372
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 489
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 3911
- mri_label2label: Done
- PIDs (21347 21353 21359 21365) 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 0051201 --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 0051201 --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 0051201 --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 0051201 --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 0051201 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 21445 of (21445 21451 21457 21463 21469) to complete...
- Waiting for PID 21451 of (21445 21451 21457 21463 21469) to complete...
- Waiting for PID 21457 of (21445 21451 21457 21463 21469) to complete...
- Waiting for PID 21463 of (21445 21451 21457 21463 21469) to complete...
- Waiting for PID 21469 of (21445 21451 21457 21463 21469) 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 1540
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 6181
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 3287
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 11401
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 694
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 2712
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 91
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1381
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 93
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1292
- mri_label2label: Done
- PIDs (21445 21451 21457 21463 21469) 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 0051201 --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 0051201 --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 0051201 --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 0051201 --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 0051201 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 21515 of (21515 21521 21527 21532 21538) to complete...
- Waiting for PID 21521 of (21515 21521 21527 21532 21538) to complete...
- Waiting for PID 21527 of (21515 21521 21527 21532 21538) to complete...
- Waiting for PID 21532 of (21515 21521 21527 21532 21538) to complete...
- Waiting for PID 21538 of (21515 21521 21527 21532 21538) 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 131
- Checking for and removing duplicates
- Writing label file ./lh.BA1_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/lh.BA2_exvivo.thresh.label --trgsubject 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 151
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 2243
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 39
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1543
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 81
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2077
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 207
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 2526
- mri_label2label: Done
- PIDs (21515 21521 21527 21532 21538) 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 0051201 --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 0051201 --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 0051201 --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 0051201 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 21584 of (21584 21590 21596 21602) to complete...
- Waiting for PID 21590 of (21584 21590 21596 21602) to complete...
- Waiting for PID 21596 of (21584 21590 21596 21602) to complete...
- Waiting for PID 21602 of (21584 21590 21596 21602) 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 62
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1611
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 811
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 7846
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 73
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 1985
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 207
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1358
- mri_label2label: Done
- PIDs (21584 21590 21596 21602) 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 0051201 --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 0051201 --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 0051201 --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 0051201 --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 0051201 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 21655 of (21655 21661 21667 21672 21679) to complete...
- Waiting for PID 21661 of (21655 21661 21667 21672 21679) to complete...
- Waiting for PID 21667 of (21655 21661 21667 21672 21679) to complete...
- Waiting for PID 21672 of (21655 21661 21667 21672 21679) to complete...
- Waiting for PID 21679 of (21655 21661 21667 21672 21679) 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 1059
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 4464
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 1462
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 4796
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 165
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 678
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 20
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 490
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 144031
- Number of reverse mapping hits = 27
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 477
- mri_label2label: Done
- PIDs (21655 21661 21667 21672 21679) completed and logs appended.
- mris_label2annot --s 0051201 --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-6.0.0/0051201/label
- cmdline mris_label2annot --s 0051201 --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-961
- machine x86_64
- user ntraut
- subject 0051201
- 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-6.0.0/0051201/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 101105 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/lh.BA_exvivo.annot
- mris_label2annot --s 0051201 --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-6.0.0/0051201/label
- cmdline mris_label2annot --s 0051201 --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-961
- machine x86_64
- user ntraut
- subject 0051201
- 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-6.0.0/0051201/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 118844 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 0051201 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 293709
- Total vertex volume 289215 (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) = 1572354 mm^3 (det: 1.238974 )
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 1115 714 2241 2.228 0.692 0.156 0.049 24 2.2 BA1_exvivo
- 4047 2773 6187 2.134 0.506 0.129 0.036 50 6.3 BA2_exvivo
- 1037 682 1070 1.963 0.363 0.129 0.032 8 1.3 BA3a_exvivo
- 2340 1631 3847 2.044 0.678 0.113 0.030 28 2.9 BA3b_exvivo
- 1723 1147 3722 2.604 0.543 0.120 0.040 21 2.9 BA4a_exvivo
- 1319 855 1915 2.266 0.429 0.113 0.033 10 1.8 BA4p_exvivo
- 10436 7250 24364 2.761 0.668 0.131 0.037 120 15.3 BA6_exvivo
- 1795 1261 4243 2.712 0.592 0.117 0.028 18 2.1 BA44_exvivo
- 2679 1910 6679 2.658 0.682 0.142 0.042 42 4.9 BA45_exvivo
- 3776 2763 5894 2.098 0.579 0.164 0.045 63 7.4 V1_exvivo
- 9047 6339 16103 2.315 0.580 0.156 0.042 150 15.4 V2_exvivo
- 2417 1737 4700 2.528 0.521 0.144 0.034 35 3.3 MT_exvivo
- 523 347 1774 3.485 0.913 0.117 0.038 6 0.6 perirhinal_exvivo
- 672 441 1799 3.053 0.917 0.109 0.040 8 1.2 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 0051201 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 293709
- Total vertex volume 289215 (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) = 1572354 mm^3 (det: 1.238974 )
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 758 464 1355 2.154 0.640 0.165 0.059 21 2.1 BA1_exvivo
- 1604 1098 2452 2.019 0.470 0.120 0.032 18 2.2 BA2_exvivo
- 874 573 860 1.968 0.357 0.133 0.033 7 1.1 BA3a_exvivo
- 1364 978 1767 1.681 0.377 0.088 0.016 8 1.0 BA3b_exvivo
- 1683 1116 3422 2.537 0.538 0.111 0.034 14 2.2 BA4a_exvivo
- 1025 689 1471 2.239 0.357 0.111 0.032 7 1.2 BA4p_exvivo
- 5933 4044 14098 2.857 0.662 0.128 0.037 67 8.5 BA6_exvivo
- 1100 789 2777 2.666 0.627 0.119 0.031 13 1.4 BA44_exvivo
- 1095 805 3363 2.826 0.737 0.150 0.042 18 1.9 BA45_exvivo
- 4020 2961 6446 2.119 0.581 0.166 0.046 68 8.0 V1_exvivo
- 4502 3187 8103 2.252 0.589 0.165 0.048 81 8.5 V2_exvivo
- 636 454 1377 2.638 0.570 0.131 0.028 7 0.7 MT_exvivo
- 262 173 1075 3.790 0.801 0.108 0.032 2 0.3 perirhinal_exvivo
- 331 213 937 3.164 0.708 0.078 0.021 2 0.2 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Sun Oct 8 06:28:40 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 0051201 --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 0051201 --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 0051201 --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 0051201 --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 0051201 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 21957 of (21957 21963 21969 21975 21980) to complete...
- Waiting for PID 21963 of (21957 21963 21969 21975 21980) to complete...
- Waiting for PID 21969 of (21957 21963 21969 21975 21980) to complete...
- Waiting for PID 21975 of (21957 21963 21969 21975 21980) to complete...
- Waiting for PID 21980 of (21957 21963 21969 21975 21980) 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 478
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 4440
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 618
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 7305
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 132
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4112
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 288
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 4810
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 517
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 6264
- mri_label2label: Done
- PIDs (21957 21963 21969 21975 21980) 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 0051201 --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 0051201 --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 0051201 --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 0051201 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 22026 of (22026 22032 22038 22044) to complete...
- Waiting for PID 22032 of (22026 22032 22038 22044) to complete...
- Waiting for PID 22038 of (22026 22032 22038 22044) to complete...
- Waiting for PID 22044 of (22026 22032 22038 22044) 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 256
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 4729
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 1291
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 13547
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 817
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 7729
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 1101
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 6456
- mri_label2label: Done
- PIDs (22026 22032 22038 22044) 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 0051201 --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 0051201 --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 0051201 --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 0051201 --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 0051201 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 22100 of (22100 22106 22112 22117 22123) to complete...
- Waiting for PID 22106 of (22100 22106 22112 22117 22123) to complete...
- Waiting for PID 22112 of (22100 22106 22112 22117 22123) to complete...
- Waiting for PID 22117 of (22100 22106 22112 22117 22123) to complete...
- Waiting for PID 22123 of (22100 22106 22112 22117 22123) 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 1513
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 6240
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 3371
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 11387
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 898
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.label 2830
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 90
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1128
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 63
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 815
- mri_label2label: Done
- PIDs (22100 22106 22112 22117 22123) 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 0051201 --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 0051201 --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 0051201 --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 0051201 --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 0051201 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 22169 of (22169 22175 22181 22185 22192) to complete...
- Waiting for PID 22175 of (22169 22175 22181 22185 22192) to complete...
- Waiting for PID 22181 of (22169 22175 22181 22185 22192) to complete...
- Waiting for PID 22185 of (22169 22175 22181 22185 22192) to complete...
- Waiting for PID 22192 of (22169 22175 22181 22185 22192) 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 135
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 1011
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 223
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 2911
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 52
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1750
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 89
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2272
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 108
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1496
- mri_label2label: Done
- PIDs (22169 22175 22181 22185 22192) 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 0051201 --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 0051201 --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 0051201 --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 0051201 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 22274 of (22274 22280 22286 22291) to complete...
- Waiting for PID 22280 of (22274 22280 22286 22291) to complete...
- Waiting for PID 22286 of (22274 22280 22286 22291) to complete...
- Waiting for PID 22291 of (22274 22280 22286 22291) 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 76
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1565
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 756
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 7715
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 116
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1128
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 271
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1449
- mri_label2label: Done
- PIDs (22274 22280 22286 22291) 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 0051201 --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 0051201 --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 0051201 --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 0051201 --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 0051201 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 22357 of (22357 22363 22369 22375 22380) to complete...
- Waiting for PID 22363 of (22357 22363 22369 22375 22380) to complete...
- Waiting for PID 22369 of (22357 22363 22369 22375 22380) to complete...
- Waiting for PID 22375 of (22357 22363 22369 22375 22380) to complete...
- Waiting for PID 22380 of (22357 22363 22369 22375 22380) 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 1000
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 4232
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 1546
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 4983
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 138
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 406
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 44
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.thresh.label 738
- 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 0051201 --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 = 0051201
- 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-6.0.0/0051201/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 147117
- Number of reverse mapping hits = 14
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 305
- mri_label2label: Done
- PIDs (22357 22363 22369 22375 22380) completed and logs appended.
- mris_label2annot --s 0051201 --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-6.0.0/0051201/label
- cmdline mris_label2annot --s 0051201 --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-961
- machine x86_64
- user ntraut
- subject 0051201
- 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-6.0.0/0051201/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 103814 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/label/rh.BA_exvivo.annot
- mris_label2annot --s 0051201 --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-6.0.0/0051201/label
- cmdline mris_label2annot --s 0051201 --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-961
- machine x86_64
- user ntraut
- subject 0051201
- 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-6.0.0/0051201/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 123044 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/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 0051201 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 302980
- Total vertex volume 298887 (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) = 1572354 mm^3 (det: 1.238974 )
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 1072 665 2108 2.253 0.580 0.150 0.053 22 2.2 BA1_exvivo
- 3490 2469 5902 2.336 0.509 0.128 0.032 41 4.7 BA2_exvivo
- 1068 685 1069 2.021 0.471 0.116 0.024 8 0.9 BA3a_exvivo
- 1910 1348 2684 1.747 0.526 0.105 0.027 18 1.9 BA3b_exvivo
- 1585 1020 3479 2.776 0.578 0.102 0.033 14 2.0 BA4a_exvivo
- 1256 825 2006 2.467 0.376 0.098 0.034 9 2.3 BA4p_exvivo
- 8549 5948 20623 2.877 0.659 0.132 0.040 121 13.9 BA6_exvivo
- 3381 2415 7522 2.736 0.527 0.128 0.031 47 4.7 BA44_exvivo
- 4419 3127 10175 2.597 0.565 0.149 0.051 109 9.8 BA45_exvivo
- 3971 2884 6430 2.092 0.547 0.147 0.042 57 6.8 V1_exvivo
- 9027 6261 16153 2.316 0.650 0.160 0.047 174 16.8 V2_exvivo
- 2653 1841 4993 2.422 0.511 0.135 0.032 34 3.7 MT_exvivo
- 573 385 2197 3.587 0.754 0.122 0.049 7 0.9 perirhinal_exvivo
- 349 244 1064 3.315 0.658 0.106 0.027 2 0.4 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 0051201 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051201/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 302980
- Total vertex volume 298887 (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) = 1572354 mm^3 (det: 1.238974 )
- lhCtxGM: 287202.369 286746.000 diff= 456.4 pctdiff= 0.159
- rhCtxGM: 296037.762 295389.000 diff= 648.8 pctdiff= 0.219
- lhCtxWM: 217757.129 217491.000 diff= 266.1 pctdiff= 0.122
- rhCtxWM: 221806.012 222733.000 diff= -927.0 pctdiff=-0.418
- SubCortGMVol 64717.000
- SupraTentVol 1100090.272 (1096213.000) diff=3877.272 pctdiff=0.352
- SupraTentVolNotVent 1090986.272 (1087109.000) diff=3877.272 pctdiff=0.355
- BrainSegVol 1238366.000 (1235822.000) diff=2544.000 pctdiff=0.205
- BrainSegVolNotVent 1225960.000 (1226222.272) diff=-262.272 pctdiff=-0.021
- BrainSegVolNotVent 1225960.000
- CerebellumVol 138669.000
- VentChorVol 9104.000
- 3rd4th5thCSF 3302.000
- CSFVol 758.000, OptChiasmVol 182.000
- MaskVol 1640472.000
- 714 453 1419 2.231 0.520 0.143 0.046 13 1.1 BA1_exvivo
- 1999 1445 3639 2.286 0.507 0.126 0.028 23 2.2 BA2_exvivo
- 965 619 876 1.997 0.433 0.119 0.024 7 0.8 BA3a_exvivo
- 1405 1020 1665 1.595 0.386 0.083 0.016 6 0.8 BA3b_exvivo
- 971 615 2376 2.963 0.682 0.123 0.049 26 2.0 BA4a_exvivo
- 1010 682 1637 2.473 0.384 0.092 0.036 6 2.0 BA4p_exvivo
- 5650 3897 13131 2.841 0.657 0.131 0.040 68 9.2 BA6_exvivo
- 847 620 2452 3.049 0.487 0.158 0.042 17 1.7 BA44_exvivo
- 1145 858 3085 2.661 0.517 0.175 0.067 41 3.1 BA45_exvivo
- 3797 2753 5928 2.073 0.549 0.145 0.041 54 6.2 V1_exvivo
- 4619 3264 8060 2.234 0.632 0.168 0.050 94 9.3 V2_exvivo
- 392 278 966 2.683 0.583 0.133 0.038 5 0.7 MT_exvivo
- 339 232 1398 3.584 0.771 0.110 0.039 4 0.4 perirhinal_exvivo
- 220 149 733 3.463 0.515 0.102 0.036 1 0.2 entorhinal_exvivo
- Started at Sat Oct 7 20:23:20 CEST 2017
- Ended at Sun Oct 8 06:31:53 CEST 2017
- #@#%# recon-all-run-time-hours 10.142
- recon-all -s 0051201 finished without error at Sun Oct 8 06:31:53 CEST 2017
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