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|
- Sat Oct 7 21:25:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0051264 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/UCLA_1/0051264/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0051264
- 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-545 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: 65993876 55215476 10778400 1752128 0 49515872
- -/+ buffers/cache: 5699604 60294272
- 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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: 2017/10/07-19:25:38-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-545 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-6.0.0/0051264
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/UCLA_1/0051264/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/UCLA_1/0051264/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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_1/0051264/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-6.0.0/0051264/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Sat Oct 7 21:25:41 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/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-6.0.0/0051264/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Sat Oct 7 21:25:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/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-545 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 21:25:50 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.9907
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.9907/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.9907/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.9907/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 21:25:52 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.9907/nu0.mnc ./tmp.mri_nu_correct.mni.9907/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.9907/0/ -iterations 1000 -distance 50
- [ntraut@tars-545:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/] [2017-10-07 21:25:52] 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.9907/0/ ./tmp.mri_nu_correct.mni.9907/nu0.mnc ./tmp.mri_nu_correct.mni.9907/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
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- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 28
- CV of field change: 0.000998546
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.9907/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.9907/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.9907/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 21:26:48 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 21:26:48 CEST 2017
- Ended at Sat Oct 7 21:27:20 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Sat Oct 7 21:27:22 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.4355, pval=0.1049 >= 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-6.0.0/0051264/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/transforms/talairach_avi.log
- TalAviQA: 0.97524
- z-score: 0
- #--------------------------------------------
- #@# Nu Intensity Correction Sat Oct 7 21:27:22 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-6.0.0/0051264/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-545 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 21:27:22 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.10550
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.10550/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.10550/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.10550/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 21:27:25 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.10550/nu0.mnc ./tmp.mri_nu_correct.mni.10550/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.10550/0/
- [ntraut@tars-545:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/] [2017-10-07 21:27:25] running:
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/mni/bin/nu_estimate_np_and_em -parzen -log -sharpen 0.15 0.01 -iterations 50 -stop 0.001 -shrink 4 -auto_mask -nonotify -b_spline 1.0e-7 -distance 200 -quiet -execute -clobber -nokeeptmp -tmpdir ./tmp.mri_nu_correct.mni.10550/0/ ./tmp.mri_nu_correct.mni.10550/nu0.mnc ./tmp.mri_nu_correct.mni.10550/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
- Number of iterations: 20
- CV of field change: 0.000942115
-
-
- --------------------------------------------------------
- Iteration 2 Sat Oct 7 21:28:05 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.10550/nu1.mnc ./tmp.mri_nu_correct.mni.10550/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.10550/1/
- [ntraut@tars-545:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/] [2017-10-07 21:28:05] 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.10550/1/ ./tmp.mri_nu_correct.mni.10550/nu1.mnc ./tmp.mri_nu_correct.mni.10550/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
- Number of iterations: 15
- CV of field change: 0.000978375
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.10550/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.10550/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-6.0.0/0051264/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.10550/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.10550/ones.mgz
- sysname Linux
- hostname tars-545
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.10550/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.10550/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.10550/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.10550/sum.junk --avgwf ./tmp.mri_nu_correct.mni.10550/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.10550/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.10550/sum.junk --avgwf ./tmp.mri_nu_correct.mni.10550/input.mean.dat
- sysname Linux
- hostname tars-545
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.10550/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.10550/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.10550/ones.mgz --i ./tmp.mri_nu_correct.mni.10550/nu2.mnc --sum ./tmp.mri_nu_correct.mni.10550/sum.junk --avgwf ./tmp.mri_nu_correct.mni.10550/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.10550/ones.mgz --i ./tmp.mri_nu_correct.mni.10550/nu2.mnc --sum ./tmp.mri_nu_correct.mni.10550/sum.junk --avgwf ./tmp.mri_nu_correct.mni.10550/output.mean.dat
- sysname Linux
- hostname tars-545
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.10550/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.10550/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.10550/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.10550/nu2.mnc ./tmp.mri_nu_correct.mni.10550/nu2.mnc mul 1.03367998895897773123
- Saving result to './tmp.mri_nu_correct.mni.10550/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.10550/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.10550/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.10550/nu2.mnc...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-1, 0, 0)
- j_ras = (0, 0, -1)
- k_ras = (0, 1, 0)
- INFO: transform src into the like-volume: orig.mgz
- writing to nu.mgz...
- mri_make_uchar nu.mgz transforms/talairach.xfm nu.mgz
- type change took 0 minutes and 8 seconds.
- mapping ( 9, 118) to ( 3, 110)
-
-
- Sat Oct 7 21:29:16 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Sat Oct 7 21:29:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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
- 1.12046 0.06214 -0.01038 -0.98810;
- -0.07228 1.03787 -0.15333 -29.27966;
- -0.02843 0.22323 1.14915 12.98279;
- 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 = 17
- Starting OpenSpline(): npoints = 17
- 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 56 (56), valley at 26 (26)
- csf peak at 29, setting threshold to 47
- 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 55 (55), valley at 26 (26)
- csf peak at 28, setting threshold to 46
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to T1.mgz
- 3D bias adjustment took 1 minutes and 51 seconds.
- #--------------------------------------------
- #@# Skull Stripping Sat Oct 7 21:31:09 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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=7.0
- skull bounding box = (47, 44, 27) --> (203, 194, 225)
- using (99, 94, 126) as brain centroid...
- mean wm in atlas = 108, using box (80,76,102) --> (118, 112,150) to find MRI wm
- before smoothing, mri peak at 107
- robust fit to distribution - 108 +- 6.2
- after smoothing, mri peak at 108, scaling input intensities by 1.000
- scaling channel 0 by 1
- initial log_p = -4.471
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.470843 @ (0.000, 0.000, 0.000)
- max log p = -4.408847 @ (-4.545, 4.545, -13.636)
- max log p = -4.384338 @ (2.273, -6.818, 6.818)
- max log p = -4.369537 @ (-1.136, -3.409, 1.136)
- max log p = -4.369537 @ (0.000, 0.000, 0.000)
- max log p = -4.369537 @ (0.000, 0.000, 0.000)
- Found translation: (-3.4, -5.7, -5.7): log p = -4.370
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.869, old_max_log_p =-4.370 (thresh=-4.4)
- 1.05465 -0.01812 -0.13766 10.10719;
- 0.00000 1.22567 -0.16136 -10.62857;
- 0.15011 0.14882 1.13041 -69.39264;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.869, old_max_log_p =-3.869 (thresh=-3.9)
- 1.05465 -0.01812 -0.13766 10.10719;
- 0.00000 1.22567 -0.16136 -10.62857;
- 0.15011 0.14882 1.13041 -69.39264;
- 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=-3.700, old_max_log_p =-3.869 (thresh=-3.9)
- 1.12202 0.03185 -0.07358 -11.71831;
- -0.03860 1.21993 -0.19482 -4.37335;
- 0.07628 0.18065 1.06808 -60.53952;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.700, old_max_log_p =-3.700 (thresh=-3.7)
- 1.12202 0.03185 -0.07358 -11.71831;
- -0.03860 1.21993 -0.19482 -4.37335;
- 0.07628 0.18065 1.06808 -60.53952;
- 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=-3.683, old_max_log_p =-3.700 (thresh=-3.7)
- 1.11808 0.03174 -0.07332 -10.76972;
- -0.03856 1.21850 -0.19460 -3.73247;
- 0.07619 0.18044 1.06683 -60.33858;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.683, old_max_log_p =-3.683 (thresh=-3.7)
- 1.11808 0.03174 -0.07332 -10.76972;
- -0.03856 1.21850 -0.19460 -3.73247;
- 0.07619 0.18044 1.06683 -60.33858;
- 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
- 1.11808 0.03174 -0.07332 -10.76972;
- -0.03856 1.21850 -0.19460 -3.73247;
- 0.07619 0.18044 1.06683 -60.33858;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 1.11808 0.03174 -0.07332 -10.76972;
- -0.03856 1.21850 -0.19460 -3.73247;
- 0.07619 0.18044 1.06683 -60.33858;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 008: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.11808 0.03174 -0.07332 -10.76972;
- -0.03856 1.21850 -0.19460 -3.73247;
- 0.07619 0.18044 1.06683 -60.33858;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.683 (old=-4.471)
- transform before final EM align:
- 1.11808 0.03174 -0.07332 -10.76972;
- -0.03856 1.21850 -0.19460 -3.73247;
- 0.07619 0.18044 1.06683 -60.33858;
- 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
- 1.11808 0.03174 -0.07332 -10.76972;
- -0.03856 1.21850 -0.19460 -3.73247;
- 0.07619 0.18044 1.06683 -60.33858;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 1.11808 0.03174 -0.07332 -10.76972;
- -0.03856 1.21850 -0.19460 -3.73247;
- 0.07619 0.18044 1.06683 -60.33858;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = 4.1 tol 0.000000
- final transform:
- 1.11808 0.03174 -0.07332 -10.76972;
- -0.03856 1.21850 -0.19460 -3.73247;
- 0.07619 0.18044 1.06683 -60.33858;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 1098.089065
- mri_em_register stimesec 1.344795
- mri_em_register ru_maxrss 609824
- mri_em_register ru_ixrss 0
- mri_em_register ru_idrss 0
- mri_em_register ru_isrss 0
- mri_em_register ru_minflt 157571
- 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 85
- mri_em_register ru_nivcsw 2578
- registration took 9 minutes and 36 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/touch/rusage.mri_watershed.dat -T1 -brain_atlas /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_withskull_2016-05-10.vc700.gca transforms/talairach_with_skull.lta T1.mgz brainmask.auto.mgz
- Mode: T1 normalized volume
- Mode: Use the information of atlas (default parms, --help for details)
- *********************************************************
- The input file is T1.mgz
- The output file is brainmask.auto.mgz
- Weighting the input with atlas information before watershed
- *************************WATERSHED**************************
- Sorting...
- first estimation of the COG coord: x=127 y=122 z=130 r=67
- first estimation of the main basin volume: 1271445 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 16 found in the rest of the brain
- global maximum in x=145, y=104, z=99, Imax=255
- CSF=19, 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=8423680688 voxels, voxel volume =1.000
- = 8423680688 mmm3 = 8423680.512 cm3
- done.
- PostAnalyze...Basin Prior
- 54 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=127,y=125, z=123, r=9561 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=0, CSF_intensity=9, CSF_MAX=40 , nb = 46069
- RIGHT_CER CSF_MIN=0, CSF_intensity=5, CSF_MAX=22 , nb = -1034874999
- LEFT_CER CSF_MIN=0, CSF_intensity=5, CSF_MAX=21 , nb = 1078026044
- RIGHT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=43 , nb = 1025388029
- LEFT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=41 , nb = 1073362696
- OTHER CSF_MIN=0, CSF_intensity=13, CSF_MAX=34 , nb = 1074485658
- Problem with the least square interpolation in GM_MIN calculation.
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 40, 32, 28, 50
- after analyzing : 26, 32, 32, 36
- RIGHT_CER
- before analyzing : 22, 26, 33, 61
- after analyzing : 22, 30, 33, 37
- LEFT_CER
- before analyzing : 21, 24, 30, 56
- after analyzing : 21, 28, 30, 35
- RIGHT_BRAIN
- before analyzing : 43, 34, 29, 50
- after analyzing : 27, 34, 34, 38
- LEFT_BRAIN
- before analyzing : 41, 32, 27, 50
- after analyzing : 26, 32, 32, 36
- OTHER
- before analyzing : 34, 48, 68, 95
- after analyzing : 34, 61, 68, 69
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...59 iterations
- *********************VALIDATION*********************
- curvature mean = -0.013, std = 0.011
- curvature mean = 67.672, std = 8.249
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 9.08, sigma = 14.86
- after rotation: sse = 9.08, sigma = 14.86
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 10.87, its var is 20.24
- before Erosion-Dilatation 11.06% of inacurate vertices
- after Erosion-Dilatation 16.23% 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...34 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1459800 voxels, voxel volume = 1.000 mm3
- = 1459800 mmm3 = 1459.800 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 22.137634
- mri_watershed stimesec 0.398939
- mri_watershed ru_maxrss 826628
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 213994
- mri_watershed ru_majflt 0
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 0
- mri_watershed ru_oublock 2408
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 1388
- mri_watershed ru_nivcsw 50
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Sat Oct 7 21:41:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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=22.1
- skull bounding box = (61, 68, 42) --> (187, 172, 208)
- using (103, 103, 125) as brain centroid...
- mean wm in atlas = 107, using box (88,90,105) --> (118, 115,145) to find MRI wm
- before smoothing, mri peak at 109
- robust fit to distribution - 108 +- 6.1
- after smoothing, mri peak at 108, scaling input intensities by 0.991
- scaling channel 0 by 0.990741
- initial log_p = -4.139
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.079138 @ (-9.091, -9.091, -9.091)
- max log p = -3.903545 @ (4.545, 4.545, -4.545)
- max log p = -3.871479 @ (2.273, -6.818, 2.273)
- max log p = -3.850935 @ (-1.136, 5.682, -3.409)
- max log p = -3.843773 @ (-0.568, -0.568, -1.705)
- max log p = -3.843773 @ (0.000, 0.000, 0.000)
- Found translation: (-4.0, -6.3, -16.5): log p = -3.844
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.477, old_max_log_p =-3.844 (thresh=-3.8)
- 1.14016 -0.01457 -0.13007 -4.61101;
- 0.00000 1.22023 -0.18169 -11.74489;
- 0.15011 0.11066 0.98799 -48.52572;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.477, old_max_log_p =-3.477 (thresh=-3.5)
- 1.14016 -0.01457 -0.13007 -4.61101;
- 0.00000 1.22023 -0.18169 -11.74489;
- 0.15011 0.11066 0.98799 -48.52572;
- 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=-3.169, old_max_log_p =-3.477 (thresh=-3.5)
- 1.10367 0.03629 -0.07023 -9.65118;
- -0.04304 1.17028 -0.20110 4.26556;
- 0.07797 0.15971 1.02438 -51.68795;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.169, old_max_log_p =-3.169 (thresh=-3.2)
- 1.10367 0.03629 -0.07023 -9.65118;
- -0.04304 1.17028 -0.20110 4.26556;
- 0.07797 0.15971 1.02438 -51.68795;
- 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=-3.115, old_max_log_p =-3.169 (thresh=-3.2)
- 1.09919 -0.00462 -0.08007 -2.30153;
- -0.00696 1.17213 -0.20408 -1.12907;
- 0.09613 0.16047 1.02429 -54.08475;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.109, old_max_log_p =-3.115 (thresh=-3.1)
- 1.10168 0.00499 -0.08186 -3.59776;
- -0.01522 1.17752 -0.19574 -1.79188;
- 0.09630 0.15102 1.02713 -53.27773;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.105, old_max_log_p =-3.109 (thresh=-3.1)
- 1.10168 0.00499 -0.08186 -3.59776;
- -0.01525 1.18028 -0.19620 -2.07566;
- 0.09630 0.15102 1.02713 -53.27773;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 7 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.105, old_max_log_p =-3.105 (thresh=-3.1)
- 1.10168 0.00499 -0.08186 -3.59776;
- -0.01525 1.18028 -0.19620 -2.07566;
- 0.09630 0.15102 1.02713 -53.27773;
- 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
- 1.10168 0.00499 -0.08186 -3.59776;
- -0.01525 1.18028 -0.19620 -2.07566;
- 0.09630 0.15102 1.02713 -53.27773;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 1.10168 0.00499 -0.08186 -3.59776;
- -0.01525 1.18028 -0.19620 -2.07566;
- 0.09630 0.15102 1.02713 -53.27773;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 010: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.10168 0.00499 -0.08186 -3.59776;
- -0.01525 1.18028 -0.19620 -2.07566;
- 0.09630 0.15102 1.02713 -53.27773;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.105 (old=-4.139)
- transform before final EM align:
- 1.10168 0.00499 -0.08186 -3.59776;
- -0.01525 1.18028 -0.19620 -2.07566;
- 0.09630 0.15102 1.02713 -53.27773;
- 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
- 1.10168 0.00499 -0.08186 -3.59776;
- -0.01525 1.18028 -0.19620 -2.07566;
- 0.09630 0.15102 1.02713 -53.27773;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 1.10168 0.00499 -0.08186 -3.59776;
- -0.01525 1.18028 -0.19620 -2.07566;
- 0.09630 0.15102 1.02713 -53.27773;
- 0.00000 0.00000 0.00000 1.00000;
- dfp_em_step_func: 011: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.00, -0.08, -3.60)
- ( -0.02, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- dfp_em_step_func: 012: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.00, -0.08, -3.60)
- ( -0.02, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- dfp_em_step_func: 013: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.01, -0.08, -3.60)
- ( -0.02, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- dfp_em_step_func: 014: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.01, -0.08, -3.60)
- ( -0.02, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- dfp_em_step_func: 015: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.01, -0.08, -3.60)
- ( -0.02, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- dfp_em_step_func: 016: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.01, -0.08, -3.60)
- ( -0.02, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- dfp_em_step_func: 017: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.01, -0.08, -3.60)
- ( -0.02, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- dfp_em_step_func: 018: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.01, -0.08, -3.60)
- ( -0.02, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- dfp_em_step_func: 019: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.01, -0.08, -3.60)
- ( -0.01, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- pass 2 through quasi-newton minimization...
- dfp_em_step_func: 020: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.01, -0.08, -3.60)
- ( -0.01, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- dfp_em_step_func: 021: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.01, -0.08, -3.60)
- ( -0.01, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- pass 3 through quasi-newton minimization...
- dfp_em_step_func: 022: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.01, -0.08, -3.60)
- ( -0.01, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- pass 4 through quasi-newton minimization...
- dfp_em_step_func: 023: -log(p) = 3.7
- after pass:transform: ( 1.10, 0.01, -0.08, -3.60)
- ( -0.01, 1.18, -0.20, -2.08)
- ( 0.10, 0.15, 1.03, -53.28)
- pass 5 through quasi-newton minimization...
- outof QuasiNewtonEMA: 025: -log(p) = 3.7 tol 0.000000
- final transform:
- 1.10211 0.00540 -0.08139 -3.59776;
- -0.01484 1.18075 -0.19563 -2.07566;
- 0.09658 0.15145 1.02738 -53.27773;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 1319.516403
- mri_em_register stimesec 1.515769
- mri_em_register ru_maxrss 599052
- mri_em_register ru_ixrss 0
- mri_em_register ru_idrss 0
- mri_em_register ru_isrss 0
- mri_em_register ru_minflt 158952
- mri_em_register ru_majflt 1
- mri_em_register ru_nswap 0
- mri_em_register ru_inblock 2888
- 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 208
- mri_em_register ru_nivcsw 2895
- registration took 11 minutes and 58 seconds.
- #--------------------------------------
- #@# CA Normalize Sat Oct 7 21:53:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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=22.1
- skull bounding box = (61, 68, 42) --> (187, 172, 208)
- using (103, 103, 125) as brain centroid...
- mean wm in atlas = 107, using box (88,90,105) --> (118, 115,145) to find MRI wm
- before smoothing, mri peak at 109
- robust fit to distribution - 108 +- 6.1
- after smoothing, mri peak at 108, scaling input intensities by 0.991
- scaling channel 0 by 0.990741
- using 246344 sample points...
- INFO: compute sample coordinates transform
- 1.10211 0.00540 -0.08139 -3.59776;
- -0.01484 1.18075 -0.19563 -2.07566;
- 0.09658 0.15145 1.02738 -53.27773;
- 0.00000 0.00000 0.00000 1.00000;
- INFO: transform used
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (121, 67, 46) --> (186, 172, 207)
- Left_Cerebral_White_Matter: limiting intensities to 95.0 --> 132.0
- 1 of 205 (0.5%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (67, 67, 50) --> (130, 173, 210)
- Right_Cerebral_White_Matter: limiting intensities to 92.0 --> 132.0
- 0 of 170 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (124, 135, 63) --> (169, 171, 115)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 0 of 11 (0.0%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (84, 135, 63) --> (124, 172, 119)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 0 of 23 (0.0%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (111, 133, 93) --> (142, 189, 129)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 0 of 10 (0.0%) samples deleted
- using 419 total control points for intensity normalization...
- bias field = 0.967 +- 0.050
- 0 of 418 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (121, 67, 46) --> (186, 172, 207)
- Left_Cerebral_White_Matter: limiting intensities to 92.0 --> 132.0
- 0 of 274 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (67, 67, 50) --> (130, 173, 210)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 6 of 270 (2.2%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (124, 135, 63) --> (169, 171, 115)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 27 of 77 (35.1%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (84, 135, 63) --> (124, 172, 119)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 26 of 65 (40.0%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (111, 133, 93) --> (142, 189, 129)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 94 of 122 (77.0%) samples deleted
- using 808 total control points for intensity normalization...
- bias field = 0.998 +- 0.053
- 2 of 637 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (121, 67, 46) --> (186, 172, 207)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 4 of 366 (1.1%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (67, 67, 50) --> (130, 173, 210)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 0 of 391 (0.0%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (124, 135, 63) --> (169, 171, 115)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 108 of 159 (67.9%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (84, 135, 63) --> (124, 172, 119)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 76 of 103 (73.8%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (111, 133, 93) --> (142, 189, 129)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 133 of 175 (76.0%) samples deleted
- using 1194 total control points for intensity normalization...
- bias field = 1.001 +- 0.050
- 2 of 864 control points discarded
- writing normalized volume to norm.mgz...
- writing control points to ctrl_pts.mgz
- freeing GCA...done.
- normalization took 1 minutes and 39 seconds.
- #--------------------------------------
- #@# CA Reg Sat Oct 7 21:54:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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) = 1.38 (predicted orig area = 5.8)
- label assignment complete, 0 changed (0.00%)
- freeing gibbs priors...done.
- average std[0] = 5.0
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.039
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.797, neg=0, invalid=762
- 0001: dt=178.619469, rms=0.743 (6.747%), neg=0, invalid=762
- 0002: dt=233.796531, rms=0.721 (2.951%), neg=0, invalid=762
- 0003: dt=154.407767, rms=0.712 (1.330%), neg=0, invalid=762
- 0004: dt=295.936000, rms=0.704 (1.020%), neg=0, invalid=762
- 0005: dt=129.472000, rms=0.698 (0.875%), neg=0, invalid=762
- 0006: dt=295.936000, rms=0.694 (0.626%), neg=0, invalid=762
- 0007: dt=129.472000, rms=0.690 (0.548%), neg=0, invalid=762
- 0008: dt=295.936000, rms=0.688 (0.329%), neg=0, invalid=762
- 0009: dt=129.472000, rms=0.685 (0.395%), neg=0, invalid=762
- 0010: dt=221.952000, rms=0.684 (0.206%), neg=0, invalid=762
- 0011: dt=221.952000, rms=0.682 (0.249%), neg=0, invalid=762
- 0012: dt=221.952000, rms=0.679 (0.484%), neg=0, invalid=762
- 0013: dt=221.952000, rms=0.676 (0.318%), neg=0, invalid=762
- 0014: dt=221.952000, rms=0.672 (0.588%), neg=0, invalid=762
- 0015: dt=221.952000, rms=0.670 (0.366%), neg=0, invalid=762
- 0016: dt=221.952000, rms=0.668 (0.313%), neg=0, invalid=762
- 0017: dt=221.952000, rms=0.665 (0.368%), neg=0, invalid=762
- 0018: dt=221.952000, rms=0.664 (0.210%), neg=0, invalid=762
- 0019: dt=221.952000, rms=0.662 (0.258%), neg=0, invalid=762
- 0020: dt=221.952000, rms=0.661 (0.139%), neg=0, invalid=762
- 0021: dt=221.952000, rms=0.660 (0.230%), neg=0, invalid=762
- 0022: dt=221.952000, rms=0.658 (0.227%), neg=0, invalid=762
- 0023: dt=221.952000, rms=0.657 (0.152%), neg=0, invalid=762
- 0024: dt=221.952000, rms=0.656 (0.251%), neg=0, invalid=762
- 0025: dt=221.952000, rms=0.654 (0.192%), neg=0, invalid=762
- 0026: dt=221.952000, rms=0.653 (0.202%), neg=0, invalid=762
- 0027: dt=221.952000, rms=0.652 (0.163%), neg=0, invalid=762
- 0028: dt=221.952000, rms=0.651 (0.155%), neg=0, invalid=762
- 0029: dt=221.952000, rms=0.650 (0.147%), neg=0, invalid=762
- 0030: dt=221.952000, rms=0.650 (0.073%), neg=0, invalid=762
- 0031: dt=221.952000, rms=0.649 (0.126%), neg=0, invalid=762
- 0032: dt=221.952000, rms=0.648 (0.134%), neg=0, invalid=762
- 0033: dt=221.952000, rms=0.647 (0.095%), neg=0, invalid=762
- 0034: dt=221.952000, rms=0.646 (0.131%), neg=0, invalid=762
- 0035: dt=221.952000, rms=0.646 (0.118%), neg=0, invalid=762
- 0036: dt=221.952000, rms=0.645 (0.119%), neg=0, invalid=762
- 0037: dt=221.952000, rms=0.644 (0.109%), neg=0, invalid=762
- 0038: dt=129.472000, rms=0.644 (0.013%), neg=0, invalid=762
- 0039: dt=129.472000, rms=0.644 (0.003%), neg=0, invalid=762
- 0040: dt=129.472000, rms=0.644 (0.008%), neg=0, invalid=762
- 0041: dt=129.472000, rms=0.644 (0.014%), neg=0, invalid=762
- 0042: dt=129.472000, rms=0.644 (0.016%), neg=0, invalid=762
- 0043: dt=129.472000, rms=0.644 (0.016%), neg=0, invalid=762
- 0044: dt=129.472000, rms=0.644 (0.014%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.644, neg=0, invalid=762
- 0045: dt=129.472000, rms=0.643 (0.188%), neg=0, invalid=762
- 0046: dt=221.952000, rms=0.643 (0.034%), neg=0, invalid=762
- 0047: dt=221.952000, rms=0.643 (0.036%), neg=0, invalid=762
- 0048: dt=221.952000, rms=0.642 (0.043%), neg=0, invalid=762
- 0049: dt=221.952000, rms=0.642 (0.037%), neg=0, invalid=762
- 0050: dt=221.952000, rms=0.642 (0.034%), neg=0, invalid=762
- setting smoothness coefficient to 0.154
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.648, neg=0, invalid=762
- 0051: dt=110.048780, rms=0.643 (0.734%), neg=0, invalid=762
- 0052: dt=143.407407, rms=0.637 (0.970%), neg=0, invalid=762
- 0053: dt=36.288000, rms=0.634 (0.482%), neg=0, invalid=762
- 0054: dt=145.152000, rms=0.630 (0.516%), neg=0, invalid=762
- 0055: dt=88.216216, rms=0.627 (0.590%), neg=0, invalid=762
- 0056: dt=36.288000, rms=0.625 (0.218%), neg=0, invalid=762
- 0057: dt=36.288000, rms=0.625 (0.130%), neg=0, invalid=762
- 0058: dt=36.288000, rms=0.623 (0.241%), neg=0, invalid=762
- 0059: dt=36.288000, rms=0.621 (0.342%), neg=0, invalid=762
- 0060: dt=36.288000, rms=0.618 (0.426%), neg=0, invalid=762
- 0061: dt=36.288000, rms=0.615 (0.462%), neg=0, invalid=762
- 0062: dt=36.288000, rms=0.612 (0.473%), neg=0, invalid=762
- 0063: dt=36.288000, rms=0.610 (0.455%), neg=0, invalid=762
- 0064: dt=36.288000, rms=0.607 (0.405%), neg=0, invalid=762
- 0065: dt=36.288000, rms=0.605 (0.374%), neg=0, invalid=762
- 0066: dt=36.288000, rms=0.603 (0.360%), neg=0, invalid=762
- 0067: dt=36.288000, rms=0.601 (0.337%), neg=0, invalid=762
- 0068: dt=36.288000, rms=0.599 (0.289%), neg=0, invalid=762
- 0069: dt=36.288000, rms=0.598 (0.244%), neg=0, invalid=762
- 0070: dt=36.288000, rms=0.596 (0.203%), neg=0, invalid=762
- 0071: dt=36.288000, rms=0.595 (0.179%), neg=0, invalid=762
- 0072: dt=36.288000, rms=0.594 (0.171%), neg=0, invalid=762
- 0073: dt=36.288000, rms=0.593 (0.166%), neg=0, invalid=762
- 0074: dt=36.288000, rms=0.592 (0.154%), neg=0, invalid=762
- 0075: dt=36.288000, rms=0.592 (0.138%), neg=0, invalid=762
- 0076: dt=36.288000, rms=0.591 (0.127%), neg=0, invalid=762
- 0077: dt=36.288000, rms=0.590 (0.116%), neg=0, invalid=762
- 0078: dt=36.288000, rms=0.589 (0.110%), neg=0, invalid=762
- 0079: dt=331.776000, rms=0.589 (0.099%), neg=0, invalid=762
- 0080: dt=331.776000, rms=0.589 (-2.012%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.589, neg=0, invalid=762
- 0081: dt=71.910112, rms=0.588 (0.253%), neg=0, invalid=762
- 0082: dt=124.416000, rms=0.587 (0.084%), neg=0, invalid=762
- 0083: dt=124.416000, rms=0.587 (-0.022%), neg=0, invalid=762
- setting smoothness coefficient to 0.588
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.608, neg=0, invalid=762
- 0084: dt=2.000000, rms=0.608 (0.104%), neg=0, invalid=762
- 0085: dt=0.700000, rms=0.608 (0.000%), neg=0, invalid=762
- 0086: dt=0.700000, rms=0.608 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.608, neg=0, invalid=762
- 0087: dt=0.000000, rms=0.608 (0.094%), neg=0, invalid=762
- 0088: dt=0.000000, rms=0.608 (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=0.668, neg=0, invalid=762
- 0089: dt=5.125749, rms=0.650 (2.586%), neg=0, invalid=762
- 0090: dt=1.827586, rms=0.650 (0.063%), neg=0, invalid=762
- 0091: dt=1.827586, rms=0.650 (-0.031%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.650, neg=0, invalid=762
- 0092: dt=0.000000, rms=0.650 (0.078%), neg=0, invalid=762
- 0093: dt=0.000000, rms=0.650 (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=0.711, neg=0, invalid=762
- 0094: dt=1.536000, rms=0.706 (0.754%), neg=0, invalid=762
- 0095: dt=1.886905, rms=0.701 (0.772%), neg=0, invalid=762
- 0096: dt=0.256000, rms=0.701 (0.012%), neg=0, invalid=762
- 0097: dt=0.256000, rms=0.700 (0.004%), neg=0, invalid=762
- 0098: dt=0.256000, rms=0.700 (-0.013%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.701, neg=0, invalid=762
- 0099: dt=1.024000, rms=0.700 (0.203%), neg=0, invalid=762
- 0100: dt=1.280000, rms=0.699 (0.070%), neg=0, invalid=762
- 0101: dt=1.280000, rms=0.699 (-0.020%), 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=0.656, neg=0, invalid=762
- 0102: dt=0.914502, rms=0.635 (3.171%), neg=0, invalid=762
- 0103: dt=0.080000, rms=0.634 (0.167%), neg=0, invalid=762
- 0104: dt=0.080000, rms=0.634 (-0.086%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.634, neg=0, invalid=762
- 0105: dt=0.028000, rms=0.634 (0.104%), neg=0, invalid=762
- 0106: dt=0.007000, rms=0.634 (0.002%), neg=0, invalid=762
- 0107: dt=0.007000, rms=0.634 (-0.000%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.06912 (13)
- Left_Lateral_Ventricle (4): linear fit = 0.69 x + 0.0 (335 voxels, overlap=0.287)
- Left_Lateral_Ventricle (4): linear fit = 0.69 x + 0.0 (335 voxels, peak = 14), gca=13.7
- gca peak = 0.15565 (16)
- mri peak = 0.06824 (10)
- Right_Lateral_Ventricle (43): linear fit = 0.62 x + 0.0 (310 voxels, overlap=0.517)
- Right_Lateral_Ventricle (43): linear fit = 0.62 x + 0.0 (310 voxels, peak = 10), gca=9.8
- gca peak = 0.26829 (96)
- mri peak = 0.07821 (94)
- Right_Pallidum (52): linear fit = 0.96 x + 0.0 (579 voxels, overlap=0.999)
- Right_Pallidum (52): linear fit = 0.96 x + 0.0 (579 voxels, peak = 93), gca=92.6
- gca peak = 0.20183 (93)
- mri peak = 0.08349 (94)
- Left_Pallidum (13): linear fit = 0.99 x + 0.0 (545 voxels, overlap=1.006)
- Left_Pallidum (13): linear fit = 0.99 x + 0.0 (545 voxels, peak = 92), gca=91.6
- gca peak = 0.21683 (55)
- mri peak = 0.07885 (57)
- Right_Hippocampus (53): linear fit = 1.02 x + 0.0 (601 voxels, overlap=0.995)
- Right_Hippocampus (53): linear fit = 1.02 x + 0.0 (601 voxels, peak = 56), gca=56.4
- gca peak = 0.30730 (58)
- mri peak = 0.09086 (56)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (531 voxels, overlap=0.963)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (531 voxels, peak = 55), gca=54.8
- gca peak = 0.11430 (101)
- mri peak = 0.08851 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.05 x + 0.0 (47415 voxels, overlap=0.619)
- Right_Cerebral_White_Matter (41): linear fit = 1.05 x + 0.0 (47415 voxels, peak = 107), gca=106.6
- gca peak = 0.12076 (102)
- mri peak = 0.09739 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (48271 voxels, overlap=0.587)
- Left_Cerebral_White_Matter (2): linear fit = 1.04 x + 0.0 (48271 voxels, peak = 107), gca=106.6
- gca peak = 0.14995 (59)
- mri peak = 0.04827 (52)
- Left_Cerebral_Cortex (3): linear fit = 0.87 x + 0.0 (14589 voxels, overlap=0.434)
- Left_Cerebral_Cortex (3): linear fit = 0.87 x + 0.0 (14589 voxels, peak = 51), gca=51.0
- gca peak = 0.15082 (58)
- mri peak = 0.04529 (49)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (14655 voxels, overlap=0.755)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (14655 voxels, peak = 52), gca=51.9
- gca peak = 0.14161 (67)
- mri peak = 0.06878 (74)
- Right_Caudate (50): linear fit = 1.05 x + 0.0 (676 voxels, overlap=0.995)
- Right_Caudate (50): linear fit = 1.05 x + 0.0 (676 voxels, peak = 71), gca=70.7
- gca peak = 0.15243 (71)
- mri peak = 0.07708 (72)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (745 voxels, overlap=0.994)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (745 voxels, peak = 71), gca=71.0
- gca peak = 0.13336 (57)
- mri peak = 0.03513 (56)
- Left_Cerebellum_Cortex (8): linear fit = 0.96 x + 0.0 (11664 voxels, overlap=0.974)
- Left_Cerebellum_Cortex (8): linear fit = 0.96 x + 0.0 (11664 voxels, peak = 55), gca=55.0
- gca peak = 0.13252 (56)
- mri peak = 0.04306 (59)
- Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (13028 voxels, overlap=0.944)
- Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (13028 voxels, peak = 59), gca=58.5
- gca peak = 0.18181 (84)
- mri peak = 0.08082 (85)
- Left_Cerebellum_White_Matter (7): linear fit = 1.03 x + 0.0 (6689 voxels, overlap=0.893)
- Left_Cerebellum_White_Matter (7): linear fit = 1.03 x + 0.0 (6689 voxels, peak = 87), gca=86.9
- gca peak = 0.20573 (83)
- mri peak = 0.08191 (83)
- Right_Cerebellum_White_Matter (46): linear fit = 1.03 x + 0.0 (5759 voxels, overlap=0.872)
- Right_Cerebellum_White_Matter (46): linear fit = 1.03 x + 0.0 (5759 voxels, peak = 86), gca=85.9
- gca peak = 0.21969 (57)
- mri peak = 0.10730 (54)
- Left_Amygdala (18): linear fit = 0.94 x + 0.0 (361 voxels, overlap=0.999)
- Left_Amygdala (18): linear fit = 0.94 x + 0.0 (361 voxels, peak = 54), gca=53.9
- gca peak = 0.39313 (56)
- mri peak = 0.11260 (59)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (400 voxels, overlap=1.003)
- Right_Amygdala (54): linear fit = 1.04 x + 0.0 (400 voxels, peak = 59), gca=58.5
- gca peak = 0.14181 (85)
- mri peak = 0.05133 (87)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (4263 voxels, overlap=0.995)
- Left_Thalamus_Proper (10): linear fit = 1.01 x + 0.0 (4263 voxels, peak = 86), gca=86.3
- gca peak = 0.11978 (83)
- mri peak = 0.05754 (87)
- Right_Thalamus_Proper (49): linear fit = 1.05 x + 0.0 (3667 voxels, overlap=0.929)
- Right_Thalamus_Proper (49): linear fit = 1.05 x + 0.0 (3667 voxels, peak = 88), gca=87.6
- gca peak = 0.13399 (79)
- mri peak = 0.07151 (78)
- Left_Putamen (12): linear fit = 0.99 x + 0.0 (1866 voxels, overlap=0.997)
- Left_Putamen (12): linear fit = 0.99 x + 0.0 (1866 voxels, peak = 78), gca=77.8
- gca peak = 0.14159 (79)
- mri peak = 0.06684 (76)
- Right_Putamen (51): linear fit = 0.98 x + 0.0 (1923 voxels, overlap=0.998)
- Right_Putamen (51): linear fit = 0.98 x + 0.0 (1923 voxels, peak = 77), gca=77.0
- gca peak = 0.10025 (80)
- mri peak = 0.09525 (81)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (10266 voxels, overlap=0.402)
- Brain_Stem (16): linear fit = 1.10 x + 0.0 (10266 voxels, peak = 88), gca=87.6
- gca peak = 0.13281 (86)
- mri peak = 0.06680 (97)
- Right_VentralDC (60): linear fit = 1.12 x + 0.0 (712 voxels, overlap=0.498)
- Right_VentralDC (60): linear fit = 1.12 x + 0.0 (712 voxels, peak = 97), gca=96.8
- gca peak = 0.12801 (89)
- mri peak = 0.06274 (96)
- Left_VentralDC (28): linear fit = 1.09 x + 0.0 (835 voxels, overlap=0.853)
- Left_VentralDC (28): linear fit = 1.09 x + 0.0 (835 voxels, peak = 97), gca=96.6
- gca peak = 0.20494 (23)
- mri peak = 0.03438 ( 7)
- gca peak = 0.15061 (21)
- mri peak = 0.08641 (14)
- Fourth_Ventricle (15): linear fit = 0.62 x + 0.0 (315 voxels, overlap=0.439)
- Fourth_Ventricle (15): linear fit = 0.62 x + 0.0 (315 voxels, peak = 13), gca=12.9
- 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 0.95 x + 0.0
- estimating mean wm scale to be 1.05 x + 0.0
- estimating mean csf scale to be 0.65 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=0.663, neg=0, invalid=762
- 0108: dt=135.058824, rms=0.658 (0.888%), neg=0, invalid=762
- 0109: dt=129.472000, rms=0.656 (0.290%), neg=0, invalid=762
- 0110: dt=129.472000, rms=0.654 (0.221%), neg=0, invalid=762
- 0111: dt=221.952000, rms=0.653 (0.211%), neg=0, invalid=762
- 0112: dt=110.976000, rms=0.652 (0.152%), neg=0, invalid=762
- 0113: dt=129.472000, rms=0.651 (0.110%), neg=0, invalid=762
- 0114: dt=295.936000, rms=0.650 (0.132%), neg=0, invalid=762
- 0115: dt=92.480000, rms=0.649 (0.116%), neg=0, invalid=762
- 0116: dt=443.904000, rms=0.648 (0.157%), neg=0, invalid=762
- 0117: dt=92.480000, rms=0.648 (0.095%), neg=0, invalid=762
- 0118: dt=369.920000, rms=0.647 (0.089%), neg=0, invalid=762
- 0119: dt=92.480000, rms=0.647 (0.076%), neg=0, invalid=762
- 0120: dt=369.920000, rms=0.646 (0.081%), neg=0, invalid=762
- 0121: dt=92.480000, rms=0.646 (0.048%), neg=0, invalid=762
- 0122: dt=92.480000, rms=0.646 (0.031%), neg=0, invalid=762
- 0123: dt=92.480000, rms=0.645 (0.038%), neg=0, invalid=762
- 0124: dt=92.480000, rms=0.645 (0.055%), neg=0, invalid=762
- 0125: dt=92.480000, rms=0.645 (0.063%), neg=0, invalid=762
- 0126: dt=92.480000, rms=0.644 (0.068%), neg=0, invalid=762
- 0127: dt=92.480000, rms=0.644 (0.071%), neg=0, invalid=762
- 0128: dt=92.480000, rms=0.643 (0.062%), neg=0, invalid=762
- 0129: dt=92.480000, rms=0.643 (0.059%), neg=0, invalid=762
- 0130: dt=92.480000, rms=0.643 (0.054%), neg=0, invalid=762
- 0131: dt=92.480000, rms=0.642 (0.054%), neg=0, invalid=762
- 0132: dt=92.480000, rms=0.642 (0.051%), neg=0, invalid=762
- 0133: dt=92.480000, rms=0.642 (0.048%), neg=0, invalid=762
- 0134: dt=92.480000, rms=0.641 (0.046%), neg=0, invalid=762
- 0135: dt=92.480000, rms=0.641 (0.047%), neg=0, invalid=762
- 0136: dt=92.480000, rms=0.641 (0.046%), neg=0, invalid=762
- 0137: dt=92.480000, rms=0.641 (0.049%), neg=0, invalid=762
- 0138: dt=92.480000, rms=0.640 (0.053%), neg=0, invalid=762
- 0139: dt=92.480000, rms=0.640 (0.055%), neg=0, invalid=762
- 0140: dt=92.480000, rms=0.639 (0.059%), neg=0, invalid=762
- 0141: dt=92.480000, rms=0.639 (0.060%), neg=0, invalid=762
- 0142: dt=92.480000, rms=0.639 (0.059%), neg=0, invalid=762
- 0143: dt=92.480000, rms=0.638 (0.058%), neg=0, invalid=762
- 0144: dt=92.480000, rms=0.638 (0.054%), neg=0, invalid=762
- 0145: dt=92.480000, rms=0.638 (0.053%), neg=0, invalid=762
- 0146: dt=92.480000, rms=0.637 (0.053%), neg=0, invalid=762
- 0147: dt=92.480000, rms=0.637 (0.053%), neg=0, invalid=762
- 0148: dt=92.480000, rms=0.637 (0.050%), neg=0, invalid=762
- 0149: dt=92.480000, rms=0.636 (0.047%), neg=0, invalid=762
- 0150: dt=92.480000, rms=0.636 (0.045%), neg=0, invalid=762
- 0151: dt=92.480000, rms=0.636 (0.041%), neg=0, invalid=762
- 0152: dt=92.480000, rms=0.636 (0.038%), neg=0, invalid=762
- 0153: dt=92.480000, rms=0.635 (0.036%), neg=0, invalid=762
- 0154: dt=92.480000, rms=0.635 (0.035%), neg=0, invalid=762
- 0155: dt=92.480000, rms=0.635 (0.033%), neg=0, invalid=762
- 0156: dt=92.480000, rms=0.635 (0.034%), neg=0, invalid=762
- 0157: dt=92.480000, rms=0.634 (0.034%), neg=0, invalid=762
- 0158: dt=92.480000, rms=0.634 (0.031%), neg=0, invalid=762
- 0159: dt=92.480000, rms=0.634 (0.030%), neg=0, invalid=762
- 0160: dt=92.480000, rms=0.634 (0.028%), neg=0, invalid=762
- 0161: dt=92.480000, rms=0.634 (0.026%), neg=0, invalid=762
- 0162: dt=92.480000, rms=0.634 (0.025%), neg=0, invalid=762
- 0163: dt=92.480000, rms=0.633 (0.024%), neg=0, invalid=762
- 0164: dt=1183.744000, rms=0.633 (0.013%), neg=0, invalid=762
- 0165: dt=1183.744000, rms=0.633 (-1.315%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.634, neg=0, invalid=762
- 0166: dt=129.472000, rms=0.632 (0.251%), neg=0, invalid=762
- 0167: dt=295.936000, rms=0.632 (0.085%), neg=0, invalid=762
- 0168: dt=129.472000, rms=0.632 (0.069%), neg=0, invalid=762
- 0169: dt=110.976000, rms=0.631 (0.024%), neg=0, invalid=762
- 0170: dt=110.976000, rms=0.631 (0.022%), neg=0, invalid=762
- 0171: dt=110.976000, rms=0.631 (0.033%), neg=0, invalid=762
- 0172: dt=110.976000, rms=0.631 (0.039%), neg=0, invalid=762
- 0173: dt=110.976000, rms=0.630 (0.041%), neg=0, invalid=762
- 0174: dt=110.976000, rms=0.630 (0.040%), neg=0, invalid=762
- 0175: dt=110.976000, rms=0.630 (0.045%), neg=0, invalid=762
- 0176: dt=110.976000, rms=0.630 (0.041%), neg=0, invalid=762
- 0177: dt=110.976000, rms=0.629 (0.033%), neg=0, invalid=762
- 0178: dt=110.976000, rms=0.629 (0.030%), neg=0, invalid=762
- 0179: dt=110.976000, rms=0.629 (0.032%), neg=0, invalid=762
- 0180: dt=110.976000, rms=0.629 (0.030%), neg=0, invalid=762
- 0181: dt=110.976000, rms=0.629 (0.027%), neg=0, invalid=762
- 0182: dt=110.976000, rms=0.629 (0.023%), neg=0, invalid=762
- 0183: dt=110.976000, rms=0.628 (0.021%), neg=0, invalid=762
- 0184: dt=517.888000, rms=0.628 (0.017%), neg=0, invalid=762
- 0185: dt=517.888000, rms=0.628 (-0.263%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.630, neg=0, invalid=762
- 0186: dt=65.201072, rms=0.626 (0.506%), neg=0, invalid=762
- 0187: dt=228.298507, rms=0.620 (0.986%), neg=0, invalid=762
- 0188: dt=45.104762, rms=0.617 (0.511%), neg=0, invalid=762
- 0189: dt=580.608000, rms=0.605 (2.017%), neg=0, invalid=762
- 0190: dt=36.288000, rms=0.603 (0.306%), neg=0, invalid=762
- 0191: dt=36.288000, rms=0.603 (0.037%), neg=0, invalid=762
- 0192: dt=36.288000, rms=0.602 (0.039%), neg=0, invalid=762
- 0193: dt=36.288000, rms=0.602 (0.065%), neg=0, invalid=762
- 0194: dt=36.288000, rms=0.601 (0.101%), neg=0, invalid=762
- 0195: dt=36.288000, rms=0.600 (0.151%), neg=0, invalid=762
- 0196: dt=36.288000, rms=0.599 (0.220%), neg=0, invalid=762
- 0197: dt=36.288000, rms=0.597 (0.280%), neg=0, invalid=762
- 0198: dt=36.288000, rms=0.596 (0.311%), neg=0, invalid=762
- 0199: dt=36.288000, rms=0.594 (0.306%), neg=0, invalid=762
- 0200: dt=36.288000, rms=0.592 (0.289%), neg=0, invalid=762
- 0201: dt=36.288000, rms=0.590 (0.263%), neg=0, invalid=762
- 0202: dt=36.288000, rms=0.589 (0.226%), neg=0, invalid=762
- 0203: dt=36.288000, rms=0.588 (0.187%), neg=0, invalid=762
- 0204: dt=36.288000, rms=0.587 (0.163%), neg=0, invalid=762
- 0205: dt=36.288000, rms=0.586 (0.156%), neg=0, invalid=762
- 0206: dt=36.288000, rms=0.585 (0.155%), neg=0, invalid=762
- 0207: dt=36.288000, rms=0.584 (0.162%), neg=0, invalid=762
- 0208: dt=36.288000, rms=0.583 (0.167%), neg=0, invalid=762
- 0209: dt=36.288000, rms=0.582 (0.166%), neg=0, invalid=762
- 0210: dt=36.288000, rms=0.581 (0.157%), neg=0, invalid=762
- 0211: dt=36.288000, rms=0.581 (0.148%), neg=0, invalid=762
- 0212: dt=36.288000, rms=0.580 (0.141%), neg=0, invalid=762
- 0213: dt=36.288000, rms=0.579 (0.129%), neg=0, invalid=762
- 0214: dt=36.288000, rms=0.578 (0.127%), neg=0, invalid=762
- 0215: dt=36.288000, rms=0.578 (0.120%), neg=0, invalid=762
- 0216: dt=36.288000, rms=0.577 (0.114%), neg=0, invalid=762
- 0217: dt=36.288000, rms=0.576 (0.108%), neg=0, invalid=762
- 0218: dt=36.288000, rms=0.576 (0.104%), neg=0, invalid=762
- 0219: dt=36.288000, rms=0.575 (0.102%), neg=0, invalid=762
- 0220: dt=36.288000, rms=0.575 (0.101%), neg=0, invalid=762
- 0221: dt=36.288000, rms=0.574 (0.099%), neg=0, invalid=762
- 0222: dt=36.288000, rms=0.573 (0.098%), neg=0, invalid=762
- 0223: dt=36.288000, rms=0.573 (0.088%), neg=0, invalid=762
- 0224: dt=36.288000, rms=0.572 (0.085%), neg=0, invalid=762
- 0225: dt=36.288000, rms=0.572 (0.079%), neg=0, invalid=762
- 0226: dt=36.288000, rms=0.572 (0.075%), neg=0, invalid=762
- 0227: dt=36.288000, rms=0.571 (0.072%), neg=0, invalid=762
- 0228: dt=36.288000, rms=0.571 (0.070%), neg=0, invalid=762
- 0229: dt=36.288000, rms=0.570 (0.067%), neg=0, invalid=762
- 0230: dt=36.288000, rms=0.570 (0.068%), neg=0, invalid=762
- 0231: dt=36.288000, rms=0.570 (0.069%), neg=0, invalid=762
- 0232: dt=36.288000, rms=0.569 (0.069%), neg=0, invalid=762
- 0233: dt=36.288000, rms=0.569 (0.065%), neg=0, invalid=762
- 0234: dt=36.288000, rms=0.568 (0.061%), neg=0, invalid=762
- 0235: dt=36.288000, rms=0.568 (0.054%), neg=0, invalid=762
- 0236: dt=36.288000, rms=0.568 (0.052%), neg=0, invalid=762
- 0237: dt=36.288000, rms=0.568 (0.053%), neg=0, invalid=762
- 0238: dt=36.288000, rms=0.567 (0.052%), neg=0, invalid=762
- 0239: dt=36.288000, rms=0.567 (0.052%), neg=0, invalid=762
- 0240: dt=36.288000, rms=0.567 (0.051%), neg=0, invalid=762
- 0241: dt=36.288000, rms=0.567 (0.007%), neg=0, invalid=762
- 0242: dt=36.288000, rms=0.567 (0.010%), neg=0, invalid=762
- 0243: dt=36.288000, rms=0.566 (0.013%), neg=0, invalid=762
- 0244: dt=36.288000, rms=0.566 (0.016%), neg=0, invalid=762
- 0245: dt=36.288000, rms=0.566 (0.019%), neg=0, invalid=762
- 0246: dt=36.288000, rms=0.566 (0.022%), neg=0, invalid=762
- 0247: dt=36.288000, rms=0.566 (0.025%), neg=0, invalid=762
- 0248: dt=36.288000, rms=0.566 (0.002%), neg=0, invalid=762
- 0249: dt=36.288000, rms=0.566 (0.006%), neg=0, invalid=762
- 0250: dt=18.144000, rms=0.566 (0.004%), neg=0, invalid=762
- 0251: dt=2.268000, rms=0.566 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.567, neg=0, invalid=762
- 0252: dt=0.141750, rms=0.566 (0.148%), neg=0, invalid=762
- 0253: dt=0.035437, rms=0.566 (0.000%), neg=0, invalid=762
- 0254: dt=0.017719, rms=0.566 (0.000%), neg=0, invalid=762
- 0255: dt=0.008859, rms=0.566 (0.000%), neg=0, invalid=762
- 0256: dt=0.004430, rms=0.566 (0.000%), neg=0, invalid=762
- 0257: dt=0.004050, rms=0.566 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.574, neg=0, invalid=762
- 0258: dt=144.204413, rms=0.557 (2.916%), neg=0, invalid=762
- 0259: dt=58.438503, rms=0.548 (1.601%), neg=0, invalid=762
- 0260: dt=25.600000, rms=0.545 (0.596%), neg=0, invalid=762
- 0261: dt=44.800000, rms=0.542 (0.479%), neg=0, invalid=762
- 0262: dt=2.800000, rms=0.542 (0.064%), neg=0, invalid=762
- 0263: dt=2.800000, rms=0.541 (0.048%), neg=0, invalid=762
- 0264: dt=0.700000, rms=0.541 (0.013%), neg=0, invalid=762
- 0265: dt=0.350000, rms=0.541 (0.005%), neg=0, invalid=762
- 0266: dt=0.175000, rms=0.541 (0.003%), neg=0, invalid=762
- 0267: dt=0.043750, rms=0.541 (0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.542, neg=0, invalid=762
- 0268: dt=0.043750, rms=0.541 (0.213%), neg=0, invalid=762
- 0269: dt=0.010937, rms=0.541 (0.000%), neg=0, invalid=762
- 0270: dt=0.010937, rms=0.541 (0.001%), neg=0, invalid=762
- 0271: dt=0.002734, rms=0.541 (0.000%), neg=0, invalid=762
- 0272: dt=0.001367, rms=0.541 (-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=0.559, neg=0, invalid=762
- 0273: dt=12.908766, rms=0.552 (1.193%), neg=0, invalid=762
- 0274: dt=16.128000, rms=0.546 (1.074%), neg=0, invalid=762
- 0275: dt=19.040000, rms=0.544 (0.394%), neg=0, invalid=762
- 0276: dt=15.497382, rms=0.542 (0.473%), neg=0, invalid=762
- 0277: dt=7.850932, rms=0.541 (0.140%), neg=0, invalid=762
- 0278: dt=46.080000, rms=0.538 (0.552%), neg=0, invalid=762
- 0279: dt=8.727273, rms=0.538 (0.040%), neg=0, invalid=762
- 0280: dt=8.727273, rms=0.537 (0.062%), neg=0, invalid=762
- 0281: dt=8.727273, rms=0.537 (0.075%), neg=0, invalid=762
- 0282: dt=8.727273, rms=0.536 (0.110%), neg=0, invalid=762
- 0283: dt=8.727273, rms=0.536 (0.143%), neg=0, invalid=762
- 0284: dt=8.727273, rms=0.535 (0.157%), neg=0, invalid=762
- 0285: dt=8.727273, rms=0.534 (0.152%), neg=0, invalid=762
- 0286: dt=8.727273, rms=0.533 (0.129%), neg=0, invalid=762
- 0287: dt=8.727273, rms=0.533 (0.006%), neg=0, invalid=762
- 0288: dt=8.727273, rms=0.533 (0.001%), neg=0, invalid=762
- 0289: dt=9.216000, rms=0.533 (0.007%), neg=0, invalid=762
- 0290: dt=4.032000, rms=0.533 (0.007%), neg=0, invalid=762
- 0291: dt=64.512000, rms=0.533 (0.025%), neg=0, invalid=762
- 0292: dt=13.824000, rms=0.533 (0.033%), neg=0, invalid=762
- 0293: dt=1.008000, rms=0.533 (0.004%), neg=0, invalid=762
- 0294: dt=1.008000, rms=0.533 (0.005%), neg=0, invalid=762
- 0295: dt=0.252000, rms=0.533 (0.003%), neg=0, invalid=762
- 0296: dt=0.126000, rms=0.533 (0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.534, neg=0, invalid=762
- 0297: dt=8.705290, rms=0.532 (0.401%), neg=0, invalid=762
- 0298: dt=8.406780, rms=0.531 (0.043%), neg=0, invalid=762
- 0299: dt=8.406780, rms=0.531 (0.016%), neg=0, invalid=762
- 0300: dt=8.406780, rms=0.531 (0.016%), neg=0, invalid=762
- 0301: dt=8.406780, rms=0.531 (-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=0.547, neg=0, invalid=762
- 0302: dt=0.000000, rms=0.546 (0.142%), neg=0, invalid=762
- 0303: dt=0.000000, rms=0.546 (0.000%), neg=0, invalid=762
- 0304: dt=0.100000, rms=0.546 (-0.142%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.547, neg=0, invalid=762
- 0305: dt=0.000000, rms=0.546 (0.142%), neg=0, invalid=762
- 0306: dt=0.000000, rms=0.546 (0.000%), neg=0, invalid=762
- 0307: dt=0.100000, rms=0.546 (-0.116%), 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=0.522, neg=0, invalid=762
- 0308: dt=0.448000, rms=0.506 (3.095%), neg=0, invalid=762
- 0309: dt=0.448000, rms=0.502 (0.684%), neg=0, invalid=762
- 0310: dt=0.384000, rms=0.501 (0.355%), neg=0, invalid=762
- 0311: dt=0.112000, rms=0.500 (0.067%), neg=0, invalid=762
- 0312: dt=0.384000, rms=0.499 (0.226%), neg=0, invalid=762
- 0313: dt=0.384000, rms=0.498 (0.161%), neg=0, invalid=762
- 0314: dt=0.112000, rms=0.498 (0.040%), neg=0, invalid=762
- 0315: dt=0.112000, rms=0.498 (0.038%), neg=0, invalid=762
- 0316: dt=0.112000, rms=0.498 (0.069%), neg=0, invalid=762
- 0317: dt=0.112000, rms=0.497 (0.091%), neg=0, invalid=762
- 0318: dt=0.112000, rms=0.497 (0.102%), neg=0, invalid=762
- 0319: dt=0.112000, rms=0.496 (0.112%), neg=0, invalid=762
- 0320: dt=0.112000, rms=0.495 (0.112%), neg=0, invalid=762
- 0321: dt=0.112000, rms=0.495 (0.106%), neg=0, invalid=762
- 0322: dt=0.112000, rms=0.494 (0.100%), neg=0, invalid=762
- 0323: dt=0.112000, rms=0.494 (0.083%), neg=0, invalid=762
- 0324: dt=0.112000, rms=0.494 (0.071%), neg=0, invalid=762
- 0325: dt=0.112000, rms=0.493 (0.056%), neg=0, invalid=762
- 0326: dt=0.112000, rms=0.493 (0.045%), neg=0, invalid=762
- 0327: dt=0.112000, rms=0.493 (0.032%), neg=0, invalid=762
- 0328: dt=0.112000, rms=0.493 (0.019%), neg=0, invalid=762
- 0329: dt=0.112000, rms=0.493 (0.013%), neg=0, invalid=762
- 0330: dt=0.000000, rms=0.493 (-0.002%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.494, neg=0, invalid=762
- 0331: dt=0.112000, rms=0.491 (0.450%), neg=0, invalid=762
- 0332: dt=0.260417, rms=0.489 (0.498%), neg=0, invalid=762
- 0333: dt=0.320000, rms=0.488 (0.272%), neg=0, invalid=762
- 0334: dt=0.320000, rms=0.487 (0.089%), neg=0, invalid=762
- 0335: dt=0.320000, rms=0.487 (0.027%), neg=0, invalid=762
- 0336: dt=0.320000, rms=0.487 (0.008%), neg=0, invalid=762
- 0337: dt=0.320000, rms=0.487 (-0.001%), 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=0.485, neg=0, invalid=762
- 0338: dt=0.000000, rms=0.485 (0.172%), neg=0, invalid=762
- 0339: dt=0.000000, rms=0.485 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.485, neg=0, invalid=762
- 0340: dt=129.472000, rms=0.484 (0.213%), neg=0, invalid=762
- 0341: dt=92.480000, rms=0.484 (0.028%), neg=0, invalid=762
- 0342: dt=92.480000, rms=0.484 (0.001%), neg=0, invalid=762
- 0343: dt=92.480000, rms=0.484 (0.027%), neg=0, invalid=762
- 0344: dt=92.480000, rms=0.484 (0.024%), neg=0, invalid=762
- 0345: dt=92.480000, rms=0.484 (0.020%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.485, neg=0, invalid=762
- 0346: dt=9.072000, rms=0.484 (0.189%), neg=0, invalid=762
- 0347: dt=6.480000, rms=0.484 (0.001%), neg=0, invalid=762
- 0348: dt=6.480000, rms=0.484 (0.001%), neg=0, invalid=762
- 0349: dt=6.480000, rms=0.484 (-0.009%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.485, neg=0, invalid=762
- 0350: dt=82.944000, rms=0.483 (0.438%), neg=0, invalid=762
- 0351: dt=36.288000, rms=0.482 (0.156%), neg=0, invalid=762
- 0352: dt=36.288000, rms=0.481 (0.081%), neg=0, invalid=762
- 0353: dt=36.288000, rms=0.481 (0.108%), neg=0, invalid=762
- 0354: dt=36.288000, rms=0.480 (0.147%), neg=0, invalid=762
- 0355: dt=36.288000, rms=0.480 (0.130%), neg=0, invalid=762
- 0356: dt=36.288000, rms=0.479 (0.125%), neg=0, invalid=762
- 0357: dt=36.288000, rms=0.478 (0.107%), neg=0, invalid=762
- 0358: dt=36.288000, rms=0.478 (0.085%), neg=0, invalid=762
- 0359: dt=36.288000, rms=0.478 (0.025%), neg=0, invalid=762
- 0360: dt=36.288000, rms=0.478 (0.018%), neg=0, invalid=762
- 0361: dt=36.288000, rms=0.478 (0.029%), neg=0, invalid=762
- 0362: dt=36.288000, rms=0.478 (0.039%), neg=0, invalid=762
- 0363: dt=36.288000, rms=0.477 (0.044%), neg=0, invalid=762
- 0364: dt=36.288000, rms=0.477 (0.047%), neg=0, invalid=762
- 0365: dt=36.288000, rms=0.477 (0.043%), neg=0, invalid=762
- 0366: dt=36.288000, rms=0.477 (0.048%), neg=0, invalid=762
- 0367: dt=36.288000, rms=0.476 (0.050%), neg=0, invalid=762
- 0368: dt=36.288000, rms=0.476 (0.048%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.477, neg=0, invalid=762
- 0369: dt=11.200000, rms=0.476 (0.315%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 9 iterations, nbhd size=1, neg = 0
- 0370: dt=25.600000, rms=0.475 (0.141%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0371: dt=25.600000, rms=0.474 (0.292%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 10 iterations, nbhd size=1, neg = 0
- 0372: dt=25.600000, rms=0.472 (0.327%), neg=0, invalid=762
- iter 0, gcam->neg = 15
- after 11 iterations, nbhd size=1, neg = 0
- 0373: dt=25.600000, rms=0.471 (0.234%), neg=0, invalid=762
- iter 0, gcam->neg = 37
- after 11 iterations, nbhd size=1, neg = 0
- 0374: dt=25.600000, rms=0.470 (0.245%), neg=0, invalid=762
- iter 0, gcam->neg = 48
- after 19 iterations, nbhd size=1, neg = 0
- 0375: dt=25.600000, rms=0.469 (0.216%), neg=0, invalid=762
- iter 0, gcam->neg = 35
- after 11 iterations, nbhd size=1, neg = 0
- 0376: dt=25.600000, rms=0.468 (0.274%), neg=0, invalid=762
- iter 0, gcam->neg = 69
- after 19 iterations, nbhd size=1, neg = 0
- 0377: dt=25.600000, rms=0.467 (0.197%), neg=0, invalid=762
- iter 0, gcam->neg = 41
- after 14 iterations, nbhd size=1, neg = 0
- 0378: dt=25.600000, rms=0.466 (0.191%), neg=0, invalid=762
- iter 0, gcam->neg = 19
- after 10 iterations, nbhd size=1, neg = 0
- 0379: dt=25.600000, rms=0.465 (0.169%), neg=0, invalid=762
- iter 0, gcam->neg = 30
- after 11 iterations, nbhd size=1, neg = 0
- 0380: dt=25.600000, rms=0.464 (0.158%), neg=0, invalid=762
- iter 0, gcam->neg = 23
- after 14 iterations, nbhd size=1, neg = 0
- 0381: dt=25.600000, rms=0.464 (0.143%), neg=0, invalid=762
- iter 0, gcam->neg = 16
- after 10 iterations, nbhd size=1, neg = 0
- 0382: dt=25.600000, rms=0.463 (0.168%), neg=0, invalid=762
- iter 0, gcam->neg = 21
- after 14 iterations, nbhd size=1, neg = 0
- 0383: dt=25.600000, rms=0.462 (0.107%), neg=0, invalid=762
- iter 0, gcam->neg = 12
- after 10 iterations, nbhd size=1, neg = 0
- 0384: dt=25.600000, rms=0.462 (0.154%), neg=0, invalid=762
- iter 0, gcam->neg = 19
- after 12 iterations, nbhd size=1, neg = 0
- 0385: dt=25.600000, rms=0.461 (0.145%), neg=0, invalid=762
- iter 0, gcam->neg = 28
- after 16 iterations, nbhd size=1, neg = 0
- 0386: dt=25.600000, rms=0.461 (0.096%), neg=0, invalid=762
- iter 0, gcam->neg = 19
- after 11 iterations, nbhd size=1, neg = 0
- 0387: dt=25.600000, rms=0.461 (0.033%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0388: dt=44.800000, rms=0.460 (0.170%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0389: dt=11.200000, rms=0.460 (0.049%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0390: dt=11.200000, rms=0.459 (0.024%), neg=0, invalid=762
- 0391: dt=11.200000, rms=0.459 (0.029%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 7 iterations, nbhd size=1, neg = 0
- 0392: dt=11.200000, rms=0.459 (0.025%), neg=0, invalid=762
- 0393: dt=11.200000, rms=0.459 (0.046%), neg=0, invalid=762
- 0394: dt=11.200000, rms=0.459 (0.039%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.460, neg=0, invalid=762
- 0395: dt=32.000000, rms=0.456 (0.883%), neg=0, invalid=762
- 0396: dt=25.600000, rms=0.454 (0.292%), neg=0, invalid=762
- 0397: dt=25.600000, rms=0.454 (0.154%), neg=0, invalid=762
- 0398: dt=25.600000, rms=0.453 (0.132%), neg=0, invalid=762
- 0399: dt=25.600000, rms=0.452 (0.184%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0400: dt=25.600000, rms=0.451 (0.161%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 2 iterations, nbhd size=0, neg = 0
- 0401: dt=25.600000, rms=0.451 (0.128%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 1 iterations, nbhd size=0, neg = 0
- 0402: dt=25.600000, rms=0.450 (0.090%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 2 iterations, nbhd size=0, neg = 0
- 0403: dt=25.600000, rms=0.450 (0.058%), neg=0, invalid=762
- 0404: dt=11.200000, rms=0.450 (0.044%), neg=0, invalid=762
- 0405: dt=11.200000, rms=0.450 (0.020%), neg=0, invalid=762
- 0406: dt=11.200000, rms=0.450 (0.029%), neg=0, invalid=762
- 0407: dt=11.200000, rms=0.450 (0.031%), neg=0, invalid=762
- 0408: dt=11.200000, rms=0.449 (0.027%), neg=0, invalid=762
- 0409: dt=11.200000, rms=0.449 (0.022%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.457, neg=0, invalid=762
- 0410: dt=0.000000, rms=0.456 (0.193%), neg=0, invalid=762
- 0411: dt=0.000000, rms=0.456 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.457, neg=0, invalid=762
- 0412: dt=1.008000, rms=0.456 (0.200%), neg=0, invalid=762
- 0413: dt=0.576000, rms=0.456 (0.003%), neg=0, invalid=762
- 0414: dt=0.576000, rms=0.456 (0.000%), neg=0, invalid=762
- 0415: dt=0.576000, rms=0.456 (-0.007%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.471, neg=0, invalid=762
- 0416: dt=1.280000, rms=0.468 (0.493%), neg=0, invalid=762
- 0417: dt=0.448000, rms=0.468 (0.020%), neg=0, invalid=762
- 0418: dt=0.448000, rms=0.468 (-0.010%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.469, neg=0, invalid=762
- 0419: dt=1.792000, rms=0.467 (0.477%), neg=0, invalid=762
- 0420: dt=0.768000, rms=0.467 (0.024%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0421: dt=0.768000, rms=0.467 (0.008%), neg=0, invalid=762
- 0422: dt=0.768000, rms=0.467 (-0.041%), neg=0, invalid=762
- resetting metric properties...
- setting smoothness coefficient to 2.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.459, neg=0, invalid=762
- iter 0, gcam->neg = 1142
- after 16 iterations, nbhd size=1, neg = 0
- 0423: dt=2.200927, rms=0.429 (6.450%), neg=0, invalid=762
- 0424: dt=0.080000, rms=0.429 (0.068%), neg=0, invalid=762
- 0425: dt=0.080000, rms=0.429 (-0.045%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.430, neg=0, invalid=762
- 0426: dt=0.096000, rms=0.429 (0.292%), neg=0, invalid=762
- 0427: dt=0.006000, rms=0.429 (0.001%), neg=0, invalid=762
- 0428: dt=0.006000, rms=0.429 (0.000%), neg=0, invalid=762
- 0429: dt=0.006000, rms=0.429 (-0.003%), 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=0.416, neg=0, invalid=762
- 0430: dt=0.000000, rms=0.416 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.416, neg=0, invalid=762
- 0431: dt=32.368000, rms=0.416 (0.008%), neg=0, invalid=762
- 0432: dt=73.984000, rms=0.416 (0.006%), neg=0, invalid=762
- 0433: dt=73.984000, rms=0.416 (0.006%), neg=0, invalid=762
- 0434: dt=73.984000, rms=0.415 (0.005%), neg=0, invalid=762
- 0435: dt=73.984000, rms=0.415 (0.001%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.416, neg=0, invalid=762
- 0436: dt=0.000000, rms=0.416 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.416, neg=0, invalid=762
- 0437: dt=145.152000, rms=0.415 (0.113%), neg=0, invalid=762
- 0438: dt=82.944000, rms=0.415 (0.038%), neg=0, invalid=762
- 0439: dt=82.944000, rms=0.415 (0.017%), neg=0, invalid=762
- 0440: dt=82.944000, rms=0.415 (0.051%), neg=0, invalid=762
- 0441: dt=82.944000, rms=0.415 (0.017%), neg=0, invalid=762
- 0442: dt=82.944000, rms=0.415 (0.006%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.415, neg=0, invalid=762
- 0443: dt=8.000000, rms=0.415 (0.061%), neg=0, invalid=762
- 0444: dt=2.800000, rms=0.415 (0.006%), neg=0, invalid=762
- 0445: dt=2.800000, rms=0.415 (0.002%), neg=0, invalid=762
- 0446: dt=2.800000, rms=0.415 (-0.009%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.415, neg=0, invalid=762
- 0447: dt=44.800000, rms=0.413 (0.517%), neg=0, invalid=762
- 0448: dt=11.200000, rms=0.412 (0.261%), neg=0, invalid=762
- 0449: dt=44.800000, rms=0.411 (0.257%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 6 iterations, nbhd size=1, neg = 0
- 0450: dt=25.600000, rms=0.410 (0.143%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0451: dt=25.600000, rms=0.410 (0.126%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0452: dt=25.600000, rms=0.409 (0.172%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 8 iterations, nbhd size=1, neg = 0
- 0453: dt=25.600000, rms=0.408 (0.208%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 7 iterations, nbhd size=1, neg = 0
- 0454: dt=25.600000, rms=0.407 (0.213%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 8 iterations, nbhd size=1, neg = 0
- 0455: dt=25.600000, rms=0.406 (0.225%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 3 iterations, nbhd size=0, neg = 0
- 0456: dt=25.600000, rms=0.406 (0.173%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 9 iterations, nbhd size=1, neg = 0
- 0457: dt=25.600000, rms=0.405 (0.177%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 5 iterations, nbhd size=0, neg = 0
- 0458: dt=25.600000, rms=0.404 (0.137%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 3 iterations, nbhd size=0, neg = 0
- 0459: dt=25.600000, rms=0.404 (0.138%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 7 iterations, nbhd size=1, neg = 0
- 0460: dt=25.600000, rms=0.403 (0.098%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 4 iterations, nbhd size=0, neg = 0
- 0461: dt=25.600000, rms=0.403 (0.094%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 2 iterations, nbhd size=0, neg = 0
- 0462: dt=44.800000, rms=0.403 (0.027%), neg=0, invalid=762
- 0463: dt=44.800000, rms=0.403 (-0.019%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.407, neg=0, invalid=762
- 0464: dt=0.833333, rms=0.407 (0.003%), neg=0, invalid=762
- 0465: dt=0.054000, rms=0.407 (0.000%), neg=0, invalid=762
- 0466: dt=0.054000, rms=0.407 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.407, neg=0, invalid=762
- 0467: dt=4.500000, rms=0.407 (0.052%), neg=0, invalid=762
- 0468: dt=2.880000, rms=0.407 (0.012%), neg=0, invalid=762
- 0469: dt=2.880000, rms=0.407 (0.004%), neg=0, invalid=762
- 0470: dt=2.880000, rms=0.407 (-0.020%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.414, neg=0, invalid=762
- 0471: dt=0.000000, rms=0.414 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.414, neg=0, invalid=762
- 0472: dt=0.000000, rms=0.414 (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=0.402, neg=0, invalid=762
- iter 0, gcam->neg = 697
- after 14 iterations, nbhd size=1, neg = 0
- 0473: dt=1.288259, rms=0.392 (2.414%), neg=0, invalid=762
- 0474: dt=0.000023, rms=0.392 (0.000%), neg=0, invalid=762
- 0475: dt=0.000023, rms=0.392 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.392, neg=0, invalid=762
- 0476: dt=0.096000, rms=0.392 (0.056%), neg=0, invalid=762
- 0477: dt=0.064000, rms=0.392 (0.011%), neg=0, invalid=762
- 0478: dt=0.064000, rms=0.392 (0.002%), neg=0, invalid=762
- 0479: dt=0.064000, rms=0.392 (-0.033%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 1 hours, 51 minutes and 55 seconds.
- mri_ca_register utimesec 7561.423488
- mri_ca_register stimesec 8.331733
- mri_ca_register ru_maxrss 1346660
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 4676405
- mri_ca_register ru_majflt 0
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 0
- mri_ca_register ru_oublock 63072
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 3845
- mri_ca_register ru_nivcsw 13730
- FSRUNTIME@ mri_ca_register 1.8653 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Sat Oct 7 23:46:39 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-545
- 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-6.0.0/0051264/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 5.80
- 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 = 0.06610 (13)
- Left_Lateral_Ventricle (4): linear fit = 0.69 x + 0.0 (152 voxels, overlap=0.409)
- Left_Lateral_Ventricle (4): linear fit = 0.69 x + 0.0 (152 voxels, peak = 14), gca=13.7
- gca peak = 0.17677 (13)
- mri peak = 0.10346 (11)
- Right_Lateral_Ventricle (43): linear fit = 0.77 x + 0.0 (135 voxels, overlap=0.583)
- Right_Lateral_Ventricle (43): linear fit = 0.77 x + 0.0 (135 voxels, peak = 10), gca=10.1
- gca peak = 0.28129 (95)
- mri peak = 0.10595 (94)
- Right_Pallidum (52): linear fit = 0.98 x + 0.0 (538 voxels, overlap=1.013)
- Right_Pallidum (52): linear fit = 0.98 x + 0.0 (538 voxels, peak = 93), gca=92.6
- gca peak = 0.16930 (96)
- mri peak = 0.08612 (93)
- Left_Pallidum (13): linear fit = 0.99 x + 0.0 (568 voxels, overlap=1.011)
- Left_Pallidum (13): linear fit = 0.99 x + 0.0 (568 voxels, peak = 95), gca=94.6
- gca peak = 0.24553 (55)
- mri peak = 0.08221 (62)
- Right_Hippocampus (53): linear fit = 1.02 x + 0.0 (616 voxels, overlap=1.009)
- Right_Hippocampus (53): linear fit = 1.02 x + 0.0 (616 voxels, peak = 56), gca=56.4
- gca peak = 0.30264 (59)
- mri peak = 0.10148 (57)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (528 voxels, overlap=1.010)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (528 voxels, peak = 56), gca=55.8
- gca peak = 0.07580 (103)
- mri peak = 0.09234 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (30151 voxels, overlap=0.597)
- Right_Cerebral_White_Matter (41): linear fit = 1.03 x + 0.0 (30151 voxels, peak = 107), gca=106.6
- gca peak = 0.07714 (104)
- mri peak = 0.10375 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (32800 voxels, overlap=0.567)
- Left_Cerebral_White_Matter (2): linear fit = 1.02 x + 0.0 (32800 voxels, peak = 107), gca=106.6
- gca peak = 0.09712 (58)
- mri peak = 0.05187 (51)
- Left_Cerebral_Cortex (3): linear fit = 0.86 x + 0.0 (17777 voxels, overlap=0.644)
- Left_Cerebral_Cortex (3): linear fit = 0.86 x + 0.0 (17777 voxels, peak = 50), gca=49.6
- gca peak = 0.11620 (58)
- mri peak = 0.05003 (51)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (18148 voxels, overlap=0.777)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (18148 voxels, peak = 52), gca=51.9
- gca peak = 0.30970 (66)
- mri peak = 0.08295 (71)
- Right_Caudate (50): linear fit = 1.07 x + 0.0 (755 voxels, overlap=1.010)
- Right_Caudate (50): linear fit = 1.07 x + 0.0 (755 voxels, peak = 70), gca=70.3
- gca peak = 0.15280 (69)
- mri peak = 0.08394 (74)
- Left_Caudate (11): linear fit = 0.99 x + 0.0 (765 voxels, overlap=1.002)
- Left_Caudate (11): linear fit = 0.99 x + 0.0 (765 voxels, peak = 68), gca=68.0
- gca peak = 0.13902 (56)
- mri peak = 0.04556 (56)
- Left_Cerebellum_Cortex (8): linear fit = 0.99 x + 0.0 (10487 voxels, overlap=0.999)
- Left_Cerebellum_Cortex (8): linear fit = 0.99 x + 0.0 (10487 voxels, peak = 55), gca=55.2
- gca peak = 0.14777 (55)
- mri peak = 0.05066 (60)
- Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (13373 voxels, overlap=0.993)
- Right_Cerebellum_Cortex (47): linear fit = 1.04 x + 0.0 (13373 voxels, peak = 57), gca=57.5
- gca peak = 0.16765 (84)
- mri peak = 0.08619 (87)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (5780 voxels, overlap=0.937)
- Left_Cerebellum_White_Matter (7): linear fit = 1.02 x + 0.0 (5780 voxels, peak = 86), gca=86.1
- gca peak = 0.18739 (84)
- mri peak = 0.08722 (86)
- Right_Cerebellum_White_Matter (46): linear fit = 1.02 x + 0.0 (5595 voxels, overlap=0.911)
- Right_Cerebellum_White_Matter (46): linear fit = 1.02 x + 0.0 (5595 voxels, peak = 86), gca=86.1
- gca peak = 0.29869 (57)
- mri peak = 0.07598 (55)
- Left_Amygdala (18): linear fit = 0.93 x + 0.0 (394 voxels, overlap=1.032)
- Left_Amygdala (18): linear fit = 0.93 x + 0.0 (394 voxels, peak = 53), gca=52.7
- gca peak = 0.33601 (57)
- mri peak = 0.10435 (59)
- Right_Amygdala (54): linear fit = 1.01 x + 0.0 (383 voxels, overlap=1.025)
- Right_Amygdala (54): linear fit = 1.01 x + 0.0 (383 voxels, peak = 58), gca=57.9
- gca peak = 0.11131 (90)
- mri peak = 0.06293 (83)
- Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (3454 voxels, overlap=0.995)
- Left_Thalamus_Proper (10): linear fit = 0.98 x + 0.0 (3454 voxels, peak = 88), gca=87.8
- gca peak = 0.11793 (83)
- mri peak = 0.06846 (86)
- Right_Thalamus_Proper (49): linear fit = 1.04 x + 0.0 (3581 voxels, overlap=0.978)
- Right_Thalamus_Proper (49): linear fit = 1.04 x + 0.0 (3581 voxels, peak = 87), gca=86.7
- gca peak = 0.08324 (81)
- mri peak = 0.07972 (78)
- Left_Putamen (12): linear fit = 0.98 x + 0.0 (1572 voxels, overlap=0.915)
- Left_Putamen (12): linear fit = 0.98 x + 0.0 (1572 voxels, peak = 79), gca=79.0
- gca peak = 0.10360 (77)
- mri peak = 0.07519 (76)
- Right_Putamen (51): linear fit = 0.98 x + 0.0 (1736 voxels, overlap=0.965)
- Right_Putamen (51): linear fit = 0.98 x + 0.0 (1736 voxels, peak = 75), gca=75.1
- gca peak = 0.08424 (78)
- mri peak = 0.09062 (81)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (10683 voxels, overlap=0.476)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (10683 voxels, peak = 83), gca=83.1
- gca peak = 0.12631 (89)
- mri peak = 0.07101 (97)
- Right_VentralDC (60): linear fit = 1.10 x + 0.0 (1131 voxels, overlap=0.733)
- Right_VentralDC (60): linear fit = 1.10 x + 0.0 (1131 voxels, peak = 97), gca=97.5
- gca peak = 0.14500 (87)
- mri peak = 0.05929 (96)
- Left_VentralDC (28): linear fit = 1.08 x + 0.0 (1153 voxels, overlap=0.896)
- Left_VentralDC (28): linear fit = 1.08 x + 0.0 (1153 voxels, peak = 94), gca=93.5
- gca peak = 0.14975 (24)
- mri peak = 0.03539 ( 7)
- gca peak = 0.19357 (14)
- mri peak = 0.09943 (13)
- Fourth_Ventricle (15): linear fit = 0.74 x + 0.0 (414 voxels, overlap=0.717)
- Fourth_Ventricle (15): linear fit = 0.74 x + 0.0 (414 voxels, peak = 10), gca=10.3
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16825 (27)
- gca peak Left_Thalamus = 1.00000 (94)
- gca peak Third_Ventricle = 0.14975 (24)
- gca peak CSF = 0.23379 (36)
- gca peak Left_Accumbens_area = 0.70037 (62)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.75997 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.24655 (23)
- gca peak Right_Accumbens_area = 0.45042 (65)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65475 (32)
- gca peak WM_hypointensities = 0.07854 (76)
- gca peak non_WM_hypointensities = 0.08491 (43)
- gca peak Optic_Chiasm = 0.71127 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 0.94 x + 0.0
- estimating mean wm scale to be 1.03 x + 0.0
- estimating mean csf scale to be 0.73 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.24832 (14)
- mri peak = 0.06610 (13)
- Left_Lateral_Ventricle (4): linear fit = 1.03 x + 0.0 (152 voxels, overlap=0.916)
- Left_Lateral_Ventricle (4): linear fit = 1.03 x + 0.0 (152 voxels, peak = 14), gca=14.5
- gca peak = 0.23734 (10)
- mri peak = 0.10346 (11)
- Right_Lateral_Ventricle (43): linear fit = 1.04 x + 0.0 (135 voxels, overlap=0.785)
- Right_Lateral_Ventricle (43): linear fit = 1.04 x + 0.0 (135 voxels, peak = 10), gca=10.4
- gca peak = 0.25782 (91)
- mri peak = 0.10595 (94)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (538 voxels, overlap=1.006)
- Right_Pallidum (52): linear fit = 1.00 x + 0.0 (538 voxels, peak = 91), gca=90.5
- gca peak = 0.20236 (95)
- mri peak = 0.08612 (93)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (568 voxels, overlap=1.009)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (568 voxels, peak = 95), gca=94.5
- gca peak = 0.29180 (57)
- mri peak = 0.08221 (62)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (616 voxels, overlap=1.008)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (616 voxels, peak = 57), gca=57.0
- gca peak = 0.28978 (53)
- mri peak = 0.10148 (57)
- Left_Hippocampus (17): linear fit = 1.01 x + 0.0 (528 voxels, overlap=1.010)
- Left_Hippocampus (17): linear fit = 1.01 x + 0.0 (528 voxels, peak = 54), gca=53.8
- gca peak = 0.07501 (106)
- mri peak = 0.09234 (105)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (30151 voxels, overlap=0.752)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (30151 voxels, peak = 105), gca=105.5
- gca peak = 0.07686 (107)
- mri peak = 0.10375 (106)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (32800 voxels, overlap=0.678)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (32800 voxels, peak = 107), gca=107.0
- gca peak = 0.11323 (50)
- mri peak = 0.05187 (51)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (17777 voxels, overlap=1.000)
- Left_Cerebral_Cortex (3): linear fit = 1.00 x + 0.0 (17777 voxels, peak = 50), gca=50.0
- gca peak = 0.12847 (52)
- mri peak = 0.05003 (51)
- Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (18148 voxels, overlap=1.000)
- Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (18148 voxels, peak = 51), gca=51.2
- gca peak = 0.26195 (71)
- mri peak = 0.08295 (71)
- Right_Caudate (50): linear fit = 1.03 x + 0.0 (755 voxels, overlap=1.010)
- Right_Caudate (50): linear fit = 1.03 x + 0.0 (755 voxels, peak = 73), gca=73.5
- gca peak = 0.16874 (68)
- mri peak = 0.08394 (74)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (765 voxels, overlap=1.000)
- Left_Caudate (11): linear fit = 1.00 x + 0.0 (765 voxels, peak = 68), gca=68.0
- gca peak = 0.14163 (55)
- mri peak = 0.04556 (56)
- Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (10487 voxels, overlap=1.000)
- Left_Cerebellum_Cortex (8): linear fit = 1.04 x + 0.0 (10487 voxels, peak = 57), gca=57.5
- gca peak = 0.14166 (57)
- mri peak = 0.05066 (60)
- Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (13373 voxels, overlap=0.998)
- Right_Cerebellum_Cortex (47): linear fit = 1.02 x + 0.0 (13373 voxels, peak = 58), gca=58.4
- gca peak = 0.15819 (86)
- mri peak = 0.08619 (87)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (5780 voxels, overlap=0.975)
- Left_Cerebellum_White_Matter (7): linear fit = 1.00 x + 0.0 (5780 voxels, peak = 86), gca=86.0
- gca peak = 0.15611 (86)
- mri peak = 0.08722 (86)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (5595 voxels, overlap=0.967)
- Right_Cerebellum_White_Matter (46): linear fit = 1.00 x + 0.0 (5595 voxels, peak = 86), gca=86.0
- gca peak = 0.35430 (54)
- mri peak = 0.07598 (55)
- Left_Amygdala (18): linear fit = 1.09 x + 0.0 (394 voxels, overlap=1.035)
- Left_Amygdala (18): linear fit = 1.09 x + 0.0 (394 voxels, peak = 59), gca=58.6
- gca peak = 0.36961 (58)
- mri peak = 0.10435 (59)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (383 voxels, overlap=1.021)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (383 voxels, peak = 58), gca=58.0
- gca peak = 0.11019 (86)
- mri peak = 0.06293 (83)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (3454 voxels, overlap=0.994)
- Left_Thalamus_Proper (10): linear fit = 1.00 x + 0.0 (3454 voxels, peak = 86), gca=85.6
- gca peak = 0.09389 (90)
- mri peak = 0.06846 (86)
- Right_Thalamus_Proper (49): linear fit = 0.99 x + 0.0 (3581 voxels, overlap=0.981)
- Right_Thalamus_Proper (49): linear fit = 0.99 x + 0.0 (3581 voxels, peak = 89), gca=88.7
- gca peak = 0.08314 (79)
- mri peak = 0.07972 (78)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1572 voxels, overlap=0.926)
- Left_Putamen (12): linear fit = 1.00 x + 0.0 (1572 voxels, peak = 79), gca=79.0
- gca peak = 0.10523 (75)
- mri peak = 0.07519 (76)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (1736 voxels, overlap=0.988)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (1736 voxels, peak = 75), gca=75.0
- gca peak = 0.07385 (83)
- mri peak = 0.09062 (81)
- Brain_Stem (16): linear fit = 1.02 x + 0.0 (10683 voxels, overlap=0.725)
- Brain_Stem (16): linear fit = 1.02 x + 0.0 (10683 voxels, peak = 85), gca=85.1
- gca peak = 0.11831 (92)
- mri peak = 0.07101 (97)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1131 voxels, overlap=0.874)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (1131 voxels, peak = 92), gca=91.5
- gca peak = 0.16436 (92)
- mri peak = 0.05929 (96)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1153 voxels, overlap=0.974)
- Left_VentralDC (28): linear fit = 1.00 x + 0.0 (1153 voxels, peak = 92), gca=92.5
- gca peak = 0.21250 (19)
- mri peak = 0.03539 ( 7)
- gca peak = 0.22767 (12)
- mri peak = 0.09943 (13)
- Fourth_Ventricle (15): linear fit = 1.04 x + 0.0 (414 voxels, overlap=0.880)
- Fourth_Ventricle (15): linear fit = 1.04 x + 0.0 (414 voxels, peak = 13), gca=12.5
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.19755 (30)
- gca peak Left_Thalamus = 1.00000 (89)
- gca peak Third_Ventricle = 0.21250 (19)
- gca peak CSF = 0.21208 (23)
- gca peak Left_Accumbens_area = 0.64925 (61)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.70074 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.18708 (24)
- gca peak Right_Accumbens_area = 0.29938 (69)
- gca peak Right_vessel = 0.81794 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.89778 (23)
- gca peak WM_hypointensities = 0.06987 (77)
- gca peak non_WM_hypointensities = 0.11606 (56)
- gca peak Optic_Chiasm = 0.70636 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 1.01 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 1.04 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
- 63040 voxels changed in iteration 0 of unlikely voxel relabeling
- 94 voxels changed in iteration 1 of unlikely voxel relabeling
- 0 voxels changed in iteration 2 of unlikely voxel relabeling
- 22382 gm and wm labels changed (%24 to gray, %76 to white out of all changed labels)
- 236 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 65873 changed. image ll: -2.084, PF=0.500
- pass 2: 19886 changed. image ll: -2.084, PF=0.500
- pass 3: 6116 changed.
- pass 4: 2139 changed.
- 36041 voxels changed in iteration 0 of unlikely voxel relabeling
- 144 voxels changed in iteration 1 of unlikely voxel relabeling
- 1 voxels changed in iteration 2 of unlikely voxel relabeling
- 2 voxels changed in iteration 3 of unlikely voxel relabeling
- 0 voxels changed in iteration 4 of unlikely voxel relabeling
- 4879 voxels changed in iteration 0 of unlikely voxel relabeling
- 72 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
- 4365 voxels changed in iteration 0 of unlikely voxel relabeling
- 26 voxels changed in iteration 1 of unlikely voxel relabeling
- 0 voxels changed in iteration 2 of unlikely voxel relabeling
- 3675 voxels changed in iteration 0 of unlikely voxel relabeling
- 13 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 3067.271703
- mri_ca_label stimesec 1.424783
- mri_ca_label ru_maxrss 2133212
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 714428
- mri_ca_label ru_majflt 0
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 63064
- mri_ca_label ru_oublock 456
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 266
- mri_ca_label ru_nivcsw 4932
- auto-labeling took 50 minutes and 24 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/transforms/cc_up.lta 0051264
- 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-6.0.0/0051264/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/norm.mgz
- 27856 voxels in left wm, 68950 in right wm, xrange [119, 131]
- searching rotation angles z=[-8 6], y=[-11 3]
-
searching scale 1 Z rot -8.2
searching scale 1 Z rot -7.9
searching scale 1 Z rot -7.7
searching scale 1 Z rot -7.4
searching scale 1 Z rot -7.2
searching scale 1 Z rot -6.9
searching scale 1 Z rot -6.7
searching scale 1 Z rot -6.4
searching scale 1 Z rot -6.2
searching scale 1 Z rot -5.9
searching scale 1 Z rot -5.7
searching scale 1 Z rot -5.4
searching scale 1 Z rot -5.2
searching scale 1 Z rot -4.9
searching scale 1 Z rot -4.7
searching scale 1 Z rot -4.4
searching scale 1 Z rot -4.2
searching scale 1 Z rot -3.9
searching scale 1 Z rot -3.7
searching scale 1 Z rot -3.4
searching scale 1 Z rot -3.2
searching scale 1 Z rot -2.9
searching scale 1 Z rot -2.7
searching scale 1 Z rot -2.4
searching scale 1 Z rot -2.2
searching scale 1 Z rot -1.9
searching scale 1 Z rot -1.7
searching scale 1 Z rot -1.4
searching scale 1 Z rot -1.2
searching scale 1 Z rot -0.9
searching scale 1 Z rot -0.7
searching scale 1 Z rot -0.4
searching scale 1 Z rot -0.2
searching scale 1 Z rot 0.1
searching scale 1 Z rot 0.3
searching scale 1 Z rot 0.6
searching scale 1 Z rot 0.8
searching scale 1 Z rot 1.1
searching scale 1 Z rot 1.3
searching scale 1 Z rot 1.6
searching scale 1 Z rot 1.8
searching scale 1 Z rot 2.1
searching scale 1 Z rot 2.3
searching scale 1 Z rot 2.6
searching scale 1 Z rot 2.8
searching scale 1 Z rot 3.1
searching scale 1 Z rot 3.3
searching scale 1 Z rot 3.6
searching scale 1 Z rot 3.8
searching scale 1 Z rot 4.1
searching scale 1 Z rot 4.3
searching scale 1 Z rot 4.6
searching scale 1 Z rot 4.8
searching scale 1 Z rot 5.1
searching scale 1 Z rot 5.3
searching scale 1 Z rot 5.6 global minimum found at slice 126.6, rotations (-4.31, -1.16)
- final transformation (x=126.6, yr=-4.314, zr=-1.158):
- 0.99696 0.02021 -0.07521 9.11264;
- -0.02015 0.99980 0.00152 23.38154;
- 0.07522 -0.00000 0.99717 -7.16539;
- 0.00000 0.00000 0.00000 1.00000;
- updating x range to be [127, 130] in xformed coordinates
- best xformed slice 128
- cc center is found at 128 107 126
- eigenvectors:
- -0.00068 -0.00575 0.99998;
- 0.32612 -0.94531 -0.00522;
- 0.94533 0.32611 0.00251;
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/aseg.auto.mgz...
- corpus callosum segmentation took 1.1 minutes
- #--------------------------------------
- #@# Merge ASeg Sun Oct 8 00:38:06 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Sun Oct 8 00:38:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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...
- 1369 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 109
- gm peak at 54 (54), valley at 20 (20)
- 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 56 (56), valley at 20 (20)
- csf peak at 29, setting threshold to 47
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to brain.mgz
- 3D bias adjustment took 3 minutes and 3 seconds.
- #--------------------------------------------
- #@# Mask BFS Sun Oct 8 00:41:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1442012 voxels in mask (pct= 8.60)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Sun Oct 8 00:41:13 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 (107.0): 107.1 +- 5.0 [79.0 --> 125.0]
- GM (66.0) : 64.7 +- 10.0 [30.0 --> 95.0]
- setting bottom of white matter range to 74.7
- setting top of gray matter range to 84.6
- 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...
- 7845 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 3757 filled
- 99 bright non-wm voxels segmented.
- 3687 diagonally connected voxels added...
- white matter segmentation took 1.3 minutes
- writing output to wm.seg.mgz...
- assuming input volume is MGH (Van der Kouwe) MP-RAGE
- mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz
- preserving editing changes in input volume...
- auto filling took 0.47 minutes
- reading wm segmentation from wm.seg.mgz...
- 21 voxels added to wm to prevent paths from MTL structures to cortex
- 2257 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 32338 voxels turned on, 41156 voxels turned off.
- propagating editing to output volume from wm.seg.mgz
- 115,126,128 old 108 new 108
- 115,126,128 old 108 new 108
- writing edited volume to wm.asegedit.mgz....
- mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz
- Iteration Number : 1
- pass 1 (xy+): 9 found - 9 modified | TOTAL: 9
- pass 2 (xy+): 0 found - 9 modified | TOTAL: 9
- pass 1 (xy-): 13 found - 13 modified | TOTAL: 22
- pass 2 (xy-): 0 found - 13 modified | TOTAL: 22
- pass 1 (yz+): 17 found - 17 modified | TOTAL: 39
- pass 2 (yz+): 0 found - 17 modified | TOTAL: 39
- pass 1 (yz-): 18 found - 18 modified | TOTAL: 57
- pass 2 (yz-): 0 found - 18 modified | TOTAL: 57
- pass 1 (xz+): 14 found - 14 modified | TOTAL: 71
- pass 2 (xz+): 0 found - 14 modified | TOTAL: 71
- pass 1 (xz-): 13 found - 13 modified | TOTAL: 84
- pass 2 (xz-): 0 found - 13 modified | TOTAL: 84
- Iteration Number : 1
- pass 1 (+++): 4 found - 4 modified | TOTAL: 4
- pass 2 (+++): 0 found - 4 modified | TOTAL: 4
- pass 1 (+++): 4 found - 4 modified | TOTAL: 8
- pass 2 (+++): 0 found - 4 modified | TOTAL: 8
- pass 1 (+++): 10 found - 10 modified | TOTAL: 18
- pass 2 (+++): 0 found - 10 modified | TOTAL: 18
- pass 1 (+++): 7 found - 7 modified | TOTAL: 25
- pass 2 (+++): 0 found - 7 modified | TOTAL: 25
- Iteration Number : 1
- pass 1 (++): 156 found - 156 modified | TOTAL: 156
- pass 2 (++): 0 found - 156 modified | TOTAL: 156
- pass 1 (+-): 108 found - 108 modified | TOTAL: 264
- pass 2 (+-): 0 found - 108 modified | TOTAL: 264
- pass 1 (--): 132 found - 132 modified | TOTAL: 396
- pass 2 (--): 0 found - 132 modified | TOTAL: 396
- pass 1 (-+): 144 found - 144 modified | TOTAL: 540
- pass 2 (-+): 0 found - 144 modified | TOTAL: 540
- Iteration Number : 2
- pass 1 (xy+): 3 found - 3 modified | TOTAL: 3
- pass 2 (xy+): 0 found - 3 modified | TOTAL: 3
- pass 1 (xy-): 3 found - 3 modified | TOTAL: 6
- pass 2 (xy-): 0 found - 3 modified | TOTAL: 6
- pass 1 (yz+): 1 found - 1 modified | TOTAL: 7
- pass 2 (yz+): 0 found - 1 modified | TOTAL: 7
- pass 1 (yz-): 2 found - 2 modified | TOTAL: 9
- pass 2 (yz-): 0 found - 2 modified | TOTAL: 9
- pass 1 (xz+): 4 found - 4 modified | TOTAL: 13
- pass 2 (xz+): 0 found - 4 modified | TOTAL: 13
- pass 1 (xz-): 4 found - 4 modified | TOTAL: 17
- pass 2 (xz-): 0 found - 4 modified | TOTAL: 17
- Iteration Number : 2
- pass 1 (+++): 2 found - 2 modified | TOTAL: 2
- pass 2 (+++): 0 found - 2 modified | TOTAL: 2
- pass 1 (+++): 4 found - 4 modified | TOTAL: 6
- pass 2 (+++): 0 found - 4 modified | TOTAL: 6
- pass 1 (+++): 2 found - 2 modified | TOTAL: 8
- pass 2 (+++): 0 found - 2 modified | TOTAL: 8
- pass 1 (+++): 0 found - 0 modified | TOTAL: 8
- Iteration Number : 2
- pass 1 (++): 2 found - 2 modified | TOTAL: 2
- pass 2 (++): 0 found - 2 modified | TOTAL: 2
- pass 1 (+-): 1 found - 1 modified | TOTAL: 3
- pass 2 (+-): 0 found - 1 modified | TOTAL: 3
- pass 1 (--): 1 found - 1 modified | TOTAL: 4
- pass 2 (--): 0 found - 1 modified | TOTAL: 4
- pass 1 (-+): 1 found - 1 modified | TOTAL: 5
- pass 2 (-+): 0 found - 1 modified | TOTAL: 5
- 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+): 1 found - 1 modified | TOTAL: 2
- pass 2 (xz+): 0 found - 1 modified | TOTAL: 2
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 2
- 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 (+-): 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
- 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 = 683 (out of 480590: 0.142117)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Sun Oct 8 00:43:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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
- 1.10211 0.00540 -0.08139 -3.59776;
- -0.01484 1.18075 -0.19563 -2.07565;
- 0.09658 0.15145 1.02738 -53.27773;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 1.10211 0.00540 -0.08139 -3.59776;
- -0.01484 1.18075 -0.19563 -2.07565;
- 0.09658 0.15145 1.02738 -53.27773;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 966 (min = 350, max = 1400), aspect = 0.49 (min = 0.10, max = 0.75)
- no need to search
- using seed (127, 112, 94), TAL = (1.0, -34.0, 16.0)
- talairach voxel to voxel transform
- 0.90114 -0.01296 0.06892 6.88717;
- -0.00265 0.82676 0.15722 10.08296;
- -0.08432 -0.12065 0.94369 49.72388;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (127, 112, 94) --> (1.0, -34.0, 16.0)
- done.
- writing output to filled.mgz...
- filling took 0.7 minutes
- talairach cc position changed to (1.00, -34.00, 16.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(19.00, -34.00, 16.00) SRC: (110.14, 117.17, 115.73)
- search lh wm seed point around talairach space (-17.00, -34.00, 16.00), SRC: (142.58, 117.08, 112.69)
- 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 00:43:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-): 3 found - 3 modified | TOTAL: 3
- pass 2 (xy-): 0 found - 3 modified | TOTAL: 3
- pass 1 (yz+): 0 found - 0 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-): 1 found - 1 modified | TOTAL: 5
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 5
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 2 found - 2 modified | TOTAL: 2
- pass 2 (++): 0 found - 2 modified | TOTAL: 2
- pass 1 (+-): 0 found - 0 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 = 7 (out of 230067: 0.003043)
- 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: 993 vertices, 1083 faces
- slice 60: 5160 vertices, 5322 faces
- slice 70: 10894 vertices, 11122 faces
- slice 80: 18083 vertices, 18352 faces
- slice 90: 27995 vertices, 28342 faces
- slice 100: 37760 vertices, 38155 faces
- slice 110: 49317 vertices, 49709 faces
- slice 120: 61588 vertices, 62026 faces
- slice 130: 74784 vertices, 75210 faces
- slice 140: 86818 vertices, 87183 faces
- slice 150: 96925 vertices, 97253 faces
- slice 160: 104494 vertices, 104774 faces
- slice 170: 112593 vertices, 112931 faces
- slice 180: 120217 vertices, 120534 faces
- slice 190: 126730 vertices, 126967 faces
- slice 200: 131595 vertices, 131765 faces
- slice 210: 133294 vertices, 133346 faces
- slice 220: 133294 vertices, 133346 faces
- slice 230: 133294 vertices, 133346 faces
- slice 240: 133294 vertices, 133346 faces
- slice 250: 133294 vertices, 133346 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...
- 133294 voxel in cpt #1: X=-52 [v=133294,e=400038,f=266692] located at (-24.927454, -3.973510, 8.949360)
- For the whole surface: X=-52 [v=133294,e=400038,f=266692]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Tessellate rh Sun Oct 8 00:43:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz
- Iteration Number : 1
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 2 found - 2 modified | TOTAL: 2
- pass 2 (yz-): 0 found - 2 modified | TOTAL: 2
- pass 1 (xz+): 3 found - 3 modified | TOTAL: 5
- pass 2 (xz+): 0 found - 3 modified | TOTAL: 5
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 5
- 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 = 5 (out of 229805: 0.002176)
- 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: 27 vertices, 37 faces
- slice 60: 2315 vertices, 2414 faces
- slice 70: 6738 vertices, 6927 faces
- slice 80: 13262 vertices, 13512 faces
- slice 90: 21902 vertices, 22235 faces
- slice 100: 32178 vertices, 32588 faces
- slice 110: 43212 vertices, 43540 faces
- slice 120: 54947 vertices, 55353 faces
- slice 130: 68857 vertices, 69324 faces
- slice 140: 81755 vertices, 82141 faces
- slice 150: 93149 vertices, 93484 faces
- slice 160: 102135 vertices, 102401 faces
- slice 170: 109640 vertices, 109950 faces
- slice 180: 117677 vertices, 117952 faces
- slice 190: 124869 vertices, 125122 faces
- slice 200: 130731 vertices, 130931 faces
- slice 210: 133297 vertices, 133347 faces
- slice 220: 133352 vertices, 133382 faces
- slice 230: 133352 vertices, 133382 faces
- slice 240: 133352 vertices, 133382 faces
- slice 250: 133352 vertices, 133382 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...
- 133352 voxel in cpt #1: X=-30 [v=133352,e=400146,f=266764] located at (27.910582, 0.766475, 10.094404)
- For the whole surface: X=-30 [v=133352,e=400146,f=266764]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Sun Oct 8 00:43:57 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Sun Oct 8 00:43:57 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 20337 of (20337 20340) to complete...
- Waiting for PID 20340 of (20337 20340) 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 (20337 20340) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Sun Oct 8 00:44:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Sun Oct 8 00:44:03 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 20391 of (20391 20394) to complete...
- Waiting for PID 20394 of (20391 20394) 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 = 45.3 mm, total surface area = 69030 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 0.7 minutes
-
step 000: RMS=0.158 (target=0.015)
step 005: RMS=0.118 (target=0.015)
step 010: RMS=0.087 (target=0.015)
step 015: RMS=0.071 (target=0.015)
step 020: RMS=0.060 (target=0.015)
step 025: RMS=0.053 (target=0.015)
step 030: RMS=0.047 (target=0.015)
step 035: RMS=0.043 (target=0.015)
step 040: RMS=0.040 (target=0.015)
step 045: RMS=0.037 (target=0.015)
step 050: RMS=0.035 (target=0.015)
step 055: RMS=0.034 (target=0.015)
step 060: RMS=0.034 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 42.031610
- mris_inflate stimesec 0.105983
- mris_inflate ru_maxrss 195272
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 28829
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 9384
- mris_inflate ru_oublock 9400
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 3271
- mris_inflate ru_nivcsw 3264
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 44.6 mm, total surface area = 68449 mm^2
- writing inflated surface to ../surf/rh.inflated.nofix
- inflation took 0.7 minutes
-
step 000: RMS=0.159 (target=0.015)
step 005: RMS=0.118 (target=0.015)
step 010: RMS=0.087 (target=0.015)
step 015: RMS=0.072 (target=0.015)
step 020: RMS=0.061 (target=0.015)
step 025: RMS=0.054 (target=0.015)
step 030: RMS=0.048 (target=0.015)
step 035: RMS=0.043 (target=0.015)
step 040: RMS=0.040 (target=0.015)
step 045: RMS=0.038 (target=0.015)
step 050: RMS=0.038 (target=0.015)
step 055: RMS=0.037 (target=0.015)
step 060: RMS=0.036 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 42.691509
- mris_inflate stimesec 0.082987
- mris_inflate ru_maxrss 195564
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 28386
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 9400
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2209
- mris_inflate ru_nivcsw 4372
- PIDs (20391 20394) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Sun Oct 8 00:44:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Sun Oct 8 00:44:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 20449 of (20449 20452) to complete...
- Waiting for PID 20452 of (20449 20452) 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 0.99 +- 0.57 (0.00-->7.19) (max @ vno 44045 --> 44046)
- face area 0.02 +- 0.03 (-0.12-->0.77)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.304...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=177.459, avgs=0
- 005/300: dt: 0.9000, rms radial error=177.202, avgs=0
- 010/300: dt: 0.9000, rms radial error=176.648, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.915, avgs=0
- 020/300: dt: 0.9000, rms radial error=175.081, avgs=0
- 025/300: dt: 0.9000, rms radial error=174.188, avgs=0
- 030/300: dt: 0.9000, rms radial error=173.264, avgs=0
- 035/300: dt: 0.9000, rms radial error=172.324, avgs=0
- 040/300: dt: 0.9000, rms radial error=171.376, avgs=0
- 045/300: dt: 0.9000, rms radial error=170.426, avgs=0
- 050/300: dt: 0.9000, rms radial error=169.477, avgs=0
- 055/300: dt: 0.9000, rms radial error=168.531, avgs=0
- 060/300: dt: 0.9000, rms radial error=167.588, avgs=0
- 065/300: dt: 0.9000, rms radial error=166.649, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.716, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.786, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.862, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.942, avgs=0
- 090/300: dt: 0.9000, rms radial error=162.028, avgs=0
- 095/300: dt: 0.9000, rms radial error=161.119, avgs=0
- 100/300: dt: 0.9000, rms radial error=160.215, avgs=0
- 105/300: dt: 0.9000, rms radial error=159.315, avgs=0
- 110/300: dt: 0.9000, rms radial error=158.421, avgs=0
- 115/300: dt: 0.9000, rms radial error=157.531, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.646, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.766, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.890, avgs=0
- 135/300: dt: 0.9000, rms radial error=154.019, avgs=0
- 140/300: dt: 0.9000, rms radial error=153.153, avgs=0
- 145/300: dt: 0.9000, rms radial error=152.292, avgs=0
- 150/300: dt: 0.9000, rms radial error=151.435, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.583, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.735, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.892, avgs=0
- 170/300: dt: 0.9000, rms radial error=148.054, avgs=0
- 175/300: dt: 0.9000, rms radial error=147.221, avgs=0
- 180/300: dt: 0.9000, rms radial error=146.391, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.567, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.747, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.931, avgs=0
- 200/300: dt: 0.9000, rms radial error=143.120, avgs=0
- 205/300: dt: 0.9000, rms radial error=142.314, avgs=0
- 210/300: dt: 0.9000, rms radial error=141.512, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.714, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.921, avgs=0
- 225/300: dt: 0.9000, rms radial error=139.132, avgs=0
- 230/300: dt: 0.9000, rms radial error=138.348, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.568, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.792, avgs=0
- 245/300: dt: 0.9000, rms radial error=136.020, avgs=0
- 250/300: dt: 0.9000, rms radial error=135.253, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.491, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.732, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.978, avgs=0
- 270/300: dt: 0.9000, rms radial error=132.228, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.482, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.740, avgs=0
- 285/300: dt: 0.9000, rms radial error=130.003, avgs=0
- 290/300: dt: 0.9000, rms radial error=129.269, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.540, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.815, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 15747.35
- 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 = 2673.02
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00008
- epoch 3 (K=160.0), pass 1, starting sse = 286.77
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.10/11 = 0.00898
- epoch 4 (K=640.0), pass 1, starting sse = 17.07
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.13/14 = 0.00955
- final distance error %27.81
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.07 hours
- mris_sphere utimesec 255.857103
- mris_sphere stimesec 0.182972
- mris_sphere ru_maxrss 195476
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 28363
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 9424
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 8520
- mris_sphere ru_nivcsw 18879
- FSRUNTIME@ mris_sphere 0.0711 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 0.99 +- 0.56 (0.00-->8.39) (max @ vno 40574 --> 41623)
- face area 0.02 +- 0.03 (-0.07-->0.91)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.311...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=177.230, avgs=0
- 005/300: dt: 0.9000, rms radial error=176.971, avgs=0
- 010/300: dt: 0.9000, rms radial error=176.415, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.684, avgs=0
- 020/300: dt: 0.9000, rms radial error=174.851, avgs=0
- 025/300: dt: 0.9000, rms radial error=173.960, avgs=0
- 030/300: dt: 0.9000, rms radial error=173.037, avgs=0
- 035/300: dt: 0.9000, rms radial error=172.097, avgs=0
- 040/300: dt: 0.9000, rms radial error=171.150, avgs=0
- 045/300: dt: 0.9000, rms radial error=170.199, avgs=0
- 050/300: dt: 0.9000, rms radial error=169.250, avgs=0
- 055/300: dt: 0.9000, rms radial error=168.303, avgs=0
- 060/300: dt: 0.9000, rms radial error=167.360, avgs=0
- 065/300: dt: 0.9000, rms radial error=166.421, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.487, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.557, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.633, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.713, avgs=0
- 090/300: dt: 0.9000, rms radial error=161.798, avgs=0
- 095/300: dt: 0.9000, rms radial error=160.888, avgs=0
- 100/300: dt: 0.9000, rms radial error=159.983, avgs=0
- 105/300: dt: 0.9000, rms radial error=159.083, avgs=0
- 110/300: dt: 0.9000, rms radial error=158.188, avgs=0
- 115/300: dt: 0.9000, rms radial error=157.298, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.412, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.531, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.655, avgs=0
- 135/300: dt: 0.9000, rms radial error=153.784, avgs=0
- 140/300: dt: 0.9000, rms radial error=152.918, avgs=0
- 145/300: dt: 0.9000, rms radial error=152.056, avgs=0
- 150/300: dt: 0.9000, rms radial error=151.199, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.347, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.499, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.656, avgs=0
- 170/300: dt: 0.9000, rms radial error=147.818, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.984, avgs=0
- 180/300: dt: 0.9000, rms radial error=146.155, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.330, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.510, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.695, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.884, avgs=0
- 205/300: dt: 0.9000, rms radial error=142.078, avgs=0
- 210/300: dt: 0.9000, rms radial error=141.276, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.479, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.685, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.897, avgs=0
- 230/300: dt: 0.9000, rms radial error=138.113, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.333, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.557, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.786, avgs=0
- 250/300: dt: 0.9000, rms radial error=135.019, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.257, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.498, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.744, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.994, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.249, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.507, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.770, avgs=0
- 290/300: dt: 0.9000, rms radial error=129.037, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.308, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.583, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 15640.47
- 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 = 2599.39
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00007
- epoch 3 (K=160.0), pass 1, starting sse = 270.07
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.11/13 = 0.00874
- epoch 4 (K=640.0), pass 1, starting sse = 15.70
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.30/22 = 0.01352
- final distance error %26.37
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.08 hours
- mris_sphere utimesec 292.055600
- mris_sphere stimesec 0.183972
- mris_sphere ru_maxrss 195764
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 28434
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 9424
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 9036
- mris_sphere ru_nivcsw 20316
- FSRUNTIME@ mris_sphere 0.0773 hours 1 threads
- PIDs (20449 20452) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Sun Oct 8 00:49:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Sun Oct 8 00:49:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Sun Oct 8 00:49:25 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051264 lh
- #@# Fix Topology rh Sun Oct 8 00:49:25 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051264 rh
- Waiting for PID 20661 of (20661 20664) to complete...
- Waiting for PID 20664 of (20661 20664) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051264 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=-52 (nv=133294, nf=266692, ne=400038, g=27)
- 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...
- 3410 ambiguous faces found in tessellation
- segmenting defects...
- 35 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 3 into 1
- -merging segment 25 into 20
- 33 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.6912 (-4.8456)
- -vertex loglikelihood: -6.7916 (-3.3958)
- -normal dot loglikelihood: -3.6163 (-3.6163)
- -quad curv loglikelihood: -6.5676 (-3.2838)
- Total Loglikelihood : -26.6667
- CORRECTING DEFECT 0 (vertices=40, convex hull=66, v0=2533)
- After retessellation of defect 0 (v0=2533), euler #=-31 (131159,392510,261320) : difference with theory (-30) = 1
- CORRECTING DEFECT 1 (vertices=145, convex hull=173, v0=18723)
- After retessellation of defect 1 (v0=18723), euler #=-29 (131232,392797,261536) : difference with theory (-29) = 0
- CORRECTING DEFECT 2 (vertices=46, convex hull=71, v0=21188)
- After retessellation of defect 2 (v0=21188), euler #=-28 (131258,392903,261617) : difference with theory (-28) = 0
- CORRECTING DEFECT 3 (vertices=12, convex hull=29, v0=39689)
- After retessellation of defect 3 (v0=39689), euler #=-27 (131262,392923,261634) : difference with theory (-27) = 0
- CORRECTING DEFECT 4 (vertices=54, convex hull=74, v0=55609)
- After retessellation of defect 4 (v0=55609), euler #=-26 (131284,393017,261707) : difference with theory (-26) = 0
- CORRECTING DEFECT 5 (vertices=30, convex hull=63, v0=56243)
- After retessellation of defect 5 (v0=56243), euler #=-25 (131297,393082,261760) : difference with theory (-25) = 0
- CORRECTING DEFECT 6 (vertices=13, convex hull=28, v0=57140)
- After retessellation of defect 6 (v0=57140), euler #=-24 (131303,393109,261782) : difference with theory (-24) = 0
- CORRECTING DEFECT 7 (vertices=30, convex hull=76, v0=59236)
- After retessellation of defect 7 (v0=59236), euler #=-23 (131315,393173,261835) : difference with theory (-23) = 0
- CORRECTING DEFECT 8 (vertices=106, convex hull=43, v0=60018)
- After retessellation of defect 8 (v0=60018), euler #=-22 (131330,393236,261884) : difference with theory (-22) = 0
- CORRECTING DEFECT 9 (vertices=59, convex hull=30, v0=65599)
- After retessellation of defect 9 (v0=65599), euler #=-21 (131338,393269,261910) : difference with theory (-21) = 0
- CORRECTING DEFECT 10 (vertices=144, convex hull=48, v0=68061)
- After retessellation of defect 10 (v0=68061), euler #=-20 (131350,393324,261954) : difference with theory (-20) = 0
- CORRECTING DEFECT 11 (vertices=52, convex hull=81, v0=77239)
- After retessellation of defect 11 (v0=77239), euler #=-19 (131381,393449,262049) : difference with theory (-19) = 0
- CORRECTING DEFECT 12 (vertices=164, convex hull=137, v0=80700)
- After retessellation of defect 12 (v0=80700), euler #=-18 (131433,393669,262218) : difference with theory (-18) = 0
- CORRECTING DEFECT 13 (vertices=48, convex hull=76, v0=84217)
- After retessellation of defect 13 (v0=84217), euler #=-17 (131446,393737,262274) : difference with theory (-17) = 0
- CORRECTING DEFECT 14 (vertices=20, convex hull=47, v0=84434)
- After retessellation of defect 14 (v0=84434), euler #=-16 (131449,393766,262301) : difference with theory (-16) = 0
- CORRECTING DEFECT 15 (vertices=60, convex hull=81, v0=85434)
- After retessellation of defect 15 (v0=85434), euler #=-15 (131482,393898,262401) : difference with theory (-15) = 0
- CORRECTING DEFECT 16 (vertices=34, convex hull=62, v0=85461)
- After retessellation of defect 16 (v0=85461), euler #=-14 (131491,393950,262445) : difference with theory (-14) = 0
- CORRECTING DEFECT 17 (vertices=149, convex hull=143, v0=86448)
- After retessellation of defect 17 (v0=86448), euler #=-13 (131526,394124,262585) : difference with theory (-13) = 0
- CORRECTING DEFECT 18 (vertices=34, convex hull=26, v0=86967)
- After retessellation of defect 18 (v0=86967), euler #=-12 (131531,394147,262604) : difference with theory (-12) = 0
- CORRECTING DEFECT 19 (vertices=227, convex hull=87, v0=87596)
- After retessellation of defect 19 (v0=87596), euler #=-10 (131543,394225,262672) : difference with theory (-11) = -1
- CORRECTING DEFECT 20 (vertices=55, convex hull=42, v0=87853)
- After retessellation of defect 20 (v0=87853), euler #=-9 (131551,394264,262704) : difference with theory (-10) = -1
- CORRECTING DEFECT 21 (vertices=30, convex hull=24, v0=88555)
- After retessellation of defect 21 (v0=88555), euler #=-8 (131558,394292,262726) : difference with theory (-9) = -1
- CORRECTING DEFECT 22 (vertices=34, convex hull=53, v0=90714)
- After retessellation of defect 22 (v0=90714), euler #=-8 (131579,394379,262792) : difference with theory (-8) = 0
- CORRECTING DEFECT 23 (vertices=58, convex hull=88, v0=90924)
- After retessellation of defect 23 (v0=90924), euler #=-7 (131605,394491,262879) : difference with theory (-7) = 0
- CORRECTING DEFECT 24 (vertices=102, convex hull=122, v0=91900)
- After retessellation of defect 24 (v0=91900), euler #=-6 (131647,394670,263017) : difference with theory (-6) = 0
- CORRECTING DEFECT 25 (vertices=51, convex hull=102, v0=94006)
- After retessellation of defect 25 (v0=94006), euler #=-5 (131680,394812,263127) : difference with theory (-5) = 0
- CORRECTING DEFECT 26 (vertices=32, convex hull=82, v0=98423)
- After retessellation of defect 26 (v0=98423), euler #=-4 (131702,394913,263207) : difference with theory (-4) = 0
- CORRECTING DEFECT 27 (vertices=28, convex hull=61, v0=110776)
- After retessellation of defect 27 (v0=110776), euler #=-3 (131717,394983,263263) : difference with theory (-3) = 0
- CORRECTING DEFECT 28 (vertices=15, convex hull=30, v0=114241)
- After retessellation of defect 28 (v0=114241), euler #=-2 (131721,395004,263281) : difference with theory (-2) = 0
- CORRECTING DEFECT 29 (vertices=186, convex hull=133, v0=115094)
- After retessellation of defect 29 (v0=115094), euler #=-1 (131758,395175,263416) : difference with theory (-1) = 0
- CORRECTING DEFECT 30 (vertices=41, convex hull=96, v0=115756)
- After retessellation of defect 30 (v0=115756), euler #=0 (131779,395276,263497) : difference with theory (0) = 0
- CORRECTING DEFECT 31 (vertices=34, convex hull=81, v0=128720)
- After retessellation of defect 31 (v0=128720), euler #=1 (131792,395345,263554) : difference with theory (1) = 0
- CORRECTING DEFECT 32 (vertices=25, convex hull=65, v0=129857)
- After retessellation of defect 32 (v0=129857), euler #=2 (131800,395394,263596) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.88 +- 0.23 (0.05-->10.12) (max @ vno 113224 --> 120234)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.88 +- 0.23 (0.05-->10.12) (max @ vno 113224 --> 120234)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 103 mutations (34.9%), 192 crossovers (65.1%), 79 vertices were eliminated
- building final representation...
- 1494 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=131800, nf=263596, ne=395394, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 15.6 minutes
- 0 defective edges
- removing intersecting faces
- 000: 216 intersecting
- 001: 7 intersecting
- 002: 5 intersecting
- expanding nbhd size to 2
- 003: 5 intersecting
- mris_fix_topology utimesec 934.190981
- mris_fix_topology stimesec 0.160975
- mris_fix_topology ru_maxrss 420660
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 53917
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 9384
- mris_fix_topology ru_oublock 12584
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 602
- mris_fix_topology ru_nivcsw 2164
- FSRUNTIME@ mris_fix_topology lh 0.2593 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0051264 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=-30 (nv=133352, nf=266764, ne=400146, g=16)
- 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...
- 3134 ambiguous faces found in tessellation
- segmenting defects...
- 30 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- 30 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.6675 (-4.8338)
- -vertex loglikelihood: -6.7457 (-3.3729)
- -normal dot loglikelihood: -3.5974 (-3.5974)
- -quad curv loglikelihood: -6.2067 (-3.1034)
- Total Loglikelihood : -26.2174
- CORRECTING DEFECT 0 (vertices=206, convex hull=124, v0=13735)
- After retessellation of defect 0 (v0=13735), euler #=-27 (131545,394093,262521) : difference with theory (-27) = 0
- CORRECTING DEFECT 1 (vertices=6, convex hull=26, v0=26465)
- After retessellation of defect 1 (v0=26465), euler #=-26 (131546,394102,262530) : difference with theory (-26) = 0
- CORRECTING DEFECT 2 (vertices=53, convex hull=81, v0=33740)
- After retessellation of defect 2 (v0=33740), euler #=-25 (131572,394215,262618) : difference with theory (-25) = 0
- CORRECTING DEFECT 3 (vertices=30, convex hull=82, v0=49216)
- After retessellation of defect 3 (v0=49216), euler #=-24 (131590,394301,262687) : difference with theory (-24) = 0
- CORRECTING DEFECT 4 (vertices=554, convex hull=72, v0=52429)
- After retessellation of defect 4 (v0=52429), euler #=-23 (131602,394367,262742) : difference with theory (-23) = 0
- CORRECTING DEFECT 5 (vertices=156, convex hull=61, v0=58735)
- After retessellation of defect 5 (v0=58735), euler #=-22 (131624,394457,262811) : difference with theory (-22) = 0
- CORRECTING DEFECT 6 (vertices=19, convex hull=56, v0=63534)
- After retessellation of defect 6 (v0=63534), euler #=-21 (131635,394509,262853) : difference with theory (-21) = 0
- CORRECTING DEFECT 7 (vertices=18, convex hull=33, v0=75272)
- After retessellation of defect 7 (v0=75272), euler #=-20 (131638,394534,262876) : difference with theory (-20) = 0
- CORRECTING DEFECT 8 (vertices=37, convex hull=24, v0=77659)
- After retessellation of defect 8 (v0=77659), euler #=-19 (131645,394561,262897) : difference with theory (-19) = 0
- CORRECTING DEFECT 9 (vertices=6, convex hull=32, v0=82576)
- After retessellation of defect 9 (v0=82576), euler #=-18 (131647,394578,262913) : difference with theory (-18) = 0
- CORRECTING DEFECT 10 (vertices=42, convex hull=29, v0=82658)
- After retessellation of defect 10 (v0=82658), euler #=-17 (131651,394601,262933) : difference with theory (-17) = 0
- CORRECTING DEFECT 11 (vertices=55, convex hull=81, v0=88701)
- After retessellation of defect 11 (v0=88701), euler #=-16 (131670,394692,263006) : difference with theory (-16) = 0
- CORRECTING DEFECT 12 (vertices=31, convex hull=36, v0=88853)
- After retessellation of defect 12 (v0=88853), euler #=-15 (131671,394711,263025) : difference with theory (-15) = 0
- CORRECTING DEFECT 13 (vertices=100, convex hull=91, v0=90973)
- After retessellation of defect 13 (v0=90973), euler #=-14 (131716,394889,263159) : difference with theory (-14) = 0
- CORRECTING DEFECT 14 (vertices=11, convex hull=23, v0=91832)
- After retessellation of defect 14 (v0=91832), euler #=-13 (131720,394908,263175) : difference with theory (-13) = 0
- CORRECTING DEFECT 15 (vertices=31, convex hull=59, v0=93016)
- After retessellation of defect 15 (v0=93016), euler #=-12 (131729,394957,263216) : difference with theory (-12) = 0
- CORRECTING DEFECT 16 (vertices=15, convex hull=13, v0=94095)
- After retessellation of defect 16 (v0=94095), euler #=-11 (131730,394962,263221) : difference with theory (-11) = 0
- CORRECTING DEFECT 17 (vertices=15, convex hull=20, v0=94673)
- After retessellation of defect 17 (v0=94673), euler #=-10 (131734,394980,263236) : difference with theory (-10) = 0
- CORRECTING DEFECT 18 (vertices=10, convex hull=16, v0=94938)
- After retessellation of defect 18 (v0=94938), euler #=-9 (131735,394989,263245) : difference with theory (-9) = 0
- CORRECTING DEFECT 19 (vertices=45, convex hull=86, v0=95705)
- After retessellation of defect 19 (v0=95705), euler #=-8 (131763,395104,263333) : difference with theory (-8) = 0
- CORRECTING DEFECT 20 (vertices=28, convex hull=38, v0=97748)
- After retessellation of defect 20 (v0=97748), euler #=-7 (131772,395146,263367) : difference with theory (-7) = 0
- CORRECTING DEFECT 21 (vertices=123, convex hull=93, v0=101267)
- After retessellation of defect 21 (v0=101267), euler #=-6 (131823,395341,263512) : difference with theory (-6) = 0
- CORRECTING DEFECT 22 (vertices=12, convex hull=38, v0=108038)
- After retessellation of defect 22 (v0=108038), euler #=-5 (131827,395365,263533) : difference with theory (-5) = 0
- CORRECTING DEFECT 23 (vertices=102, convex hull=26, v0=109627)
- After retessellation of defect 23 (v0=109627), euler #=-4 (131828,395376,263544) : difference with theory (-4) = 0
- CORRECTING DEFECT 24 (vertices=5, convex hull=17, v0=112919)
- After retessellation of defect 24 (v0=112919), euler #=-3 (131830,395385,263552) : difference with theory (-3) = 0
- CORRECTING DEFECT 25 (vertices=25, convex hull=57, v0=123555)
- After retessellation of defect 25 (v0=123555), euler #=-2 (131842,395438,263594) : difference with theory (-2) = 0
- CORRECTING DEFECT 26 (vertices=42, convex hull=67, v0=125614)
- After retessellation of defect 26 (v0=125614), euler #=-1 (131865,395535,263669) : difference with theory (-1) = 0
- CORRECTING DEFECT 27 (vertices=28, convex hull=56, v0=127887)
- After retessellation of defect 27 (v0=127887), euler #=0 (131882,395608,263726) : difference with theory (0) = 0
- CORRECTING DEFECT 28 (vertices=16, convex hull=39, v0=130060)
- After retessellation of defect 28 (v0=130060), euler #=1 (131885,395632,263748) : difference with theory (1) = 0
- CORRECTING DEFECT 29 (vertices=34, convex hull=52, v0=130500)
- After retessellation of defect 29 (v0=130500), euler #=2 (131897,395685,263790) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.87 +- 0.21 (0.05-->5.49) (max @ vno 121227 --> 124286)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.87 +- 0.21 (0.05-->5.49) (max @ vno 121227 --> 124286)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 110 mutations (35.7%), 198 crossovers (64.3%), 43 vertices were eliminated
- building final representation...
- 1455 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=131897, nf=263790, ne=395685, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 12.7 minutes
- 0 defective edges
- removing intersecting faces
- 000: 141 intersecting
- mris_fix_topology utimesec 762.076146
- mris_fix_topology stimesec 0.187971
- mris_fix_topology ru_maxrss 420732
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 53937
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 9384
- mris_fix_topology ru_oublock 12568
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 346
- mris_fix_topology ru_nivcsw 5947
- FSRUNTIME@ mris_fix_topology rh 0.2118 hours 1 threads
- PIDs (20661 20664) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 131800 - 395394 + 263596 = 2 --> 0 holes
- F =2V-4: 263596 = 263600-4 (0)
- 2E=3F: 790788 = 790788 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 131897 - 395685 + 263790 = 2 --> 0 holes
- F =2V-4: 263790 = 263794-4 (0)
- 2E=3F: 791370 = 791370 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 44 intersecting
- 001: 6 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 30 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Sun Oct 8 01:05:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051264 lh
- #--------------------------------------------
- #@# Make White Surf rh Sun Oct 8 01:05:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051264 rh
- Waiting for PID 21367 of (21367 21370) to complete...
- Waiting for PID 21370 of (21367 21370) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051264 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-6.0.0/0051264/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- 28781 bright wm thresholded.
- 136 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.orig...
- computing class statistics...
- border white: 239764 voxels (1.43%)
- border gray 274137 voxels (1.63%)
- WM (99.0): 98.1 +- 9.9 [70.0 --> 110.0]
- GM (63.0) : 63.0 +- 11.2 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 46.8 (was 70)
- setting MAX_BORDER_WHITE to 113.9 (was 105)
- setting MIN_BORDER_WHITE to 58.0 (was 85)
- setting MAX_CSF to 35.7 (was 40)
- setting MAX_GRAY to 94.1 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 46.8 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 24.5 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.81 +- 0.22 (0.02-->4.04) (max @ vno 113225 --> 131724)
- face area 0.27 +- 0.12 (0.00-->2.62)
- mean absolute distance = 0.60 +- 0.71
- 3180 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=104+-7.0, GM=58+-7.8
- mean inside = 92.1, mean outside = 66.7
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- mean border=73.3, 13 (13) missing vertices, mean dist 0.3 [0.5 (%37.6)->0.7 (%62.4))]
- %73 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.91 +- 0.25 (0.16-->3.99) (max @ vno 48599 --> 48623)
- face area 0.27 +- 0.13 (0.00-->2.40)
- mean absolute distance = 0.27 +- 0.45
- 1993 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=5014755.5, rms=13.335
- 001: dt: 0.5000, sse=2685821.8, rms=9.288 (30.347%)
- 002: dt: 0.5000, sse=1788499.2, rms=7.135 (23.183%)
- 003: dt: 0.5000, sse=1378616.1, rms=5.888 (17.475%)
- 004: dt: 0.5000, sse=1204195.1, rms=5.268 (10.529%)
- 005: dt: 0.5000, sse=1126696.9, rms=4.961 (5.821%)
- 006: dt: 0.5000, sse=1098869.0, rms=4.847 (2.299%)
- 007: dt: 0.5000, sse=1081083.4, rms=4.771 (1.585%)
- rms = 4.74, time step reduction 1 of 3 to 0.250...
- 008: dt: 0.5000, sse=1078068.6, rms=4.742 (0.602%)
- 009: dt: 0.2500, sse=772636.0, rms=3.165 (33.263%)
- 010: dt: 0.2500, sse=703658.8, rms=2.695 (14.849%)
- 011: dt: 0.2500, sse=694923.9, rms=2.623 (2.646%)
- 012: dt: 0.2500, sse=684789.9, rms=2.543 (3.077%)
- rms = 2.53, time step reduction 2 of 3 to 0.125...
- 013: dt: 0.2500, sse=683235.8, rms=2.528 (0.582%)
- 014: dt: 0.1250, sse=624209.1, rms=1.992 (21.195%)
- 015: dt: 0.1250, sse=617053.4, rms=1.919 (3.680%)
- rms = 1.91, time step reduction 3 of 3 to 0.062...
- 016: dt: 0.1250, sse=616459.7, rms=1.911 (0.413%)
- positioning took 1.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=77.2, 22 (1) missing vertices, mean dist -0.2 [0.3 (%75.2)->0.2 (%24.8))]
- %80 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 0.90 +- 0.25 (0.09-->3.44) (max @ vno 113225 --> 131724)
- face area 0.35 +- 0.16 (0.00-->3.08)
- mean absolute distance = 0.20 +- 0.33
- 2067 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1374072.4, rms=5.330
- 017: dt: 0.5000, sse=1112861.0, rms=4.185 (21.477%)
- rms = 4.65, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=855501.1, rms=2.788 (33.371%)
- 019: dt: 0.2500, sse=788123.3, rms=2.272 (18.526%)
- 020: dt: 0.2500, sse=758142.6, rms=1.993 (12.273%)
- rms = 2.00, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.1250, sse=742658.6, rms=1.828 (8.280%)
- 022: dt: 0.1250, sse=721504.4, rms=1.574 (13.901%)
- rms = 1.54, time step reduction 3 of 3 to 0.062...
- 023: dt: 0.1250, sse=718551.8, rms=1.535 (2.451%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=79.6, 25 (1) missing vertices, mean dist -0.1 [0.2 (%68.4)->0.2 (%31.6))]
- %85 local maxima, %10 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=0.5, host=tars-, nav=1, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.250
- vertex spacing 0.90 +- 0.25 (0.11-->3.44) (max @ vno 113225 --> 131724)
- face area 0.34 +- 0.16 (0.00-->3.06)
- mean absolute distance = 0.18 +- 0.28
- 2126 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=933967.7, rms=3.385
- rms = 4.23, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=773028.1, rms=2.241 (33.787%)
- 025: dt: 0.2500, sse=717217.3, rms=1.659 (25.968%)
- rms = 1.63, time step reduction 2 of 3 to 0.125...
- 026: dt: 0.2500, sse=713079.4, rms=1.628 (1.892%)
- 027: dt: 0.1250, sse=694190.9, rms=1.371 (15.765%)
- rms = 1.35, time step reduction 3 of 3 to 0.062...
- 028: dt: 0.1250, sse=692095.9, rms=1.345 (1.890%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- mean border=80.5, 32 (1) missing vertices, mean dist -0.0 [0.2 (%54.9)->0.2 (%45.1))]
- %87 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-6.0.0/0051264/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=716346.7, rms=1.742
- rms = 2.85, time step reduction 1 of 3 to 0.250...
- 029: dt: 0.2500, sse=670762.2, rms=1.106 (36.495%)
- 030: dt: 0.2500, sse=663849.4, rms=0.985 (10.970%)
- rms = 1.00, time step reduction 2 of 3 to 0.125...
- rms = 0.97, time step reduction 3 of 3 to 0.062...
- 031: dt: 0.1250, sse=662479.7, rms=0.967 (1.786%)
- positioning took 0.4 minutes
- generating cortex label...
- 11 non-cortical segments detected
- only using segment with 6713 vertices
- erasing segment 1 (vno[0] = 85435)
- erasing segment 2 (vno[0] = 85437)
- erasing segment 3 (vno[0] = 86204)
- erasing segment 4 (vno[0] = 87561)
- erasing segment 5 (vno[0] = 89479)
- erasing segment 6 (vno[0] = 90493)
- erasing segment 7 (vno[0] = 91462)
- erasing segment 8 (vno[0] = 92502)
- erasing segment 9 (vno[0] = 93357)
- erasing segment 10 (vno[0] = 93398)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.area
- vertex spacing 0.90 +- 0.25 (0.04-->3.99) (max @ vno 48599 --> 48623)
- face area 0.34 +- 0.16 (0.00-->3.06)
- refinement took 5.0 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0051264 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-6.0.0/0051264/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- 28781 bright wm thresholded.
- 136 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.orig...
- computing class statistics...
- border white: 239764 voxels (1.43%)
- border gray 274137 voxels (1.63%)
- WM (99.0): 98.1 +- 9.9 [70.0 --> 110.0]
- GM (63.0) : 63.0 +- 11.2 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 48.8 (was 70)
- setting MAX_BORDER_WHITE to 113.9 (was 105)
- setting MIN_BORDER_WHITE to 60.0 (was 85)
- setting MAX_CSF to 37.7 (was 40)
- setting MAX_GRAY to 94.1 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 48.8 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 26.5 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.81 +- 0.22 (0.03-->2.97) (max @ vno 104807 --> 131810)
- face area 0.27 +- 0.12 (0.00-->1.52)
- mean absolute distance = 0.61 +- 0.75
- 2893 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=104+-7.0, GM=60+-8.7
- mean inside = 92.4, mean outside = 67.8
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- mean border=75.1, 44 (44) missing vertices, mean dist 0.2 [0.5 (%39.4)->0.7 (%60.6))]
- %72 local maxima, %23 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.91 +- 0.25 (0.09-->3.59) (max @ vno 85175 --> 85196)
- face area 0.27 +- 0.13 (0.00-->1.85)
- mean absolute distance = 0.28 +- 0.48
- 2393 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=4699925.5, rms=12.831
- 001: dt: 0.5000, sse=2482021.0, rms=8.832 (31.168%)
- 002: dt: 0.5000, sse=1639469.1, rms=6.705 (24.079%)
- 003: dt: 0.5000, sse=1281027.5, rms=5.543 (17.329%)
- 004: dt: 0.5000, sse=1137277.5, rms=5.010 (9.629%)
- 005: dt: 0.5000, sse=1071812.8, rms=4.743 (5.314%)
- 006: dt: 0.5000, sse=1052728.8, rms=4.660 (1.766%)
- 007: dt: 0.5000, sse=1038479.0, rms=4.593 (1.431%)
- rms = 4.58, time step reduction 1 of 3 to 0.250...
- 008: dt: 0.5000, sse=1035533.1, rms=4.581 (0.258%)
- 009: dt: 0.2500, sse=748126.2, rms=3.024 (33.982%)
- 010: dt: 0.2500, sse=684091.6, rms=2.560 (15.362%)
- 011: dt: 0.2500, sse=677697.7, rms=2.494 (2.564%)
- 012: dt: 0.2500, sse=666605.9, rms=2.425 (2.779%)
- rms = 2.42, time step reduction 2 of 3 to 0.125...
- 013: dt: 0.2500, sse=671063.7, rms=2.422 (0.117%)
- 014: dt: 0.1250, sse=614060.4, rms=1.923 (20.606%)
- 015: dt: 0.1250, sse=606733.4, rms=1.852 (3.673%)
- rms = 1.84, time step reduction 3 of 3 to 0.062...
- 016: dt: 0.1250, sse=606815.5, rms=1.843 (0.508%)
- positioning took 1.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=78.7, 67 (8) missing vertices, mean dist -0.2 [0.3 (%73.7)->0.2 (%26.3))]
- %79 local maxima, %17 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.90 +- 0.24 (0.12-->3.21) (max @ vno 91695 --> 91696)
- face area 0.34 +- 0.16 (0.00-->2.29)
- mean absolute distance = 0.21 +- 0.35
- 2561 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1306113.8, rms=5.071
- 017: dt: 0.5000, sse=1069461.8, rms=4.044 (20.252%)
- rms = 4.48, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=843004.1, rms=2.725 (32.614%)
- 019: dt: 0.2500, sse=777422.4, rms=2.203 (19.142%)
- 020: dt: 0.2500, sse=749188.9, rms=1.929 (12.449%)
- rms = 1.91, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=746263.0, rms=1.909 (1.030%)
- 022: dt: 0.1250, sse=716398.7, rms=1.559 (18.363%)
- 023: dt: 0.1250, sse=712697.9, rms=1.506 (3.394%)
- rms = 1.51, time step reduction 3 of 3 to 0.062...
- 024: dt: 0.1250, sse=712369.0, rms=1.506 (0.013%)
- 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 4 vertex label from ripped group
- mean border=81.0, 57 (6) missing vertices, mean dist -0.1 [0.2 (%67.7)->0.2 (%32.3))]
- %85 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 0.89 +- 0.24 (0.09-->3.17) (max @ vno 82688 --> 82689)
- face area 0.34 +- 0.16 (0.00-->2.21)
- mean absolute distance = 0.19 +- 0.30
- 2583 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=902080.1, rms=3.212
- rms = 3.93, time step reduction 1 of 3 to 0.250...
- 025: dt: 0.2500, sse=760454.4, rms=2.162 (32.693%)
- 026: dt: 0.2500, sse=707942.8, rms=1.588 (26.559%)
- rms = 1.55, time step reduction 2 of 3 to 0.125...
- 027: dt: 0.2500, sse=703902.2, rms=1.555 (2.079%)
- 028: dt: 0.1250, sse=688021.4, rms=1.341 (13.724%)
- rms = 1.32, time step reduction 3 of 3 to 0.062...
- 029: dt: 0.1250, sse=687016.8, rms=1.325 (1.221%)
- positioning took 0.5 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=81.8, 54 (4) missing vertices, mean dist -0.0 [0.2 (%54.5)->0.2 (%45.5))]
- %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-6.0.0/0051264/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=708734.2, rms=1.697
- rms = 2.67, time step reduction 1 of 3 to 0.250...
- 030: dt: 0.2500, sse=666531.0, rms=1.101 (35.085%)
- 031: dt: 0.2500, sse=662176.2, rms=0.979 (11.142%)
- rms = 1.00, time step reduction 2 of 3 to 0.125...
- rms = 0.96, time step reduction 3 of 3 to 0.062...
- 032: dt: 0.1250, sse=659444.6, rms=0.964 (1.518%)
- positioning took 0.4 minutes
- generating cortex label...
- 11 non-cortical segments detected
- only using segment with 6583 vertices
- erasing segment 0 (vno[0] = 27153)
- erasing segment 2 (vno[0] = 76565)
- erasing segment 3 (vno[0] = 78879)
- erasing segment 4 (vno[0] = 83813)
- erasing segment 5 (vno[0] = 85170)
- erasing segment 6 (vno[0] = 86462)
- erasing segment 7 (vno[0] = 86520)
- erasing segment 8 (vno[0] = 87608)
- erasing segment 9 (vno[0] = 90686)
- erasing segment 10 (vno[0] = 90744)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.area
- vertex spacing 0.89 +- 0.25 (0.04-->3.59) (max @ vno 85175 --> 85196)
- face area 0.33 +- 0.15 (0.00-->2.24)
- refinement took 5.1 minutes
- PIDs (21367 21370) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Sun Oct 8 01:10:13 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Sun Oct 8 01:10:13 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 21565 of (21565 21568) to complete...
- Waiting for PID 21568 of (21565 21568) 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 (21565 21568) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Sun Oct 8 01:10:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Sun Oct 8 01:10:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 21616 of (21616 21619) to complete...
- Waiting for PID 21619 of (21616 21619) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 45.5 mm, total surface area = 80111 mm^2
- writing inflated surface to ../surf/lh.inflated
- writing sulcal depths to ../surf/lh.sulc
-
step 000: RMS=0.182 (target=0.015)
step 005: RMS=0.126 (target=0.015)
step 010: RMS=0.092 (target=0.015)
step 015: RMS=0.075 (target=0.015)
step 020: RMS=0.062 (target=0.015)
step 025: RMS=0.052 (target=0.015)
step 030: RMS=0.042 (target=0.015)
step 035: RMS=0.035 (target=0.015)
step 040: RMS=0.030 (target=0.015)
step 045: RMS=0.027 (target=0.015)
step 050: RMS=0.024 (target=0.015)
step 055: RMS=0.023 (target=0.015)
step 060: RMS=0.022 (target=0.015)
- inflation complete.
- inflation took 0.7 minutes
- mris_inflate utimesec 40.047911
- mris_inflate stimesec 0.095985
- mris_inflate ru_maxrss 193268
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 28452
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 9272
- mris_inflate ru_oublock 10320
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2293
- mris_inflate ru_nivcsw 3072
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 44.7 mm, total surface area = 79249 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.184 (target=0.015)
step 005: RMS=0.126 (target=0.015)
step 010: RMS=0.093 (target=0.015)
step 015: RMS=0.076 (target=0.015)
step 020: RMS=0.063 (target=0.015)
step 025: RMS=0.053 (target=0.015)
step 030: RMS=0.044 (target=0.015)
step 035: RMS=0.037 (target=0.015)
step 040: RMS=0.032 (target=0.015)
step 045: RMS=0.028 (target=0.015)
step 050: RMS=0.026 (target=0.015)
step 055: RMS=0.024 (target=0.015)
step 060: RMS=0.022 (target=0.015)
- inflation complete.
- inflation took 0.7 minutes
- mris_inflate utimesec 39.756956
- mris_inflate stimesec 0.089986
- mris_inflate ru_maxrss 193516
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 28002
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 10328
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2281
- mris_inflate ru_nivcsw 3080
- PIDs (21616 21619) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Sun Oct 8 01:10:59 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 01:11:00 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 21714 of (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) to complete...
- Waiting for PID 21717 of (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) to complete...
- Waiting for PID 21720 of (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) to complete...
- Waiting for PID 21723 of (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) to complete...
- Waiting for PID 21726 of (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) to complete...
- Waiting for PID 21729 of (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) to complete...
- Waiting for PID 21732 of (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) to complete...
- Waiting for PID 21735 of (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) to complete...
- Waiting for PID 21738 of (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) to complete...
- Waiting for PID 21742 of (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) to complete...
- Waiting for PID 21745 of (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) to complete...
- Waiting for PID 21748 of (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = -1.654*4pi (-20.786) --> 3 handles
- ICI = 149.2, FI = 1770.8, variation=27231.774
- 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
- 215 vertices thresholded to be in k1 ~ [-0.17 0.24], k2 ~ [-0.11 0.07]
- total integrated curvature = 0.554*4pi (6.962) --> 0 handles
- ICI = 1.4, FI = 8.2, variation=143.386
- 125 vertices thresholded to be in [-0.01 0.02]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 146 vertices thresholded to be in [-0.13 0.11]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.017, std = 0.020
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = -1.833*4pi (-23.037) --> 3 handles
- ICI = 159.1, FI = 1817.9, variation=28173.308
- 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
- 145 vertices thresholded to be in k1 ~ [-0.22 0.38], k2 ~ [-0.12 0.08]
- total integrated curvature = 0.558*4pi (7.017) --> 0 handles
- ICI = 1.4, FI = 8.3, variation=142.585
- 127 vertices thresholded to be in [-0.02 0.01]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.001
- 127 vertices thresholded to be in [-0.13 0.13]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.016, std = 0.021
- done.
- PIDs (21714 21717 21720 21723 21726 21729 21732 21735 21738 21742 21745 21748) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Sun Oct 8 01:12:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0051264 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 [ 0051264/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 [ 248 ]
- Gb_filter = 0
- WARN: S lookup min: -0.561493
- WARN: S explicit min: 0.000000 vertex = 316
- #-----------------------------------------
- #@# Curvature Stats rh Sun Oct 8 01:12:23 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0051264 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 [ 0051264/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 [ 231 ]
- Gb_filter = 0
- WARN: S lookup min: -0.243059
- WARN: S explicit min: 0.000000 vertex = 634
- #--------------------------------------------
- #@# Sphere lh Sun Oct 8 01:12:27 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Sun Oct 8 01:12:27 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 21897 of (21897 21900) to complete...
- Waiting for PID 21900 of (21897 21900) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0.280...
- MRISunfold() max_passes = 1 -------
- tol=5.0e-01, sigma=0.0, host=tars-, nav=1024, nbrs=2, l_area=1.000, l_dist=1.000
- using quadratic fit line minimization
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 1.000000
- desired_rms_height -1.000000
- momentum 0.900000
- nbhd_size 7
- max_nbrs 8
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 1234
- --------------------
- mrisRemoveNegativeArea()
- pass 1: epoch 1 of 3 starting distance error %41.71
- pass 1: epoch 2 of 3 starting distance error %20.30
- unfolding complete - removing small folds...
- starting distance error %20.19
- removing remaining folds...
- final distance error %20.21
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 116 negative triangles
- 141: dt=0.9900, 116 negative triangles
- 142: dt=0.9900, 41 negative triangles
- 143: dt=0.9900, 34 negative triangles
- 144: dt=0.9900, 32 negative triangles
- 145: dt=0.9900, 24 negative triangles
- 146: dt=0.9900, 19 negative triangles
- 147: dt=0.9900, 20 negative triangles
- 148: dt=0.9900, 18 negative triangles
- 149: dt=0.9900, 20 negative triangles
- 150: dt=0.9900, 26 negative triangles
- 151: dt=0.9900, 18 negative triangles
- 152: dt=0.9900, 14 negative triangles
- 153: dt=0.9900, 15 negative triangles
- 154: dt=0.9900, 18 negative triangles
- 155: dt=0.9900, 13 negative triangles
- 156: dt=0.9900, 10 negative triangles
- 157: dt=0.9900, 11 negative triangles
- 158: dt=0.9900, 14 negative triangles
- 159: dt=0.9900, 8 negative triangles
- 160: dt=0.9900, 9 negative triangles
- 161: dt=0.9900, 9 negative triangles
- 162: dt=0.9900, 12 negative triangles
- 163: dt=0.9900, 9 negative triangles
- 164: dt=0.9900, 7 negative triangles
- 165: dt=0.9900, 8 negative triangles
- 166: dt=0.9900, 10 negative triangles
- 167: dt=0.9900, 9 negative triangles
- 168: dt=0.9900, 10 negative triangles
- 169: dt=0.9900, 12 negative triangles
- 170: dt=0.9900, 13 negative triangles
- 171: dt=0.9900, 9 negative triangles
- 172: dt=0.9900, 5 negative triangles
- 173: dt=0.9900, 5 negative triangles
- 174: dt=0.9900, 5 negative triangles
- 175: dt=0.9900, 7 negative triangles
- 176: dt=0.9900, 5 negative triangles
- 177: dt=0.9900, 2 negative triangles
- 178: dt=0.9900, 4 negative triangles
- 179: dt=0.9900, 1 negative triangles
- 180: dt=0.9900, 4 negative triangles
- 181: dt=0.9900, 1 negative triangles
- 182: dt=0.9900, 4 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 0.51 hours
- mris_sphere utimesec 1826.493330
- mris_sphere stimesec 0.818875
- mris_sphere ru_maxrss 274144
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 48308
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 9328
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 81681
- mris_sphere ru_nivcsw 145959
- FSRUNTIME@ mris_sphere 0.5062 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0.287...
- 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 %40.21
- pass 1: epoch 2 of 3 starting distance error %19.94
- unfolding complete - removing small folds...
- starting distance error %19.89
- removing remaining folds...
- final distance error %19.91
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 120 negative triangles
- 154: dt=0.9900, 120 negative triangles
- 155: dt=0.9900, 27 negative triangles
- 156: dt=0.9900, 17 negative triangles
- 157: dt=0.9900, 6 negative triangles
- 158: dt=0.9900, 9 negative triangles
- 159: dt=0.9900, 6 negative triangles
- 160: dt=0.9900, 4 negative triangles
- 161: dt=0.9900, 4 negative triangles
- 162: dt=0.9900, 4 negative triangles
- 163: dt=0.9900, 1 negative triangles
- 164: dt=0.9900, 1 negative triangles
- 165: dt=0.9900, 1 negative triangles
- 166: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 0.51 hours
- mris_sphere utimesec 1818.164596
- mris_sphere stimesec 0.956854
- mris_sphere ru_maxrss 272192
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 47799
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 9304
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 81532
- mris_sphere ru_nivcsw 147185
- FSRUNTIME@ mris_sphere 0.5051 hours 1 threads
- PIDs (21897 21900) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Sun Oct 8 01:42:50 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/touch/rusage.mris_register.lh.dat ../surf/lh.sphere /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif ../surf/lh.sphere.reg
- #--------------------------------------------
- #@# Surf Reg rh Sun Oct 8 01:42:50 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 23303 of (23303 23306) to complete...
- Waiting for PID 23306 of (23303 23306) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 = 5.494
- curvature mean = 0.047, std = 0.821
- curvature mean = 0.016, std = 0.864
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (16.00, 0.00, 16.00) sse = 343482.5, tmin=0.9818
- d=32.00 min @ (-8.00, -8.00, 8.00) sse = 225482.1, tmin=1.9895
- d=8.00 min @ (-2.00, 0.00, 0.00) sse = 220852.0, tmin=4.0397
- d=4.00 min @ (0.00, 1.00, 0.00) sse = 219511.6, tmin=5.0782
- d=2.00 min @ (0.50, 0.00, -0.50) sse = 219017.3, tmin=6.1146
- d=0.50 min @ (0.00, -0.12, 0.00) sse = 218995.9, tmin=8.2187
- 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 8.22 min
- curvature mean = 0.014, std = 0.836
- curvature mean = 0.007, std = 0.947
- curvature mean = 0.010, std = 0.847
- curvature mean = 0.003, std = 0.979
- curvature mean = 0.009, std = 0.848
- curvature mean = 0.001, std = 0.992
- 2 Reading smoothwm
- curvature mean = -0.020, std = 0.318
- curvature mean = 0.042, std = 0.247
- curvature mean = 0.057, std = 0.320
- curvature mean = 0.038, std = 0.305
- curvature mean = 0.030, std = 0.499
- curvature mean = 0.037, std = 0.332
- curvature mean = 0.017, std = 0.631
- curvature mean = 0.037, std = 0.343
- curvature mean = 0.006, std = 0.736
- MRISregister() return, current seed 0
- -01: dt=0.0000, 37 negative triangles
- 110: dt=0.9900, 37 negative triangles
- expanding nbhd size to 1
- 111: dt=0.9900, 41 negative triangles
- 112: dt=0.9900, 34 negative triangles
- 113: dt=0.9900, 35 negative triangles
- 114: dt=0.9900, 34 negative triangles
- 115: dt=0.9900, 32 negative triangles
- 116: dt=0.9900, 29 negative triangles
- 117: dt=0.9900, 26 negative triangles
- 118: dt=0.9900, 33 negative triangles
- 119: dt=0.9900, 31 negative triangles
- 120: dt=0.9900, 29 negative triangles
- 121: dt=0.9900, 27 negative triangles
- 122: dt=0.9900, 25 negative triangles
- 123: dt=0.9900, 25 negative triangles
- 124: dt=0.9900, 32 negative triangles
- 125: dt=0.9900, 29 negative triangles
- 126: dt=0.9900, 29 negative triangles
- 127: dt=0.9900, 25 negative triangles
- 128: dt=0.9900, 26 negative triangles
- 129: dt=0.9900, 24 negative triangles
- 130: dt=0.9900, 22 negative triangles
- 131: dt=0.9900, 19 negative triangles
- 132: dt=0.9900, 22 negative triangles
- 133: dt=0.9900, 18 negative triangles
- 134: dt=0.9900, 18 negative triangles
- 135: dt=0.9900, 17 negative triangles
- 136: dt=0.9900, 21 negative triangles
- 137: dt=0.9900, 17 negative triangles
- 138: dt=0.9900, 15 negative triangles
- 139: dt=0.9900, 17 negative triangles
- 140: dt=0.9900, 21 negative triangles
- 141: dt=0.9900, 14 negative triangles
- 142: dt=0.9900, 15 negative triangles
- 143: dt=0.9900, 14 negative triangles
- 144: dt=0.9900, 13 negative triangles
- 145: dt=0.9900, 12 negative triangles
- 146: dt=0.9900, 16 negative triangles
- 147: dt=0.9900, 10 negative triangles
- 148: dt=0.9900, 13 negative triangles
- 149: dt=0.9900, 7 negative triangles
- 150: dt=0.9900, 10 negative triangles
- 151: dt=0.9900, 6 negative triangles
- 152: dt=0.9900, 8 negative triangles
- 153: dt=0.9900, 6 negative triangles
- 154: dt=0.9900, 9 negative triangles
- 155: dt=0.9900, 6 negative triangles
- 156: dt=0.9900, 3 negative triangles
- 157: dt=0.9900, 2 negative triangles
- 158: dt=0.9900, 1 negative triangles
- 159: dt=0.9900, 1 negative triangles
- 160: dt=0.9900, 1 negative triangles
- 161: dt=0.9900, 1 negative triangles
- 162: dt=0.9900, 1 negative triangles
- 163: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 1.29 hours
- mris_register utimesec 4643.061147
- mris_register stimesec 3.714435
- mris_register ru_maxrss 246428
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 35261
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 0
- mris_register ru_oublock 9368
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 329170
- mris_register ru_nivcsw 215382
- FSRUNTIME@ mris_register 1.2901 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 = 5.559
- curvature mean = 0.046, std = 0.807
- curvature mean = 0.018, std = 0.868
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (16.00, -16.00, 32.00) sse = 368622.0, tmin=0.9886
- d=32.00 min @ (-8.00, 0.00, -8.00) sse = 268811.4, tmin=2.0181
- d=16.00 min @ (0.00, 4.00, -4.00) sse = 253770.1, tmin=3.0463
- d=8.00 min @ (0.00, -2.00, 0.00) sse = 253453.4, tmin=4.1000
- d=4.00 min @ (0.00, 1.00, 1.00) sse = 252182.6, tmin=5.1618
- d=2.00 min @ (0.00, 0.00, -0.50) sse = 251997.5, tmin=6.2221
- d=0.50 min @ (-0.12, 0.00, 0.00) sse = 251988.6, tmin=8.3520
- 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 8.35 min
- curvature mean = 0.014, std = 0.826
- curvature mean = 0.007, std = 0.950
- curvature mean = 0.010, std = 0.836
- curvature mean = 0.003, std = 0.980
- curvature mean = 0.009, std = 0.838
- curvature mean = 0.000, std = 0.992
- 2 Reading smoothwm
- curvature mean = -0.021, std = 0.316
- curvature mean = 0.038, std = 0.242
- curvature mean = 0.060, std = 0.319
- curvature mean = 0.033, std = 0.300
- curvature mean = 0.029, std = 0.505
- curvature mean = 0.032, std = 0.327
- curvature mean = 0.015, std = 0.644
- curvature mean = 0.032, std = 0.338
- curvature mean = 0.004, std = 0.756
- MRISregister() return, current seed 0
- -01: dt=0.0000, 31 negative triangles
- 110: dt=0.9900, 31 negative triangles
- expanding nbhd size to 1
- 111: dt=0.9900, 40 negative triangles
- 112: dt=0.9900, 33 negative triangles
- 113: dt=0.9900, 29 negative triangles
- 114: dt=0.9900, 28 negative triangles
- 115: dt=0.9900, 28 negative triangles
- 116: dt=0.9900, 26 negative triangles
- 117: dt=0.9900, 26 negative triangles
- 118: dt=0.9900, 21 negative triangles
- 119: dt=0.9900, 21 negative triangles
- 120: dt=0.9900, 18 negative triangles
- 121: dt=0.9900, 17 negative triangles
- 122: dt=0.9900, 19 negative triangles
- 123: dt=0.9900, 18 negative triangles
- 124: dt=0.9900, 14 negative triangles
- 125: dt=0.9900, 15 negative triangles
- 126: dt=0.9900, 14 negative triangles
- 127: dt=0.9900, 15 negative triangles
- 128: dt=0.9900, 14 negative triangles
- 129: dt=0.9900, 13 negative triangles
- 130: dt=0.9900, 12 negative triangles
- 131: dt=0.9900, 12 negative triangles
- 132: dt=0.9900, 10 negative triangles
- 133: dt=0.9900, 10 negative triangles
- 134: dt=0.9900, 13 negative triangles
- 135: dt=0.9900, 9 negative triangles
- 136: dt=0.9900, 12 negative triangles
- 137: dt=0.9900, 8 negative triangles
- 138: dt=0.9900, 8 negative triangles
- 139: dt=0.9900, 12 negative triangles
- 140: dt=0.9900, 7 negative triangles
- 141: dt=0.9900, 6 negative triangles
- 142: dt=0.9900, 6 negative triangles
- 143: dt=0.9900, 6 negative triangles
- 144: dt=0.9900, 7 negative triangles
- 145: dt=0.9900, 7 negative triangles
- 146: dt=0.9900, 6 negative triangles
- 147: dt=0.9900, 5 negative triangles
- 148: dt=0.9900, 5 negative triangles
- 149: dt=0.9900, 5 negative triangles
- 150: dt=0.9900, 5 negative triangles
- 151: dt=0.9900, 5 negative triangles
- 152: dt=0.9900, 5 negative triangles
- 153: dt=0.9900, 5 negative triangles
- 154: dt=0.9900, 4 negative triangles
- 155: dt=0.9900, 4 negative triangles
- 156: dt=0.9900, 4 negative triangles
- 157: dt=0.9900, 4 negative triangles
- 158: dt=0.9900, 3 negative triangles
- 159: dt=0.9900, 2 negative triangles
- 160: dt=0.9900, 2 negative triangles
- 161: dt=0.9900, 2 negative triangles
- 162: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- registration took 1.36 hours
- mris_register utimesec 5069.083382
- mris_register stimesec 3.537462
- mris_register ru_maxrss 247680
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 34053
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 0
- mris_register ru_oublock 9376
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 355495
- mris_register ru_nivcsw 214717
- FSRUNTIME@ mris_register 1.3646 hours 1 threads
- PIDs (23303 23306) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Sun Oct 8 03:04:42 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Sun Oct 8 03:04:42 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 31096 of (31096 31099) to complete...
- Waiting for PID 31099 of (31096 31099) 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 (31096 31099) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Sun Oct 8 03:04:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mrisp_paint -a 5 /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.folding.atlas.acfb40.noaparc.i12.2016-08-02.tif#6 ../surf/lh.sphere.reg ../surf/lh.avg_curv
- #--------------------------------------------
- #@# AvgCurv rh Sun Oct 8 03:04:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 31143 of (31143 31146) to complete...
- Waiting for PID 31146 of (31143 31146) 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 (31143 31146) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Sun Oct 8 03:04:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051264 lh ../surf/lh.sphere.reg /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/lh.DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs ../label/lh.aparc.annot
- #-----------------------------------------
- #@# Cortical Parc rh Sun Oct 8 03:04:46 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051264 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 31190 of (31190 31193) to complete...
- Waiting for PID 31193 of (31190 31193) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051264 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...
- 1286 labels changed using aseg
- relabeling using gibbs priors...
- 000: 3051 changed, 131800 examined...
- 001: 739 changed, 12830 examined...
- 002: 183 changed, 4123 examined...
- 003: 70 changed, 1086 examined...
- 004: 22 changed, 422 examined...
- 005: 9 changed, 127 examined...
- 006: 10 changed, 57 examined...
- 007: 1 changed, 50 examined...
- 008: 0 changed, 7 examined...
- 263 labels changed using aseg
- 000: 122 total segments, 78 labels (284 vertices) changed
- 001: 43 total segments, 5 labels (11 vertices) changed
- 002: 38 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...
- 2033 vertices marked for relabeling...
- 2033 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 15 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051264 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...
- 1047 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2664 changed, 131897 examined...
- 001: 639 changed, 11600 examined...
- 002: 164 changed, 3590 examined...
- 003: 41 changed, 1043 examined...
- 004: 16 changed, 243 examined...
- 005: 10 changed, 93 examined...
- 006: 5 changed, 52 examined...
- 007: 1 changed, 33 examined...
- 008: 0 changed, 6 examined...
- 132 labels changed using aseg
- 000: 89 total segments, 52 labels (202 vertices) changed
- 001: 39 total segments, 2 labels (2 vertices) changed
- 002: 37 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 9 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1460 vertices marked for relabeling...
- 1460 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 15 seconds.
- PIDs (31190 31193) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Sun Oct 8 03:05:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051264 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Sun Oct 8 03:05:01 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051264 rh
- Waiting for PID 31252 of (31252 31255) to complete...
- Waiting for PID 31255 of (31252 31255) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051264 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-6.0.0/0051264/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- 28781 bright wm thresholded.
- 136 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.orig...
- computing class statistics...
- border white: 239764 voxels (1.43%)
- border gray 274137 voxels (1.63%)
- WM (99.0): 98.1 +- 9.9 [70.0 --> 110.0]
- GM (63.0) : 63.0 +- 11.2 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 46.8 (was 70)
- setting MAX_BORDER_WHITE to 113.9 (was 105)
- setting MIN_BORDER_WHITE to 58.0 (was 85)
- setting MAX_CSF to 35.7 (was 40)
- setting MAX_GRAY to 94.1 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 46.8 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 24.5 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=104+-7.0, GM=58+-7.8
- mean inside = 92.1, mean outside = 66.7
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.90 +- 0.25 (0.04-->3.99) (max @ vno 48599 --> 48623)
- face area 0.34 +- 0.16 (0.00-->3.04)
- mean absolute distance = 0.47 +- 0.67
- 1951 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- deleting segment 0 with 4 points - only 0.00% unknown
- deleting segment 1 with 37 points - only 0.00% unknown
- deleting segment 4 with 11 points - only 0.00% unknown
- deleting segment 5 with 9 points - only 0.00% unknown
- deleting segment 6 with 282 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 7 with 2 points - only 0.00% unknown
- deleting segment 8 with 15 points - only 0.00% unknown
- deleting segment 9 with 9 points - only 0.00% unknown
- deleting segment 10 with 42 points - only 0.00% unknown
- deleting segment 11 with 6 points - only 0.00% unknown
- deleting segment 12 with 18 points - only 0.00% unknown
- deleting segment 13 with 7 points - only 0.00% unknown
- deleting segment 14 with 7 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 15 with 3 points - only 0.00% unknown
- deleting segment 16 with 11 points - only 0.00% unknown
- deleting segment 17 with 26 points - only 0.00% unknown
- mean border=72.9, 15 (15) missing vertices, mean dist 0.3 [0.6 (%13.4)->0.5 (%86.6))]
- %69 local maxima, %27 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.92 +- 0.26 (0.13-->3.52) (max @ vno 50067 --> 48794)
- face area 0.34 +- 0.16 (0.00-->3.00)
- mean absolute distance = 0.27 +- 0.46
- 1973 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2819608.8, rms=9.296
- 001: dt: 0.5000, sse=1432420.8, rms=5.614 (39.614%)
- 002: dt: 0.5000, sse=1184028.5, rms=4.682 (16.602%)
- rms = 4.69, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.2500, sse=913371.3, rms=3.322 (29.033%)
- 004: dt: 0.2500, sse=825584.3, rms=2.736 (17.641%)
- 005: dt: 0.2500, sse=780505.9, rms=2.385 (12.826%)
- 006: dt: 0.2500, sse=772166.1, rms=2.310 (3.143%)
- 007: dt: 0.2500, sse=763036.3, rms=2.224 (3.746%)
- rms = 2.20, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=760501.4, rms=2.200 (1.087%)
- 009: dt: 0.1250, sse=730454.9, rms=1.896 (13.826%)
- 010: dt: 0.1250, sse=725949.7, rms=1.845 (2.644%)
- rms = 1.84, time step reduction 3 of 3 to 0.062...
- 011: dt: 0.1250, sse=725633.3, rms=1.839 (0.348%)
- positioning took 1.2 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- deleting segment 0 with 4 points - only 0.00% unknown
- deleting segment 1 with 48 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 3 with 6 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 4 with 3 points - only 0.00% unknown
- deleting segment 5 with 177 points - only 0.00% unknown
- deleting segment 6 with 9 points - only 0.00% unknown
- deleting segment 7 with 6 points - only 0.00% unknown
- deleting segment 8 with 14 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 9 with 1 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 10 with 3 points - only 0.00% unknown
- deleting segment 11 with 8 points - only 0.00% unknown
- deleting segment 12 with 30 points - only 0.00% unknown
- mean border=77.0, 18 (4) missing vertices, mean dist -0.2 [0.3 (%76.0)->0.2 (%24.0))]
- %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 +- 0.25 (0.13-->3.53) (max @ vno 50067 --> 48794)
- face area 0.35 +- 0.17 (0.00-->3.21)
- mean absolute distance = 0.21 +- 0.34
- 2166 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1397261.5, rms=5.357
- 012: dt: 0.5000, sse=1091238.2, rms=4.072 (23.990%)
- rms = 4.58, time step reduction 1 of 3 to 0.250...
- 013: dt: 0.2500, sse=855431.0, rms=2.685 (34.062%)
- 014: dt: 0.2500, sse=790506.1, rms=2.161 (19.524%)
- 015: dt: 0.2500, sse=762733.4, rms=1.891 (12.491%)
- rms = 1.90, time step reduction 2 of 3 to 0.125...
- 016: dt: 0.1250, sse=747912.5, rms=1.724 (8.819%)
- 017: dt: 0.1250, sse=727748.5, rms=1.467 (14.926%)
- rms = 1.43, time step reduction 3 of 3 to 0.062...
- 018: dt: 0.1250, sse=725567.7, rms=1.434 (2.245%)
- positioning took 0.9 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 5 points - only 0.00% unknown
- deleting segment 1 with 41 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 3 with 7 points - only 0.00% unknown
- deleting segment 4 with 6 points - only 0.00% unknown
- deleting segment 5 with 184 points - only 0.00% unknown
- deleting segment 6 with 9 points - only 0.00% unknown
- deleting segment 7 with 6 points - only 0.00% unknown
- deleting segment 8 with 17 points - only 0.00% unknown
- deleting segment 9 with 13 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 10 with 4 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 11 with 3 points - only 0.00% unknown
- deleting segment 12 with 8 points - only 0.00% unknown
- deleting segment 13 with 30 points - only 0.00% unknown
- mean border=79.5, 19 (4) missing vertices, mean dist -0.1 [0.2 (%68.8)->0.2 (%31.2))]
- %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 0.90 +- 0.25 (0.07-->3.58) (max @ vno 85450 --> 84474)
- face area 0.34 +- 0.17 (0.00-->3.14)
- mean absolute distance = 0.19 +- 0.29
- 2148 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=948616.6, rms=3.414
- rms = 4.20, time step reduction 1 of 3 to 0.250...
- 019: dt: 0.2500, sse=783442.0, rms=2.254 (33.992%)
- 020: dt: 0.2500, sse=723225.4, rms=1.620 (28.126%)
- rms = 1.58, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=718233.3, rms=1.576 (2.684%)
- 022: dt: 0.1250, sse=699047.2, rms=1.312 (16.792%)
- rms = 1.28, time step reduction 3 of 3 to 0.062...
- 023: dt: 0.1250, sse=697130.3, rms=1.285 (2.039%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 5 points - only 0.00% unknown
- deleting segment 1 with 40 points - only 0.00% unknown
- deleting segment 2 with 9 points - only 0.00% unknown
- deleting segment 3 with 10 points - only 0.00% unknown
- deleting segment 4 with 196 points - only 0.00% unknown
- deleting segment 5 with 7 points - only 0.00% unknown
- deleting segment 6 with 9 points - only 0.00% unknown
- deleting segment 7 with 28 points - only 0.00% unknown
- deleting segment 8 with 6 points - only 0.00% unknown
- deleting segment 9 with 33 points - only 0.00% unknown
- deleting segment 10 with 17 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 11 with 4 points - only 0.00% unknown
- deleting segment 12 with 9 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 13 with 3 points - only 0.00% unknown
- deleting segment 14 with 8 points - only 0.00% unknown
- deleting segment 15 with 30 points - only 0.00% unknown
- mean border=80.3, 31 (2) missing vertices, mean dist -0.0 [0.2 (%55.2)->0.2 (%44.8))]
- %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-6.0.0/0051264/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=723753.9, rms=1.730
- rms = 2.85, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=677465.9, rms=1.077 (37.738%)
- 025: dt: 0.2500, sse=670982.2, rms=0.952 (11.625%)
- rms = 0.97, time step reduction 2 of 3 to 0.125...
- rms = 0.93, time step reduction 3 of 3 to 0.062...
- 026: dt: 0.1250, sse=669320.0, rms=0.933 (1.918%)
- positioning took 0.5 minutes
- generating cortex label...
- 11 non-cortical segments detected
- only using segment with 6720 vertices
- erasing segment 1 (vno[0] = 74925)
- erasing segment 2 (vno[0] = 85437)
- erasing segment 3 (vno[0] = 86204)
- erasing segment 4 (vno[0] = 86472)
- erasing segment 5 (vno[0] = 87561)
- erasing segment 6 (vno[0] = 90493)
- erasing segment 7 (vno[0] = 91462)
- erasing segment 8 (vno[0] = 92502)
- erasing segment 9 (vno[0] = 93357)
- erasing segment 10 (vno[0] = 93398)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.area
- vertex spacing 0.90 +- 0.26 (0.04-->3.99) (max @ vno 48599 --> 48623)
- face area 0.34 +- 0.16 (0.00-->3.13)
- 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...
- deleting segment 2 with 10 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=45.1, 17 (17) missing vertices, mean dist 1.7 [1.8 (%0.0)->2.7 (%100.0))]
- %11 local maxima, %49 large gradients and %36 min vals, 408 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=33162270.0, rms=35.875
- 001: dt: 0.0500, sse=28512900.0, rms=33.212 (7.424%)
- 002: dt: 0.0500, sse=25185114.0, rms=31.166 (6.160%)
- 003: dt: 0.0500, sse=22664106.0, rms=29.521 (5.276%)
- 004: dt: 0.0500, sse=20656386.0, rms=28.143 (4.669%)
- 005: dt: 0.0500, sse=18999176.0, rms=26.952 (4.231%)
- 006: dt: 0.0500, sse=17591842.0, rms=25.898 (3.912%)
- 007: dt: 0.0500, sse=16374668.0, rms=24.950 (3.660%)
- 008: dt: 0.0500, sse=15305259.0, rms=24.087 (3.461%)
- 009: dt: 0.0500, sse=14353830.0, rms=23.292 (3.301%)
- 010: dt: 0.0500, sse=13500107.0, rms=22.554 (3.166%)
- positioning took 0.9 minutes
- mean border=45.0, 19 (7) missing vertices, mean dist 1.4 [0.5 (%0.0)->2.2 (%100.0))]
- %12 local maxima, %49 large gradients and %35 min vals, 378 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=14082267.0, rms=23.067
- 011: dt: 0.0500, sse=13308400.0, rms=22.393 (2.923%)
- 012: dt: 0.0500, sse=12605528.0, rms=21.763 (2.815%)
- 013: dt: 0.0500, sse=11963928.0, rms=21.171 (2.720%)
- 014: dt: 0.0500, sse=11377434.0, rms=20.615 (2.627%)
- 015: dt: 0.0500, sse=10839953.0, rms=20.091 (2.538%)
- 016: dt: 0.0500, sse=10346633.0, rms=19.599 (2.452%)
- 017: dt: 0.0500, sse=9892637.0, rms=19.134 (2.371%)
- 018: dt: 0.0500, sse=9474990.0, rms=18.697 (2.287%)
- 019: dt: 0.0500, sse=9089624.0, rms=18.283 (2.210%)
- 020: dt: 0.0500, sse=8733681.0, rms=17.893 (2.135%)
- positioning took 0.9 minutes
- mean border=44.9, 36 (4) missing vertices, mean dist 1.2 [0.1 (%1.0)->1.9 (%99.0))]
- %12 local maxima, %49 large gradients and %35 min vals, 366 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=8805238.0, rms=17.981
- 021: dt: 0.0500, sse=8469886.0, rms=17.607 (2.079%)
- 022: dt: 0.0500, sse=8159361.0, rms=17.254 (2.007%)
- 023: dt: 0.0500, sse=7869573.0, rms=16.917 (1.951%)
- 024: dt: 0.0500, sse=7599954.5, rms=16.598 (1.888%)
- 025: dt: 0.0500, sse=7348820.0, rms=16.294 (1.827%)
- 026: dt: 0.0500, sse=7114157.0, rms=16.006 (1.771%)
- 027: dt: 0.0500, sse=6892805.5, rms=15.729 (1.732%)
- 028: dt: 0.0500, sse=6682597.5, rms=15.461 (1.704%)
- 029: dt: 0.0500, sse=6481868.0, rms=15.200 (1.684%)
- 030: dt: 0.0500, sse=6290000.5, rms=14.947 (1.666%)
- positioning took 0.9 minutes
- mean border=44.8, 62 (4) missing vertices, mean dist 1.0 [0.1 (%7.4)->1.7 (%92.6))]
- %13 local maxima, %48 large gradients and %35 min vals, 298 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=6359745.0, rms=15.041
- 031: dt: 0.5000, sse=4982633.5, rms=13.096 (12.934%)
- 032: dt: 0.5000, sse=4016276.5, rms=11.528 (11.971%)
- 033: dt: 0.5000, sse=3275700.2, rms=10.166 (11.812%)
- 034: dt: 0.5000, sse=2718407.2, rms=8.999 (11.483%)
- 035: dt: 0.5000, sse=2307506.8, rms=8.030 (10.765%)
- 036: dt: 0.5000, sse=2024195.0, rms=7.285 (9.286%)
- 037: dt: 0.5000, sse=1822022.0, rms=6.702 (7.993%)
- 038: dt: 0.5000, sse=1671870.5, rms=6.234 (6.989%)
- 039: dt: 0.5000, sse=1562494.1, rms=5.870 (5.830%)
- 040: dt: 0.5000, sse=1479743.6, rms=5.579 (4.965%)
- 041: dt: 0.5000, sse=1424379.4, rms=5.376 (3.635%)
- 042: dt: 0.5000, sse=1386229.9, rms=5.230 (2.718%)
- 043: dt: 0.5000, sse=1362779.2, rms=5.139 (1.749%)
- 044: dt: 0.5000, sse=1347433.6, rms=5.076 (1.213%)
- 045: dt: 0.5000, sse=1333769.1, rms=5.022 (1.068%)
- rms = 4.98, time step reduction 1 of 3 to 0.250...
- 046: dt: 0.5000, sse=1324271.4, rms=4.983 (0.777%)
- 047: dt: 0.2500, sse=1229555.9, rms=4.538 (8.942%)
- 048: dt: 0.2500, sse=1200920.6, rms=4.409 (2.838%)
- rms = 4.42, time step reduction 2 of 3 to 0.125...
- rms = 4.38, time step reduction 3 of 3 to 0.062...
- 049: dt: 0.1250, sse=1194617.8, rms=4.377 (0.717%)
- positioning took 2.4 minutes
- mean border=43.5, 1789 (1) missing vertices, mean dist 0.2 [0.2 (%48.4)->0.6 (%51.6))]
- %25 local maxima, %38 large gradients and %31 min vals, 143 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=1486035.5, rms=4.818
- 050: dt: 0.5000, sse=1389434.6, rms=4.405 (8.572%)
- 051: dt: 0.5000, sse=1346945.2, rms=4.247 (3.584%)
- rms = 4.27, time step reduction 1 of 3 to 0.250...
- 052: dt: 0.2500, sse=1241371.4, rms=3.662 (13.774%)
- 053: dt: 0.2500, sse=1206438.6, rms=3.442 (6.007%)
- 054: dt: 0.2500, sse=1196291.8, rms=3.382 (1.728%)
- rms = 3.35, time step reduction 2 of 3 to 0.125...
- 055: dt: 0.2500, sse=1190388.0, rms=3.347 (1.031%)
- 056: dt: 0.1250, sse=1170788.6, rms=3.218 (3.852%)
- rms = 3.19, time step reduction 3 of 3 to 0.062...
- 057: dt: 0.1250, sse=1166414.5, rms=3.192 (0.819%)
- positioning took 1.2 minutes
- mean border=42.7, 1827 (1) missing vertices, mean dist 0.1 [0.2 (%49.0)->0.4 (%51.0))]
- %41 local maxima, %24 large gradients and %30 min vals, 177 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=1238127.8, rms=3.561
- rms = 3.88, time step reduction 1 of 3 to 0.250...
- 058: dt: 0.2500, sse=1202842.2, rms=3.349 (5.942%)
- 059: dt: 0.2500, sse=1190044.5, rms=3.275 (2.209%)
- rms = 3.25, time step reduction 2 of 3 to 0.125...
- 060: dt: 0.2500, sse=1184163.5, rms=3.249 (0.803%)
- 061: dt: 0.1250, sse=1168585.6, rms=3.145 (3.187%)
- rms = 3.12, time step reduction 3 of 3 to 0.062...
- 062: dt: 0.1250, sse=1164541.1, rms=3.123 (0.719%)
- positioning took 0.9 minutes
- mean border=42.0, 3357 (0) missing vertices, mean dist 0.1 [0.2 (%49.1)->0.3 (%50.9))]
- %44 local maxima, %19 large gradients and %30 min vals, 155 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-6.0.0/0051264/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1192012.0, rms=3.273
- rms = 3.63, time step reduction 1 of 3 to 0.250...
- 063: dt: 0.2500, sse=1175112.2, rms=3.164 (3.347%)
- rms = 3.12, time step reduction 2 of 3 to 0.125...
- 064: dt: 0.2500, sse=1165511.4, rms=3.120 (1.391%)
- 065: dt: 0.1250, sse=1156143.9, rms=3.055 (2.078%)
- rms = 3.03, time step reduction 3 of 3 to 0.062...
- 066: dt: 0.1250, sse=1151531.5, rms=3.030 (0.806%)
- positioning took 0.7 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.area.pial
- vertex spacing 1.03 +- 0.45 (0.08-->6.85) (max @ vno 84434 --> 84420)
- face area 0.42 +- 0.33 (0.00-->5.13)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 131800 vertices processed
- 25000 of 131800 vertices processed
- 50000 of 131800 vertices processed
- 75000 of 131800 vertices processed
- 100000 of 131800 vertices processed
- 125000 of 131800 vertices processed
- 0 of 131800 vertices processed
- 25000 of 131800 vertices processed
- 50000 of 131800 vertices processed
- 75000 of 131800 vertices processed
- 100000 of 131800 vertices processed
- 125000 of 131800 vertices processed
- thickness calculation complete, 212:624 truncations.
- 27863 vertices at 0 distance
- 93506 vertices at 1 distance
- 84286 vertices at 2 distance
- 33471 vertices at 3 distance
- 9635 vertices at 4 distance
- 2589 vertices at 5 distance
- 779 vertices at 6 distance
- 273 vertices at 7 distance
- 92 vertices at 8 distance
- 40 vertices at 9 distance
- 37 vertices at 10 distance
- 39 vertices at 11 distance
- 21 vertices at 12 distance
- 22 vertices at 13 distance
- 10 vertices at 14 distance
- 15 vertices at 15 distance
- 20 vertices at 16 distance
- 6 vertices at 17 distance
- 6 vertices at 18 distance
- 3 vertices at 19 distance
- 5 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.thickness
- positioning took 14.9 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0051264 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-6.0.0/0051264/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- 28781 bright wm thresholded.
- 136 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.orig...
- computing class statistics...
- border white: 239764 voxels (1.43%)
- border gray 274137 voxels (1.63%)
- WM (99.0): 98.1 +- 9.9 [70.0 --> 110.0]
- GM (63.0) : 63.0 +- 11.2 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 48.8 (was 70)
- setting MAX_BORDER_WHITE to 113.9 (was 105)
- setting MIN_BORDER_WHITE to 60.0 (was 85)
- setting MAX_CSF to 37.7 (was 40)
- setting MAX_GRAY to 94.1 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 48.8 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 26.5 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=104+-7.0, GM=60+-8.7
- mean inside = 92.4, mean outside = 67.8
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.89 +- 0.25 (0.04-->3.59) (max @ vno 85175 --> 85196)
- face area 0.33 +- 0.15 (0.00-->2.23)
- mean absolute distance = 0.48 +- 0.71
- 2153 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- deleting segment 0 with 1 points - only 0.00% unknown
- deleting segment 2 with 6 points - only 0.00% unknown
- deleting segment 3 with 314 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 5 with 4 points - only 0.00% unknown
- deleting segment 6 with 18 points - only 0.00% unknown
- mean border=74.7, 72 (72) missing vertices, mean dist 0.3 [0.7 (%14.1)->0.5 (%85.9))]
- %68 local maxima, %27 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.91 +- 0.25 (0.12-->3.90) (max @ vno 82688 --> 82689)
- face area 0.33 +- 0.16 (0.00-->2.34)
- mean absolute distance = 0.28 +- 0.49
- 1910 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2574031.5, rms=8.754
- 001: dt: 0.5000, sse=1362020.2, rms=5.365 (38.715%)
- 002: dt: 0.5000, sse=1130864.0, rms=4.460 (16.868%)
- rms = 4.53, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.2500, sse=881132.8, rms=3.152 (29.336%)
- 004: dt: 0.2500, sse=800677.1, rms=2.590 (17.831%)
- 005: dt: 0.2500, sse=762316.8, rms=2.274 (12.176%)
- 006: dt: 0.2500, sse=754027.0, rms=2.198 (3.372%)
- 007: dt: 0.2500, sse=747059.9, rms=2.128 (3.154%)
- rms = 2.10, time step reduction 2 of 3 to 0.125...
- 008: dt: 0.2500, sse=744851.1, rms=2.101 (1.261%)
- 009: dt: 0.1250, sse=718612.3, rms=1.828 (13.026%)
- rms = 1.78, time step reduction 3 of 3 to 0.062...
- 010: dt: 0.1250, sse=714870.1, rms=1.783 (2.420%)
- positioning took 1.1 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 1 with 161 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 2 with 4 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 4 with 36 points - only 0.00% unknown
- deleting segment 5 with 5 points - only 0.00% unknown
- mean border=78.5, 42 (11) missing vertices, mean dist -0.2 [0.3 (%74.7)->0.2 (%25.3))]
- %79 local maxima, %17 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.90 +- 0.25 (0.12-->3.79) (max @ vno 82688 --> 82689)
- face area 0.35 +- 0.16 (0.00-->2.74)
- mean absolute distance = 0.21 +- 0.36
- 2693 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1317956.8, rms=5.071
- 011: dt: 0.5000, sse=1057214.0, rms=3.915 (22.793%)
- rms = 4.44, time step reduction 1 of 3 to 0.250...
- 012: dt: 0.2500, sse=842381.5, rms=2.617 (33.155%)
- 013: dt: 0.2500, sse=777581.8, rms=2.092 (20.081%)
- 014: dt: 0.2500, sse=752162.4, rms=1.834 (12.334%)
- rms = 1.83, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=750829.4, rms=1.825 (0.467%)
- 016: dt: 0.1250, sse=722723.8, rms=1.478 (19.038%)
- rms = 1.43, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=719302.4, rms=1.430 (3.258%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- deleting segment 0 with 4 points - only 0.00% unknown
- deleting segment 1 with 201 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 45 points - only 0.00% unknown
- deleting segment 4 with 17 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 5 with 3 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 6 with 2 points - only 0.00% unknown
- mean border=80.9, 47 (6) missing vertices, mean dist -0.1 [0.2 (%68.1)->0.2 (%31.9))]
- %85 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 0.90 +- 0.25 (0.13-->3.79) (max @ vno 82688 --> 82689)
- face area 0.34 +- 0.16 (0.00-->2.74)
- mean absolute distance = 0.19 +- 0.30
- 2634 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=909821.2, rms=3.212
- rms = 3.95, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=765045.3, rms=2.134 (33.560%)
- 019: dt: 0.2500, sse=712213.8, rms=1.547 (27.510%)
- rms = 1.51, time step reduction 2 of 3 to 0.125...
- 020: dt: 0.2500, sse=707873.2, rms=1.514 (2.155%)
- 021: dt: 0.1250, sse=692824.2, rms=1.297 (14.314%)
- rms = 1.28, time step reduction 3 of 3 to 0.062...
- 022: dt: 0.1250, sse=691939.2, rms=1.282 (1.163%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- deleting segment 0 with 4 points - only 0.00% unknown
- deleting segment 1 with 221 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 2 with 4 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 4 with 47 points - only 0.00% unknown
- deleting segment 5 with 20 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 6 with 2 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 7 with 2 points - only 0.00% unknown
- mean border=81.6, 67 (6) missing vertices, mean dist -0.0 [0.2 (%54.7)->0.2 (%45.3))]
- %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-6.0.0/0051264/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=714537.7, rms=1.681
- rms = 2.65, time step reduction 1 of 3 to 0.250...
- 023: dt: 0.2500, sse=672366.3, rms=1.079 (35.810%)
- 024: dt: 0.2500, sse=667663.4, rms=0.963 (10.768%)
- rms = 0.98, time step reduction 2 of 3 to 0.125...
- rms = 0.95, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=664955.9, rms=0.946 (1.726%)
- positioning took 0.5 minutes
- generating cortex label...
- 10 non-cortical segments detected
- only using segment with 6560 vertices
- erasing segment 1 (vno[0] = 74152)
- erasing segment 2 (vno[0] = 76565)
- erasing segment 3 (vno[0] = 82603)
- erasing segment 4 (vno[0] = 85170)
- erasing segment 5 (vno[0] = 86520)
- erasing segment 6 (vno[0] = 87608)
- erasing segment 7 (vno[0] = 90686)
- erasing segment 8 (vno[0] = 90744)
- erasing segment 9 (vno[0] = 96318)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.area
- vertex spacing 0.89 +- 0.25 (0.04-->3.79) (max @ vno 82688 --> 82689)
- face area 0.34 +- 0.16 (0.00-->2.77)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 2 with 9 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=47.3, 86 (86) missing vertices, mean dist 1.7 [2.0 (%0.0)->2.7 (%100.0))]
- %12 local maxima, %47 large gradients and %37 min vals, 338 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=31497970.0, rms=34.918
- 001: dt: 0.0500, sse=27124226.0, rms=32.349 (7.357%)
- 002: dt: 0.0500, sse=23994018.0, rms=30.378 (6.095%)
- 003: dt: 0.0500, sse=21619576.0, rms=28.792 (5.220%)
- 004: dt: 0.0500, sse=19730334.0, rms=27.465 (4.609%)
- 005: dt: 0.0500, sse=18173152.0, rms=26.321 (4.166%)
- 006: dt: 0.0500, sse=16852658.0, rms=25.310 (3.840%)
- 007: dt: 0.0500, sse=15709410.0, rms=24.401 (3.591%)
- 008: dt: 0.0500, sse=14705109.0, rms=23.573 (3.391%)
- 009: dt: 0.0500, sse=13812646.0, rms=22.813 (3.226%)
- 010: dt: 0.0500, sse=13012088.0, rms=22.108 (3.088%)
- positioning took 0.9 minutes
- mean border=47.2, 105 (61) missing vertices, mean dist 1.4 [1.0 (%0.0)->2.2 (%100.0))]
- %13 local maxima, %47 large gradients and %36 min vals, 353 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=13669112.0, rms=22.694
- 011: dt: 0.0500, sse=12943094.0, rms=22.053 (2.826%)
- 012: dt: 0.0500, sse=12283431.0, rms=21.453 (2.718%)
- 013: dt: 0.0500, sse=11681650.0, rms=20.892 (2.619%)
- 014: dt: 0.0500, sse=11131471.0, rms=20.364 (2.524%)
- 015: dt: 0.0500, sse=10627034.0, rms=19.868 (2.435%)
- 016: dt: 0.0500, sse=10164316.0, rms=19.402 (2.346%)
- 017: dt: 0.0500, sse=9738289.0, rms=18.963 (2.264%)
- 018: dt: 0.0500, sse=9345693.0, rms=18.549 (2.184%)
- 019: dt: 0.0500, sse=8983070.0, rms=18.158 (2.108%)
- 020: dt: 0.0500, sse=8647543.0, rms=17.788 (2.035%)
- positioning took 0.9 minutes
- mean border=47.1, 120 (53) missing vertices, mean dist 1.2 [0.1 (%1.2)->1.9 (%98.8))]
- %13 local maxima, %47 large gradients and %36 min vals, 332 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=8736189.0, rms=17.895
- 021: dt: 0.0500, sse=8417524.0, rms=17.539 (1.990%)
- 022: dt: 0.0500, sse=8122003.5, rms=17.202 (1.921%)
- 023: dt: 0.0500, sse=7845379.5, rms=16.880 (1.869%)
- 024: dt: 0.0500, sse=7587576.0, rms=16.575 (1.809%)
- 025: dt: 0.0500, sse=7346720.0, rms=16.284 (1.753%)
- 026: dt: 0.0500, sse=7120735.0, rms=16.007 (1.704%)
- 027: dt: 0.0500, sse=6906945.5, rms=15.740 (1.669%)
- 028: dt: 0.0500, sse=6703004.5, rms=15.481 (1.647%)
- 029: dt: 0.0500, sse=6508093.5, rms=15.229 (1.627%)
- 030: dt: 0.0500, sse=6321325.5, rms=14.983 (1.612%)
- positioning took 0.9 minutes
- mean border=47.0, 144 (44) missing vertices, mean dist 1.0 [0.1 (%8.7)->1.7 (%91.3))]
- %14 local maxima, %47 large gradients and %35 min vals, 296 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=6399011.5, rms=15.086
- 031: dt: 0.5000, sse=5039475.5, rms=13.178 (12.647%)
- 032: dt: 0.5000, sse=4085773.0, rms=11.646 (11.626%)
- 033: dt: 0.5000, sse=3360452.8, rms=10.331 (11.286%)
- 034: dt: 0.5000, sse=2818237.8, rms=9.219 (10.763%)
- 035: dt: 0.5000, sse=2413980.2, rms=8.295 (10.028%)
- 036: dt: 0.5000, sse=2118647.2, rms=7.544 (9.051%)
- 037: dt: 0.5000, sse=1900336.4, rms=6.941 (7.998%)
- 038: dt: 0.5000, sse=1744590.5, rms=6.471 (6.775%)
- 039: dt: 0.5000, sse=1627666.2, rms=6.098 (5.751%)
- 040: dt: 0.5000, sse=1545608.8, rms=5.820 (4.572%)
- 041: dt: 0.5000, sse=1487120.2, rms=5.615 (3.516%)
- 042: dt: 0.5000, sse=1449608.4, rms=5.475 (2.494%)
- 043: dt: 0.5000, sse=1419670.8, rms=5.366 (1.986%)
- 044: dt: 0.5000, sse=1401926.2, rms=5.295 (1.330%)
- 045: dt: 0.5000, sse=1385603.8, rms=5.234 (1.155%)
- rms = 5.20, time step reduction 1 of 3 to 0.250...
- 046: dt: 0.5000, sse=1378032.8, rms=5.201 (0.615%)
- 047: dt: 0.2500, sse=1284927.9, rms=4.786 (7.992%)
- 048: dt: 0.2500, sse=1257292.2, rms=4.667 (2.476%)
- rms = 4.67, time step reduction 2 of 3 to 0.125...
- rms = 4.64, time step reduction 3 of 3 to 0.062...
- 049: dt: 0.1250, sse=1250683.4, rms=4.636 (0.666%)
- positioning took 2.5 minutes
- mean border=45.6, 2129 (21) missing vertices, mean dist 0.2 [0.2 (%46.8)->0.6 (%53.2))]
- %26 local maxima, %36 large gradients and %32 min vals, 143 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=1560630.9, rms=5.109
- 050: dt: 0.5000, sse=1448318.1, rms=4.656 (8.858%)
- 051: dt: 0.5000, sse=1399693.8, rms=4.477 (3.854%)
- rms = 4.45, time step reduction 1 of 3 to 0.250...
- 052: dt: 0.5000, sse=1393355.2, rms=4.452 (0.540%)
- 053: dt: 0.2500, sse=1268559.1, rms=3.783 (15.043%)
- 054: dt: 0.2500, sse=1230629.9, rms=3.577 (5.429%)
- rms = 3.55, time step reduction 2 of 3 to 0.125...
- 055: dt: 0.2500, sse=1226026.6, rms=3.549 (0.788%)
- 056: dt: 0.1250, sse=1202037.8, rms=3.401 (4.169%)
- rms = 3.37, time step reduction 3 of 3 to 0.062...
- 057: dt: 0.1250, sse=1196916.9, rms=3.372 (0.866%)
- positioning took 1.2 minutes
- mean border=44.7, 2057 (15) missing vertices, mean dist 0.1 [0.2 (%46.2)->0.4 (%53.8))]
- %41 local maxima, %22 large gradients and %32 min vals, 146 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=1283248.4, rms=3.784
- rms = 4.04, time step reduction 1 of 3 to 0.250...
- 058: dt: 0.2500, sse=1244381.8, rms=3.566 (5.779%)
- 059: dt: 0.2500, sse=1226236.0, rms=3.464 (2.847%)
- rms = 3.43, time step reduction 2 of 3 to 0.125...
- 060: dt: 0.2500, sse=1219510.1, rms=3.435 (0.840%)
- 061: dt: 0.1250, sse=1203177.5, rms=3.332 (2.991%)
- rms = 3.31, time step reduction 3 of 3 to 0.062...
- 062: dt: 0.1250, sse=1199071.8, rms=3.310 (0.658%)
- positioning took 0.9 minutes
- mean border=44.0, 3840 (14) missing vertices, mean dist 0.1 [0.2 (%46.9)->0.3 (%53.1))]
- %44 local maxima, %18 large gradients and %31 min vals, 132 gradients ignored
- tol=1.0e-04, sigma=0.2, host=tars-, nav=2, nbrs=2, l_surf_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- writing pial surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1227256.2, rms=3.458
- rms = 3.81, time step reduction 1 of 3 to 0.250...
- 063: dt: 0.2500, sse=1208066.4, rms=3.341 (3.381%)
- 064: dt: 0.2500, sse=1196530.1, rms=3.287 (1.623%)
- rms = 3.27, time step reduction 2 of 3 to 0.125...
- 065: dt: 0.2500, sse=1192614.9, rms=3.274 (0.389%)
- 066: dt: 0.1250, sse=1176999.6, rms=3.173 (3.084%)
- rms = 3.15, time step reduction 3 of 3 to 0.062...
- 067: dt: 0.1250, sse=1172497.6, rms=3.150 (0.712%)
- positioning took 0.9 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.area.pial
- vertex spacing 1.03 +- 0.45 (0.05-->7.65) (max @ vno 80481 --> 80480)
- face area 0.42 +- 0.33 (0.00-->4.30)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 131897 vertices processed
- 25000 of 131897 vertices processed
- 50000 of 131897 vertices processed
- 75000 of 131897 vertices processed
- 100000 of 131897 vertices processed
- 125000 of 131897 vertices processed
- 0 of 131897 vertices processed
- 25000 of 131897 vertices processed
- 50000 of 131897 vertices processed
- 75000 of 131897 vertices processed
- 100000 of 131897 vertices processed
- 125000 of 131897 vertices processed
- thickness calculation complete, 396:984 truncations.
- 27176 vertices at 0 distance
- 90398 vertices at 1 distance
- 83921 vertices at 2 distance
- 35467 vertices at 3 distance
- 10985 vertices at 4 distance
- 3330 vertices at 5 distance
- 1129 vertices at 6 distance
- 367 vertices at 7 distance
- 145 vertices at 8 distance
- 99 vertices at 9 distance
- 62 vertices at 10 distance
- 48 vertices at 11 distance
- 38 vertices at 12 distance
- 22 vertices at 13 distance
- 19 vertices at 14 distance
- 15 vertices at 15 distance
- 21 vertices at 16 distance
- 17 vertices at 17 distance
- 17 vertices at 18 distance
- 11 vertices at 19 distance
- 11 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.thickness
- positioning took 15.0 minutes
- PIDs (31252 31255) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Sun Oct 8 03:20:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0051264 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/label/lh.cortex.label
- Total face volume 246405
- Total vertex volume 243484 (mask=0)
- #@# 0051264 lh 243484
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Sun Oct 8 03:20:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0051264 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/label/rh.cortex.label
- Total face volume 249666
- Total vertex volume 245800 (mask=0)
- #@# 0051264 rh 245800
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Sun Oct 8 03:20:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0051264
- 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 = 394
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/ribbon.mgz
- mris_volmask took 15.11 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Sun Oct 8 03:35:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0051264 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 0051264 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Sun Oct 8 03:35:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0051264 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 0051264 rh pial
- Waiting for PID 596 of (596 599 602 605) to complete...
- Waiting for PID 599 of (596 599 602 605) to complete...
- Waiting for PID 602 of (596 599 602 605) to complete...
- Waiting for PID 605 of (596 599 602 605) 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 0051264 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 246405
- Total vertex volume 243484 (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) = 1411699 mm^3 (det: 1.379973 )
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 1732 1170 2906 2.414 0.465 0.118 0.023 21 1.6 bankssts
- 859 555 1638 2.927 0.538 0.126 0.019 13 0.7 caudalanteriorcingulate
- 3015 2101 6206 2.585 0.598 0.117 0.023 31 2.6 caudalmiddlefrontal
- 2082 1378 2854 1.986 0.484 0.155 0.040 34 3.4 cuneus
- 589 393 1756 3.260 0.790 0.107 0.028 4 0.6 entorhinal
- 4376 2962 9753 2.848 0.643 0.127 0.026 58 4.5 fusiform
- 7477 5039 14846 2.592 0.646 0.131 0.028 100 8.5 inferiorparietal
- 4864 3250 9967 2.572 0.712 0.121 0.027 73 5.3 inferiortemporal
- 1489 959 2486 2.352 0.985 0.116 0.029 21 1.4 isthmuscingulate
- 8072 5293 13314 2.286 0.523 0.146 0.033 122 10.8 lateraloccipital
- 3814 2635 7325 2.543 0.626 0.133 0.034 58 5.1 lateralorbitofrontal
- 4169 2811 6248 2.142 0.651 0.145 0.034 63 5.6 lingual
- 2538 1727 4249 2.205 0.631 0.121 0.028 43 2.8 medialorbitofrontal
- 4323 2996 10242 2.711 0.667 0.128 0.026 65 4.6 middletemporal
- 914 578 1778 2.634 0.650 0.084 0.016 5 0.4 parahippocampal
- 2296 1512 4021 2.481 0.532 0.105 0.021 16 2.0 paracentral
- 2013 1385 4271 2.693 0.502 0.115 0.022 23 1.7 parsopercularis
- 1139 790 2720 2.577 0.685 0.152 0.040 23 1.9 parsorbitalis
- 2087 1445 4416 2.628 0.477 0.133 0.030 30 2.6 parstriangularis
- 1622 1125 1867 1.958 0.500 0.123 0.028 14 2.0 pericalcarine
- 5717 3724 8942 2.119 0.546 0.106 0.021 49 4.7 postcentral
- 1850 1239 3529 2.661 0.569 0.130 0.026 26 2.0 posteriorcingulate
- 6920 4623 13563 2.644 0.511 0.107 0.021 56 5.9 precentral
- 5739 3880 10286 2.439 0.496 0.127 0.027 70 6.3 precuneus
- 1290 916 2950 2.895 0.561 0.131 0.028 25 1.3 rostralanteriorcingulate
- 8011 5578 15310 2.325 0.524 0.141 0.037 165 12.1 rostralmiddlefrontal
- 10819 7459 24779 2.838 0.589 0.128 0.029 136 12.8 superiorfrontal
- 8184 5394 14152 2.344 0.523 0.129 0.026 94 8.1 superiorparietal
- 5412 3834 12966 2.846 0.656 0.123 0.025 62 5.6 superiortemporal
- 5768 3974 12427 2.670 0.612 0.129 0.028 79 6.4 supramarginal
- 381 253 846 2.418 0.583 0.175 0.051 15 0.8 frontalpole
- 669 459 2208 3.250 0.921 0.129 0.038 10 1.0 temporalpole
- 672 417 1209 2.640 0.246 0.114 0.021 8 0.6 transversetemporal
- 3905 2534 7425 2.892 0.960 0.118 0.036 47 5.3 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 0051264 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 246405
- Total vertex volume 243484 (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) = 1411699 mm^3 (det: 1.379973 )
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 1732 1208 2906 2.414 0.465 0.138 0.033 30 2.6 bankssts
- 859 635 1638 2.927 0.538 0.152 0.042 22 1.5 caudalanteriorcingulate
- 3015 2547 6206 2.585 0.598 0.148 0.034 45 4.4 caudalmiddlefrontal
- 2082 1602 2854 1.986 0.484 0.142 0.037 27 3.4 cuneus
- 589 718 1756 3.260 0.790 0.202 0.046 9 1.3 entorhinal
- 4376 3910 9753 2.848 0.643 0.160 0.041 77 8.1 fusiform
- 7477 6293 14846 2.592 0.646 0.156 0.038 133 12.9 inferiorparietal
- 4864 4416 9967 2.572 0.712 0.171 0.044 75 10.3 inferiortemporal
- 1489 1192 2486 2.352 0.985 0.159 0.040 32 2.7 isthmuscingulate
- 8072 6408 13314 2.286 0.523 0.145 0.037 125 13.5 lateraloccipital
- 3814 3070 7325 2.543 0.626 0.159 0.041 67 6.8 lateralorbitofrontal
- 4169 3280 6248 2.142 0.651 0.148 0.038 62 7.4 lingual
- 2538 2199 4249 2.205 0.631 0.169 0.041 40 4.5 medialorbitofrontal
- 4323 4320 10242 2.711 0.667 0.173 0.043 69 8.2 middletemporal
- 914 813 1778 2.634 0.650 0.156 0.035 10 1.7 parahippocampal
- 2296 1771 4021 2.481 0.532 0.130 0.033 35 3.3 paracentral
- 2013 1746 4271 2.693 0.502 0.155 0.035 29 3.1 parsopercularis
- 1139 1290 2720 2.577 0.685 0.206 0.047 17 2.4 parsorbitalis
- 2087 1888 4416 2.628 0.477 0.169 0.038 30 3.7 parstriangularis
- 1622 840 1867 1.958 0.500 0.107 0.029 25 2.1 pericalcarine
- 5717 4690 8942 2.119 0.546 0.136 0.029 58 7.4 postcentral
- 1850 1458 3529 2.661 0.569 0.166 0.042 65 3.8 posteriorcingulate
- 6920 5391 13563 2.644 0.511 0.122 0.028 79 8.2 precentral
- 5739 4455 10286 2.439 0.496 0.142 0.036 88 9.0 precuneus
- 1290 1248 2950 2.895 0.561 0.181 0.045 23 2.8 rostralanteriorcingulate
- 8011 7409 15310 2.325 0.524 0.183 0.042 147 15.9 rostralmiddlefrontal
- 10819 9642 24779 2.838 0.589 0.156 0.037 166 17.4 superiorfrontal
- 8184 6426 14152 2.344 0.523 0.140 0.034 112 12.4 superiorparietal
- 5412 4890 12966 2.846 0.656 0.158 0.038 77 9.5 superiortemporal
- 5768 5088 12427 2.670 0.612 0.151 0.034 77 8.0 supramarginal
- 381 465 846 2.418 0.583 0.251 0.048 6 1.1 frontalpole
- 669 878 2208 3.250 0.921 0.202 0.046 7 1.4 temporalpole
- 672 555 1209 2.640 0.246 0.127 0.032 4 0.9 transversetemporal
- 3905 2450 7425 2.892 0.960 0.139 0.046 97 7.0 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label -f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c ../label/aparc.annot.ctab 0051264 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 249666
- Total vertex volume 245800 (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) = 1411699 mm^3 (det: 1.379973 )
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 1396 968 2435 2.697 0.449 0.120 0.020 12 1.2 bankssts
- 1049 726 2209 2.585 0.687 0.145 0.031 21 1.3 caudalanteriorcingulate
- 2409 1632 4877 2.582 0.560 0.110 0.022 20 2.2 caudalmiddlefrontal
- 2306 1505 3082 1.971 0.450 0.153 0.038 36 3.6 cuneus
- 524 350 1844 3.327 0.969 0.126 0.043 6 0.9 entorhinal
- 5031 3329 11480 2.970 0.662 0.129 0.035 74 7.1 fusiform
- 8436 5624 17558 2.690 0.593 0.134 0.028 119 9.6 inferiorparietal
- 4281 2916 10218 2.901 0.704 0.130 0.031 65 5.5 inferiortemporal
- 1216 808 2359 2.566 0.895 0.137 0.032 22 1.2 isthmuscingulate
- 7741 5018 13085 2.343 0.551 0.143 0.035 112 10.3 lateraloccipital
- 3424 2363 6902 2.526 0.755 0.144 0.038 56 5.6 lateralorbitofrontal
- 4274 2785 7131 2.440 0.621 0.142 0.038 64 6.2 lingual
- 2951 2124 6334 2.467 0.695 0.135 0.037 51 4.3 medialorbitofrontal
- 4395 3030 10995 2.947 0.679 0.123 0.025 65 4.3 middletemporal
- 983 655 1823 2.537 0.555 0.095 0.017 7 0.6 parahippocampal
- 2566 1654 4418 2.479 0.551 0.112 0.023 21 2.3 paracentral
- 2104 1436 4404 2.548 0.518 0.117 0.025 30 2.1 parsopercularis
- 1363 913 3455 2.762 0.723 0.146 0.037 29 2.1 parsorbitalis
- 2514 1740 4876 2.420 0.526 0.140 0.034 44 3.3 parstriangularis
- 2044 1391 2102 1.701 0.408 0.125 0.032 21 2.6 pericalcarine
- 6887 4322 10237 2.097 0.539 0.112 0.025 72 6.5 postcentral
- 1683 1148 3443 2.568 0.764 0.128 0.027 26 1.8 posteriorcingulate
- 6458 4264 12585 2.642 0.535 0.110 0.023 51 6.1 precentral
- 5972 4046 10890 2.450 0.501 0.124 0.028 69 6.7 precuneus
- 900 632 2233 2.958 0.598 0.153 0.042 23 1.3 rostralanteriorcingulate
- 8073 5493 14822 2.270 0.599 0.138 0.036 138 12.0 rostralmiddlefrontal
- 10063 6805 21867 2.714 0.609 0.125 0.028 127 11.4 superiorfrontal
- 7562 4985 12983 2.303 0.521 0.132 0.029 96 8.5 superiorparietal
- 5439 3654 12315 2.983 0.661 0.128 0.031 79 6.0 superiortemporal
- 5544 3727 10977 2.603 0.452 0.117 0.024 69 5.0 supramarginal
- 399 266 1025 2.541 0.663 0.170 0.066 12 1.1 frontalpole
- 593 409 2343 3.771 0.758 0.146 0.044 11 1.0 temporalpole
- 550 342 992 2.552 0.431 0.128 0.031 8 0.6 transversetemporal
- 3581 2377 7475 3.069 0.823 0.117 0.035 46 4.4 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 0051264 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 249666
- Total vertex volume 245800 (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) = 1411699 mm^3 (det: 1.379973 )
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 1396 840 2435 2.697 0.449 0.136 0.043 29 2.5 bankssts
- 1049 954 2209 2.585 0.687 0.183 0.051 34 2.2 caudalanteriorcingulate
- 2409 2068 4877 2.582 0.560 0.143 0.032 28 3.5 caudalmiddlefrontal
- 2306 1750 3082 1.971 0.450 0.148 0.042 47 3.9 cuneus
- 524 681 1844 3.327 0.969 0.231 0.054 8 1.4 entorhinal
- 5031 4315 11480 2.970 0.662 0.154 0.041 90 9.5 fusiform
- 8436 7098 17558 2.690 0.593 0.150 0.037 137 13.7 inferiorparietal
- 4281 3958 10218 2.901 0.704 0.167 0.041 74 8.4 inferiortemporal
- 1216 1011 2359 2.566 0.895 0.162 0.048 31 2.5 isthmuscingulate
- 7741 6183 13085 2.343 0.551 0.142 0.035 161 12.2 lateraloccipital
- 3424 3041 6902 2.526 0.755 0.189 0.051 67 8.2 lateralorbitofrontal
- 4274 3266 7131 2.440 0.621 0.147 0.041 79 7.5 lingual
- 2951 2973 6334 2.467 0.695 0.184 0.049 45 6.4 medialorbitofrontal
- 4395 4255 10995 2.947 0.679 0.160 0.037 75 7.1 middletemporal
- 983 822 1823 2.537 0.555 0.148 0.033 12 1.5 parahippocampal
- 2566 1873 4418 2.479 0.551 0.133 0.032 41 3.7 paracentral
- 2104 1947 4404 2.548 0.518 0.158 0.035 31 3.3 parsopercularis
- 1363 1566 3455 2.762 0.723 0.212 0.047 21 3.1 parsorbitalis
- 2514 2272 4876 2.420 0.526 0.177 0.041 44 4.6 parstriangularis
- 2044 1203 2102 1.701 0.408 0.112 0.030 27 2.4 pericalcarine
- 6887 5364 10237 2.097 0.539 0.134 0.030 76 9.3 postcentral
- 1683 1464 3443 2.568 0.764 0.179 0.041 55 3.1 posteriorcingulate
- 6458 4959 12585 2.642 0.535 0.124 0.029 82 8.1 precentral
- 5972 4766 10890 2.450 0.501 0.148 0.038 98 10.3 precuneus
- 900 904 2233 2.958 0.598 0.178 0.044 16 1.9 rostralanteriorcingulate
- 8073 7459 14822 2.270 0.599 0.182 0.045 125 17.3 rostralmiddlefrontal
- 10063 8889 21867 2.714 0.609 0.161 0.040 155 17.7 superiorfrontal
- 7562 6163 12983 2.303 0.521 0.157 0.039 110 13.2 superiorparietal
- 5439 4560 12315 2.983 0.661 0.150 0.042 89 8.8 superiortemporal
- 5544 4443 10977 2.603 0.452 0.139 0.031 82 7.5 supramarginal
- 399 538 1025 2.541 0.663 0.272 0.063 7 1.4 frontalpole
- 593 770 2343 3.771 0.758 0.204 0.042 10 1.1 temporalpole
- 550 425 992 2.552 0.431 0.124 0.034 4 0.8 transversetemporal
- 3581 2357 7475 3.069 0.823 0.144 0.051 86 7.4 insula
- PIDs (596 599 602 605) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Sun Oct 8 03:36:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051264 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 03:36:31 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051264 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 727 of (727 730) to complete...
- Waiting for PID 730 of (727 730) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051264 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...
- 5 labels changed using aseg
- relabeling using gibbs priors...
- 000: 8663 changed, 131800 examined...
- 001: 2034 changed, 33910 examined...
- 002: 597 changed, 10693 examined...
- 003: 265 changed, 3393 examined...
- 004: 131 changed, 1521 examined...
- 005: 66 changed, 765 examined...
- 006: 41 changed, 370 examined...
- 007: 23 changed, 232 examined...
- 008: 8 changed, 121 examined...
- 009: 3 changed, 39 examined...
- 010: 3 changed, 18 examined...
- 011: 1 changed, 12 examined...
- 012: 0 changed, 7 examined...
- 0 labels changed using aseg
- 000: 252 total segments, 167 labels (1978 vertices) changed
- 001: 90 total segments, 5 labels (51 vertices) changed
- 002: 85 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 33 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1560 vertices marked for relabeling...
- 1560 labels changed in reclassification.
- writing output to ../label/lh.aparc.a2009s.annot...
- classification took 0 minutes and 18 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051264 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...
- 5 labels changed using aseg
- relabeling using gibbs priors...
- 000: 8872 changed, 131897 examined...
- 001: 2078 changed, 34836 examined...
- 002: 608 changed, 10715 examined...
- 003: 245 changed, 3438 examined...
- 004: 112 changed, 1410 examined...
- 005: 55 changed, 635 examined...
- 006: 24 changed, 313 examined...
- 007: 12 changed, 140 examined...
- 008: 9 changed, 79 examined...
- 009: 7 changed, 46 examined...
- 010: 2 changed, 31 examined...
- 011: 0 changed, 12 examined...
- 1 labels changed using aseg
- 000: 261 total segments, 178 labels (2912 vertices) changed
- 001: 96 total segments, 16 labels (155 vertices) changed
- 002: 80 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 39 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 1155 vertices marked for relabeling...
- 1155 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 18 seconds.
- PIDs (727 730) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Sun Oct 8 03:36:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0051264 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Sun Oct 8 03:36:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0051264 rh white
- Waiting for PID 778 of (778 781) to complete...
- Waiting for PID 781 of (778 781) 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 0051264 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 246405
- Total vertex volume 243484 (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) = 1411699 mm^3 (det: 1.379973 )
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 1155 838 2027 1.976 0.563 0.156 0.044 22 2.6 G&S_frontomargin
- 1835 1202 3257 2.401 0.495 0.152 0.034 29 2.6 G&S_occipital_inf
- 1691 1103 3162 2.326 0.559 0.119 0.026 16 1.8 G&S_paracentral
- 1235 869 2780 2.611 0.490 0.128 0.028 17 1.3 G&S_subcentral
- 681 458 1609 2.578 0.517 0.180 0.063 23 1.7 G&S_transv_frontopol
- 2593 1793 5089 2.713 0.493 0.126 0.026 36 2.7 G&S_cingul-Ant
- 1175 838 2235 2.753 0.476 0.112 0.018 8 1.0 G&S_cingul-Mid-Ant
- 1413 954 2917 2.776 0.489 0.117 0.024 14 1.5 G&S_cingul-Mid-Post
- 612 386 1555 3.024 0.637 0.148 0.039 11 0.9 G_cingul-Post-dorsal
- 222 144 544 2.903 0.860 0.148 0.040 4 0.3 G_cingul-Post-ventral
- 1834 1236 2721 1.938 0.533 0.155 0.042 31 2.9 G_cuneus
- 1230 844 3203 2.886 0.443 0.126 0.028 20 1.3 G_front_inf-Opercular
- 537 351 1508 3.005 0.528 0.159 0.044 12 0.8 G_front_inf-Orbital
- 1141 774 2890 2.785 0.437 0.149 0.040 23 1.8 G_front_inf-Triangul
- 4342 3005 10812 2.639 0.582 0.148 0.039 114 6.2 G_front_middle
- 7235 4939 18676 2.968 0.588 0.133 0.031 110 8.8 G_front_sup
- 611 414 1350 3.382 0.674 0.142 0.053 8 1.4 G_Ins_lg&S_cent_ins
- 744 494 2442 3.639 0.632 0.121 0.031 11 0.9 G_insular_short
- 2561 1596 5863 2.723 0.544 0.148 0.035 49 3.6 G_occipital_middle
- 1497 955 2673 2.266 0.597 0.145 0.035 22 2.1 G_occipital_sup
- 1951 1263 4555 2.964 0.638 0.141 0.031 41 2.2 G_oc-temp_lat-fusifor
- 2910 1946 4585 2.070 0.636 0.157 0.041 52 4.7 G_oc-temp_med-Lingual
- 1097 705 2805 2.918 0.809 0.096 0.023 8 0.9 G_oc-temp_med-Parahip
- 2341 1594 5642 2.614 0.645 0.152 0.050 61 4.1 G_orbital
- 3075 2052 8575 2.990 0.701 0.145 0.035 60 4.2 G_pariet_inf-Angular
- 2665 1881 6535 2.782 0.575 0.141 0.030 45 3.3 G_pariet_inf-Supramar
- 3226 2140 6803 2.506 0.555 0.137 0.028 45 3.3 G_parietal_sup
- 2258 1365 3880 2.264 0.475 0.112 0.025 25 2.2 G_postcentral
- 2399 1549 6081 2.964 0.414 0.108 0.022 23 2.0 G_precentral
- 2773 1861 6227 2.544 0.503 0.139 0.035 51 3.6 G_precuneus
- 907 607 1756 2.130 0.585 0.129 0.038 18 1.5 G_rectus
- 982 574 1355 2.302 1.252 0.107 0.054 19 1.5 G_subcallosal
- 570 344 1146 2.708 0.246 0.127 0.026 9 0.6 G_temp_sup-G_T_transv
- 1988 1391 6494 3.165 0.687 0.152 0.035 39 2.9 G_temp_sup-Lateral
- 645 474 1808 3.222 0.782 0.112 0.023 5 0.5 G_temp_sup-Plan_polar
- 970 684 2220 2.676 0.510 0.117 0.029 12 1.0 G_temp_sup-Plan_tempo
- 2714 1779 6512 2.736 0.676 0.125 0.030 48 3.2 G_temporal_inf
- 2322 1601 6904 2.968 0.648 0.146 0.033 50 3.1 G_temporal_middle
- 310 226 473 2.287 0.430 0.098 0.011 1 0.1 Lat_Fis-ant-Horizont
- 333 236 502 2.543 0.455 0.106 0.017 2 0.2 Lat_Fis-ant-Vertical
- 1095 733 1498 2.515 0.485 0.099 0.017 6 0.8 Lat_Fis-post
- 2023 1340 3134 2.103 0.474 0.161 0.041 36 3.3 Pole_occipital
- 1651 1134 4899 3.006 0.929 0.143 0.041 29 2.8 Pole_temporal
- 2064 1404 2571 2.181 0.656 0.120 0.027 17 2.3 S_calcarine
- 2978 2013 3617 1.988 0.539 0.100 0.018 16 2.3 S_central
- 1346 917 1938 2.311 0.370 0.105 0.018 10 0.9 S_cingul-Marginalis
- 674 456 1077 2.904 0.538 0.108 0.019 3 0.7 S_circular_insula_ant
- 1300 877 2017 2.876 0.620 0.095 0.017 5 1.0 S_circular_insula_inf
- 1507 1028 2129 2.514 0.400 0.102 0.017 7 1.2 S_circular_insula_sup
- 677 481 1592 3.073 0.632 0.124 0.025 8 0.7 S_collat_transv_ant
- 367 251 442 1.981 0.386 0.129 0.023 3 0.3 S_collat_transv_post
- 2148 1471 3118 2.227 0.403 0.110 0.020 15 1.8 S_front_inf
- 1420 978 1842 2.149 0.413 0.126 0.027 16 1.6 S_front_middle
- 2731 1943 4710 2.449 0.464 0.110 0.019 22 2.4 S_front_sup
- 538 360 686 2.158 0.320 0.099 0.014 2 0.4 S_interm_prim-Jensen
- 3272 2217 4586 2.296 0.503 0.121 0.022 28 3.0 S_intrapariet&P_trans
- 954 661 1100 1.937 0.312 0.124 0.024 8 1.0 S_oc_middle&Lunatus
- 1309 882 1649 2.082 0.355 0.122 0.026 11 1.4 S_oc_sup&transversal
- 1099 747 1416 2.337 0.332 0.129 0.020 11 1.0 S_occipital_ant
- 971 658 1393 2.346 0.455 0.105 0.018 5 0.7 S_oc-temp_lat
- 2287 1566 3412 2.407 0.519 0.113 0.019 19 1.7 S_oc-temp_med&Lingual
- 407 314 628 1.940 0.419 0.145 0.028 3 0.6 S_orbital_lateral
- 706 513 973 2.240 0.631 0.123 0.020 6 0.7 S_orbital_med-olfact
- 1364 950 2392 2.365 0.582 0.120 0.027 12 1.6 S_orbital-H_Shaped
- 1957 1306 2604 2.333 0.500 0.126 0.025 17 2.3 S_parieto_occipital
- 1344 823 1412 2.187 0.962 0.108 0.017 21 0.8 S_pericallosal
- 2636 1731 3473 2.159 0.390 0.108 0.020 21 2.1 S_postcentral
- 1691 1173 2819 2.484 0.424 0.099 0.017 12 1.1 S_precentral-inf-part
- 1207 839 1957 2.607 0.437 0.098 0.018 6 0.9 S_precentral-sup-part
- 1015 694 1574 2.171 0.603 0.128 0.023 19 1.0 S_suborbital
- 1306 911 1991 2.375 0.417 0.120 0.020 11 1.1 S_subparietal
- 1643 1154 2273 2.170 0.518 0.112 0.017 11 1.2 S_temporal_inf
- 6017 4161 9914 2.470 0.467 0.108 0.020 47 4.8 S_temporal_sup
- 329 237 477 2.279 0.475 0.129 0.014 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 0051264 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 249666
- Total vertex volume 245800 (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) = 1411699 mm^3 (det: 1.379973 )
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 921 648 1620 2.042 0.649 0.165 0.049 22 2.2 G&S_frontomargin
- 1401 892 2635 2.514 0.631 0.130 0.030 19 1.5 G&S_occipital_inf
- 1774 1053 2878 2.266 0.527 0.116 0.028 19 1.9 G&S_paracentral
- 1296 907 2829 2.571 0.489 0.130 0.025 16 1.3 G&S_subcentral
- 1086 740 2283 2.277 0.572 0.163 0.053 31 2.4 G&S_transv_frontopol
- 3377 2326 6812 2.568 0.650 0.129 0.033 54 4.3 G&S_cingul-Ant
- 1342 954 2729 2.735 0.413 0.118 0.025 14 1.4 G&S_cingul-Mid-Ant
- 1629 1112 3171 2.687 0.506 0.124 0.030 21 1.8 G&S_cingul-Mid-Post
- 457 302 1511 3.322 0.548 0.154 0.036 9 0.6 G_cingul-Post-dorsal
- 338 203 806 2.967 0.743 0.141 0.042 6 0.4 G_cingul-Post-ventral
- 2121 1403 2921 1.868 0.447 0.151 0.039 33 3.2 G_cuneus
- 1617 1087 3808 2.625 0.542 0.137 0.032 33 2.0 G_front_inf-Opercular
- 398 267 1120 2.884 0.405 0.166 0.050 12 0.9 G_front_inf-Orbital
- 1081 712 2540 2.564 0.442 0.157 0.045 27 1.8 G_front_inf-Triangul
- 3507 2318 8427 2.661 0.574 0.139 0.036 66 5.4 G_front_middle
- 6461 4309 16243 2.878 0.622 0.138 0.034 105 8.8 G_front_sup
- 563 379 1425 3.578 0.707 0.104 0.024 4 0.5 G_Ins_lg&S_cent_ins
- 644 425 2301 3.782 0.757 0.129 0.037 14 1.0 G_insular_short
- 2381 1544 5684 2.778 0.466 0.143 0.031 40 2.7 G_occipital_middle
- 1659 1062 3093 2.319 0.657 0.144 0.034 24 2.3 G_occipital_sup
- 2566 1585 6469 3.086 0.716 0.137 0.043 54 4.6 G_oc-temp_lat-fusifor
- 2633 1687 4819 2.451 0.708 0.151 0.043 46 4.5 G_oc-temp_med-Lingual
- 1492 953 3478 2.844 0.971 0.120 0.047 22 1.8 G_oc-temp_med-Parahip
- 2745 1822 7074 2.784 0.744 0.156 0.047 70 5.0 G_orbital
- 3376 2209 9109 2.881 0.678 0.147 0.036 69 4.8 G_pariet_inf-Angular
- 2419 1634 5638 2.709 0.480 0.124 0.025 35 2.4 G_pariet_inf-Supramar
- 2215 1479 4613 2.415 0.566 0.135 0.031 34 2.5 G_parietal_sup
- 2522 1492 4224 2.211 0.525 0.114 0.031 34 2.7 G_postcentral
- 2271 1456 5912 2.949 0.419 0.112 0.027 22 2.4 G_precentral
- 2660 1772 5973 2.576 0.542 0.136 0.034 46 3.5 G_precuneus
- 851 634 2498 2.724 0.605 0.160 0.051 23 1.7 G_rectus
- 208 138 512 3.286 0.536 0.099 0.028 2 0.1 G_subcallosal
- 510 322 966 2.557 0.494 0.146 0.049 10 0.8 G_temp_sup-G_T_transv
- 1872 1268 5537 3.320 0.548 0.157 0.047 42 3.1 G_temp_sup-Lateral
- 656 468 1797 3.106 0.772 0.139 0.036 14 0.7 G_temp_sup-Plan_polar
- 874 569 1827 2.846 0.365 0.113 0.020 10 0.6 G_temp_sup-Plan_tempo
- 2286 1535 6603 3.062 0.692 0.139 0.038 45 3.5 G_temporal_inf
- 2212 1536 6745 3.073 0.671 0.128 0.029 42 2.3 G_temporal_middle
- 371 259 645 2.521 0.349 0.112 0.021 3 0.2 Lat_Fis-ant-Horizont
- 264 193 374 2.275 0.529 0.126 0.029 2 0.3 Lat_Fis-ant-Vertical
- 1372 916 1939 2.607 0.429 0.106 0.021 9 1.1 Lat_Fis-post
- 3969 2546 6058 2.173 0.561 0.158 0.042 69 6.3 Pole_occipital
- 1584 1136 6114 3.611 0.767 0.160 0.052 34 3.1 Pole_temporal
- 2209 1513 2666 2.084 0.599 0.129 0.033 24 2.8 S_calcarine
- 3055 1996 3417 1.954 0.546 0.106 0.021 19 2.8 S_central
- 1505 1042 2350 2.381 0.455 0.102 0.016 8 1.0 S_cingul-Marginalis
- 679 466 1033 2.794 0.340 0.116 0.024 4 0.7 S_circular_insula_ant
- 1063 710 1490 2.543 0.490 0.084 0.012 4 0.6 S_circular_insula_inf
- 1463 1013 2343 2.697 0.492 0.106 0.020 7 1.3 S_circular_insula_sup
- 653 458 1314 3.061 0.756 0.134 0.028 6 0.8 S_collat_transv_ant
- 404 276 547 2.263 0.357 0.138 0.025 5 0.5 S_collat_transv_post
- 1932 1318 3017 2.265 0.468 0.106 0.021 14 1.4 S_front_inf
- 1940 1387 3042 1.958 0.517 0.138 0.031 25 2.6 S_front_middle
- 2251 1560 3571 2.420 0.470 0.103 0.019 13 1.8 S_front_sup
- 522 345 712 2.362 0.299 0.103 0.015 3 0.3 S_interm_prim-Jensen
- 2936 1984 4284 2.272 0.393 0.122 0.024 28 2.7 S_intrapariet&P_trans
- 921 640 1143 2.175 0.493 0.132 0.028 8 1.1 S_oc_middle&Lunatus
- 1487 983 1928 2.231 0.359 0.131 0.025 14 1.5 S_oc_sup&transversal
- 742 500 1110 2.582 0.361 0.133 0.026 8 0.9 S_occipital_ant
- 1315 896 2110 2.674 0.438 0.105 0.019 7 1.0 S_oc-temp_lat
- 2300 1581 3594 2.579 0.432 0.102 0.018 14 1.6 S_oc-temp_med&Lingual
- 574 419 694 1.798 0.417 0.111 0.018 3 0.5 S_orbital_lateral
- 719 536 1014 1.880 0.664 0.109 0.016 4 0.6 S_orbital_med-olfact
- 1178 822 2152 2.357 0.663 0.126 0.028 11 1.6 S_orbital-H_Shaped
- 2210 1459 2893 2.265 0.446 0.126 0.026 19 2.6 S_parieto_occipital
- 1336 829 1235 1.867 0.698 0.125 0.020 25 0.9 S_pericallosal
- 3290 2143 4386 2.208 0.359 0.107 0.019 27 2.6 S_postcentral
- 1271 874 2024 2.382 0.411 0.090 0.012 6 0.7 S_precentral-inf-part
- 1164 815 1791 2.563 0.464 0.093 0.016 4 0.8 S_precentral-sup-part
- 453 339 946 2.592 0.790 0.144 0.027 7 0.6 S_suborbital
- 1224 855 1942 2.370 0.450 0.120 0.024 10 1.2 S_subparietal
- 1201 828 1792 2.464 0.544 0.116 0.018 8 1.0 S_temporal_inf
- 6399 4362 10998 2.674 0.538 0.115 0.020 57 5.5 S_temporal_sup
- 322 229 503 2.803 0.495 0.138 0.021 3 0.3 S_temporal_transverse
- PIDs (778 781) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Sun Oct 8 03:37:27 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051264 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 03:37:27 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051264 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 857 of (857 860) to complete...
- Waiting for PID 860 of (857 860) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051264 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...
- 1122 labels changed using aseg
- relabeling using gibbs priors...
- 000: 1949 changed, 131800 examined...
- 001: 420 changed, 8983 examined...
- 002: 111 changed, 2393 examined...
- 003: 44 changed, 701 examined...
- 004: 25 changed, 256 examined...
- 005: 22 changed, 143 examined...
- 006: 21 changed, 123 examined...
- 007: 22 changed, 118 examined...
- 008: 15 changed, 119 examined...
- 009: 14 changed, 73 examined...
- 010: 9 changed, 69 examined...
- 011: 12 changed, 52 examined...
- 012: 6 changed, 58 examined...
- 013: 3 changed, 38 examined...
- 014: 2 changed, 18 examined...
- 015: 2 changed, 11 examined...
- 016: 2 changed, 12 examined...
- 017: 2 changed, 8 examined...
- 018: 2 changed, 13 examined...
- 019: 2 changed, 12 examined...
- 020: 2 changed, 12 examined...
- 021: 1 changed, 12 examined...
- 022: 1 changed, 7 examined...
- 023: 0 changed, 7 examined...
- 227 labels changed using aseg
- 000: 54 total segments, 21 labels (183 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 6 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1113 vertices marked for relabeling...
- 1113 labels changed in reclassification.
- writing output to ../label/lh.aparc.DKTatlas.annot...
- classification took 0 minutes and 14 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0051264 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...
- 1142 labels changed using aseg
- relabeling using gibbs priors...
- 000: 1912 changed, 131897 examined...
- 001: 457 changed, 8982 examined...
- 002: 95 changed, 2571 examined...
- 003: 42 changed, 564 examined...
- 004: 25 changed, 254 examined...
- 005: 11 changed, 138 examined...
- 006: 8 changed, 60 examined...
- 007: 9 changed, 56 examined...
- 008: 6 changed, 39 examined...
- 009: 7 changed, 36 examined...
- 010: 8 changed, 40 examined...
- 011: 14 changed, 40 examined...
- 012: 8 changed, 46 examined...
- 013: 11 changed, 46 examined...
- 014: 3 changed, 49 examined...
- 015: 1 changed, 22 examined...
- 016: 0 changed, 7 examined...
- 179 labels changed using aseg
- 000: 51 total segments, 18 labels (182 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 7 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 850 vertices marked for relabeling...
- 850 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 14 seconds.
- PIDs (857 860) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Sun Oct 8 03:37:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0051264 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Sun Oct 8 03:37:41 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0051264 rh white
- Waiting for PID 932 of (932 935) to complete...
- Waiting for PID 935 of (932 935) 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 0051264 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 246405
- Total vertex volume 243484 (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) = 1411699 mm^3 (det: 1.379973 )
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 1825 1200 3951 3.007 0.532 0.122 0.022 24 1.7 caudalanteriorcingulate
- 3273 2282 6733 2.576 0.595 0.117 0.023 35 2.8 caudalmiddlefrontal
- 2822 1856 4048 2.056 0.505 0.146 0.037 41 4.3 cuneus
- 490 333 1563 3.292 0.813 0.110 0.027 3 0.6 entorhinal
- 4034 2706 8142 2.748 0.613 0.125 0.025 52 3.9 fusiform
- 7575 5090 15614 2.639 0.672 0.131 0.028 102 8.5 inferiorparietal
- 5008 3356 11226 2.686 0.763 0.122 0.029 73 5.8 inferiortemporal
- 1401 900 2424 2.430 0.953 0.120 0.030 20 1.3 isthmuscingulate
- 7953 5221 13293 2.294 0.533 0.146 0.033 120 10.7 lateraloccipital
- 4330 2962 8344 2.493 0.673 0.138 0.042 78 7.3 lateralorbitofrontal
- 4218 2856 6322 2.124 0.640 0.145 0.034 64 5.8 lingual
- 2465 1643 4016 2.095 0.704 0.117 0.031 43 3.0 medialorbitofrontal
- 5918 4074 12614 2.607 0.641 0.124 0.025 84 6.0 middletemporal
- 993 625 1900 2.630 0.651 0.086 0.017 7 0.5 parahippocampal
- 2726 1789 4888 2.521 0.574 0.104 0.021 19 2.4 paracentral
- 1904 1312 3973 2.680 0.503 0.113 0.021 22 1.5 parsopercularis
- 1118 759 2522 2.834 0.605 0.137 0.030 17 1.3 parsorbitalis
- 2432 1696 4836 2.514 0.544 0.134 0.031 33 3.1 parstriangularis
- 1573 1082 1809 1.987 0.493 0.123 0.028 13 1.8 pericalcarine
- 6464 4213 10333 2.166 0.559 0.110 0.022 60 5.6 postcentral
- 2132 1435 3984 2.581 0.648 0.127 0.025 27 2.3 posteriorcingulate
- 6853 4567 13432 2.650 0.505 0.108 0.021 56 5.9 precentral
- 5638 3825 10339 2.444 0.505 0.128 0.027 71 6.1 precuneus
- 1976 1342 3944 2.673 0.847 0.129 0.030 38 2.1 rostralanteriorcingulate
- 5889 4090 11728 2.370 0.517 0.139 0.035 119 8.4 rostralmiddlefrontal
- 11159 7739 24785 2.740 0.597 0.133 0.032 169 14.1 superiorfrontal
- 6649 4385 11281 2.333 0.510 0.130 0.026 77 6.6 superiorparietal
- 7383 5171 17488 2.825 0.680 0.125 0.027 91 8.0 superiortemporal
- 5188 3606 10818 2.622 0.588 0.128 0.028 69 5.7 supramarginal
- 682 421 1218 2.636 0.250 0.114 0.021 8 0.6 transversetemporal
- 2742 1853 5917 3.138 0.730 0.116 0.028 24 3.4 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 0051264 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 249666
- Total vertex volume 245800 (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) = 1411699 mm^3 (det: 1.379973 )
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 1137 788 2371 2.598 0.672 0.146 0.031 22 1.4 caudalanteriorcingulate
- 2558 1733 5166 2.586 0.558 0.112 0.022 22 2.3 caudalmiddlefrontal
- 2790 1811 4010 2.050 0.526 0.149 0.037 41 4.2 cuneus
- 421 288 1476 3.294 1.004 0.111 0.028 3 0.4 entorhinal
- 4736 3112 10322 2.948 0.647 0.126 0.033 68 6.5 fusiform
- 8415 5625 17786 2.698 0.594 0.135 0.028 120 9.7 inferiorparietal
- 4617 3150 11697 2.952 0.716 0.132 0.033 71 6.2 inferiortemporal
- 1244 824 2330 2.519 0.887 0.136 0.032 22 1.2 isthmuscingulate
- 7884 5102 13217 2.325 0.555 0.143 0.035 114 10.5 lateraloccipital
- 4135 2792 8308 2.511 0.790 0.148 0.046 80 7.4 lateralorbitofrontal
- 4262 2778 7104 2.434 0.622 0.142 0.038 64 6.3 lingual
- 2086 1524 4938 2.591 0.732 0.138 0.040 40 3.3 medialorbitofrontal
- 5489 3796 12750 2.887 0.646 0.123 0.025 76 5.2 middletemporal
- 1008 676 1881 2.555 0.538 0.098 0.017 7 0.6 parahippocampal
- 2645 1711 4563 2.479 0.549 0.112 0.022 22 2.3 paracentral
- 2367 1628 4936 2.547 0.513 0.120 0.026 35 2.5 parsopercularis
- 1121 753 2731 2.818 0.640 0.140 0.033 21 1.7 parsorbitalis
- 2627 1793 4967 2.395 0.551 0.137 0.034 45 3.4 parstriangularis
- 1967 1342 2020 1.703 0.413 0.124 0.031 20 2.4 pericalcarine
- 7739 4885 11694 2.121 0.528 0.114 0.025 85 7.3 postcentral
- 1774 1198 3598 2.578 0.758 0.127 0.028 27 1.9 posteriorcingulate
- 6195 4066 12182 2.638 0.527 0.110 0.023 49 5.8 precentral
- 6106 4140 11168 2.445 0.507 0.125 0.028 70 6.8 precuneus
- 1130 797 2535 2.825 0.646 0.144 0.038 24 1.5 rostralanteriorcingulate
- 5933 4031 11195 2.304 0.610 0.132 0.033 95 8.1 rostralmiddlefrontal
- 12778 8691 26871 2.620 0.635 0.130 0.032 181 16.4 superiorfrontal
- 6030 3979 10145 2.286 0.509 0.133 0.029 78 6.7 superiorparietal
- 7051 4731 16441 2.987 0.730 0.130 0.032 107 8.2 superiortemporal
- 5049 3399 9960 2.616 0.454 0.112 0.022 56 4.3 supramarginal
- 558 341 1002 2.517 0.488 0.134 0.042 10 0.9 transversetemporal
- 2847 1946 6436 3.194 0.726 0.112 0.025 26 2.9 insula
- PIDs (932 935) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Sun Oct 8 03:38:18 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- pctsurfcon --s 0051264 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Sun Oct 8 03:38:18 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts
- pctsurfcon --s 0051264 --rh-only
- Waiting for PID 1014 of (1014 1024) to complete...
- Waiting for PID 1024 of (1014 1024) to complete...
- pctsurfcon --s 0051264 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts/pctsurfcon.log
- Sun Oct 8 03:38:18 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-6.0.0/0051264/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-545 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-6.0.0/0051264/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/tmp.pctsurfcon.1014/lh.wm.mgh --regheader 0051264 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/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-6.0.0/0051264/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 = 67364
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/tmp.pctsurfcon.1014/lh.wm.mgh
- Dim: 131800 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/tmp.pctsurfcon.1014/lh.gm.mgh --projfrac 0.3 --regheader 0051264 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/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-6.0.0/0051264/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 = 81838
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/tmp.pctsurfcon.1014/lh.gm.mgh
- Dim: 131800 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/tmp.pctsurfcon.1014/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/tmp.pctsurfcon.1014/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.w-g.pct.mgh --annot 0051264 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/surf/lh.w-g.pct.mgh --annot 0051264 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-545
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/surf/lh.w-g.pct.mgh
- Vertex Area is 0.674159 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 0051264 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/scripts/pctsurfcon.log
- Sun Oct 8 03:38:18 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-6.0.0/0051264/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-545 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-6.0.0/0051264/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/tmp.pctsurfcon.1024/rh.wm.mgh --regheader 0051264 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/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-6.0.0/0051264/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 = 66989
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/tmp.pctsurfcon.1024/rh.wm.mgh
- Dim: 131897 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/tmp.pctsurfcon.1024/rh.gm.mgh --projfrac 0.3 --regheader 0051264 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/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-6.0.0/0051264/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 = 81565
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/tmp.pctsurfcon.1024/rh.gm.mgh
- Dim: 131897 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/tmp.pctsurfcon.1024/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/tmp.pctsurfcon.1024/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.w-g.pct.mgh --annot 0051264 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/surf/rh.w-g.pct.mgh --annot 0051264 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-545
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/surf/rh.w-g.pct.mgh
- Vertex Area is 0.667507 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 (1014 1024) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Sun Oct 8 03:38:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 691 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 664 voxels changed to hypointensity...
- 1426 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Sun Oct 8 03:38:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264
- mri_aparc2aseg --s 0051264 --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 03:38:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264
- mri_aparc2aseg --s 0051264 --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 03:38:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264
- mri_aparc2aseg --s 0051264 --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 1176 of (1176 1179 1182) to complete...
- Waiting for PID 1179 of (1176 1179 1182) to complete...
- Waiting for PID 1182 of (1176 1179 1182) to complete...
- mri_aparc2aseg --s 0051264 --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 0051264
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/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-6.0.0/0051264/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 5.80
- 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 --> 50
- rescaling Left_Lateral_Ventricle from 13 --> 14
- rescaling Left_Inf_Lat_Vent from 34 --> 30
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 57
- rescaling Left_Thalamus from 94 --> 90
- rescaling Left_Thalamus_Proper from 84 --> 86
- rescaling Left_Caudate from 75 --> 68
- rescaling Left_Putamen from 80 --> 79
- rescaling Left_Pallidum from 98 --> 95
- rescaling Third_Ventricle from 25 --> 20
- rescaling Fourth_Ventricle from 22 --> 13
- rescaling Brain_Stem from 81 --> 85
- rescaling Left_Hippocampus from 57 --> 54
- rescaling Left_Amygdala from 56 --> 59
- rescaling CSF from 32 --> 24
- rescaling Left_Accumbens_area from 62 --> 61
- rescaling Left_VentralDC from 87 --> 92
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- rescaling Right_Cerebral_Cortex from 58 --> 51
- rescaling Right_Lateral_Ventricle from 13 --> 10
- rescaling Right_Inf_Lat_Vent from 25 --> 24
- rescaling Right_Cerebellum_White_Matter from 87 --> 86
- rescaling Right_Cerebellum_Cortex from 59 --> 58
- rescaling Right_Thalamus_Proper from 85 --> 89
- rescaling Right_Caudate from 62 --> 73
- rescaling Right_Putamen from 80 --> 75
- rescaling Right_Pallidum from 97 --> 91
- rescaling Right_Hippocampus from 53 --> 57
- rescaling Right_Amygdala from 55 --> 58
- rescaling Right_Accumbens_area from 65 --> 71
- rescaling Right_VentralDC from 86 --> 92
- rescaling Fifth_Ventricle from 40 --> 24
- rescaling WM_hypointensities from 78 --> 77
- rescaling non_WM_hypointensities from 40 --> 56
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 486131
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 161 changed.
- pass 2: 11 changed.
- pass 3: 1 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0051264 --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 0051264
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/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-6.0.0/0051264/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 5.80
- 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 --> 50
- rescaling Left_Lateral_Ventricle from 13 --> 14
- rescaling Left_Inf_Lat_Vent from 34 --> 30
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 57
- rescaling Left_Thalamus from 94 --> 90
- rescaling Left_Thalamus_Proper from 84 --> 86
- rescaling Left_Caudate from 75 --> 68
- rescaling Left_Putamen from 80 --> 79
- rescaling Left_Pallidum from 98 --> 95
- rescaling Third_Ventricle from 25 --> 20
- rescaling Fourth_Ventricle from 22 --> 13
- rescaling Brain_Stem from 81 --> 85
- rescaling Left_Hippocampus from 57 --> 54
- rescaling Left_Amygdala from 56 --> 59
- rescaling CSF from 32 --> 24
- rescaling Left_Accumbens_area from 62 --> 61
- rescaling Left_VentralDC from 87 --> 92
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- rescaling Right_Cerebral_Cortex from 58 --> 51
- rescaling Right_Lateral_Ventricle from 13 --> 10
- rescaling Right_Inf_Lat_Vent from 25 --> 24
- rescaling Right_Cerebellum_White_Matter from 87 --> 86
- rescaling Right_Cerebellum_Cortex from 59 --> 58
- rescaling Right_Thalamus_Proper from 85 --> 89
- rescaling Right_Caudate from 62 --> 73
- rescaling Right_Putamen from 80 --> 75
- rescaling Right_Pallidum from 97 --> 91
- rescaling Right_Hippocampus from 53 --> 57
- rescaling Right_Amygdala from 55 --> 58
- rescaling Right_Accumbens_area from 65 --> 71
- rescaling Right_VentralDC from 86 --> 92
- rescaling Fifth_Ventricle from 40 --> 24
- rescaling WM_hypointensities from 78 --> 77
- rescaling non_WM_hypointensities from 40 --> 56
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 486105
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 161 changed.
- pass 2: 11 changed.
- pass 3: 1 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0051264 --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 0051264
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/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-6.0.0/0051264/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 5.80
- 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 --> 50
- rescaling Left_Lateral_Ventricle from 13 --> 14
- rescaling Left_Inf_Lat_Vent from 34 --> 30
- rescaling Left_Cerebellum_White_Matter from 86 --> 86
- rescaling Left_Cerebellum_Cortex from 60 --> 57
- rescaling Left_Thalamus from 94 --> 90
- rescaling Left_Thalamus_Proper from 84 --> 86
- rescaling Left_Caudate from 75 --> 68
- rescaling Left_Putamen from 80 --> 79
- rescaling Left_Pallidum from 98 --> 95
- rescaling Third_Ventricle from 25 --> 20
- rescaling Fourth_Ventricle from 22 --> 13
- rescaling Brain_Stem from 81 --> 85
- rescaling Left_Hippocampus from 57 --> 54
- rescaling Left_Amygdala from 56 --> 59
- rescaling CSF from 32 --> 24
- rescaling Left_Accumbens_area from 62 --> 61
- rescaling Left_VentralDC from 87 --> 92
- rescaling Right_Cerebral_White_Matter from 105 --> 105
- rescaling Right_Cerebral_Cortex from 58 --> 51
- rescaling Right_Lateral_Ventricle from 13 --> 10
- rescaling Right_Inf_Lat_Vent from 25 --> 24
- rescaling Right_Cerebellum_White_Matter from 87 --> 86
- rescaling Right_Cerebellum_Cortex from 59 --> 58
- rescaling Right_Thalamus_Proper from 85 --> 89
- rescaling Right_Caudate from 62 --> 73
- rescaling Right_Putamen from 80 --> 75
- rescaling Right_Pallidum from 97 --> 91
- rescaling Right_Hippocampus from 53 --> 57
- rescaling Right_Amygdala from 55 --> 58
- rescaling Right_Accumbens_area from 65 --> 71
- rescaling Right_VentralDC from 86 --> 92
- rescaling Fifth_Ventricle from 40 --> 24
- rescaling WM_hypointensities from 78 --> 77
- rescaling non_WM_hypointensities from 40 --> 56
- 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19
- 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39
- 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59
- 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79
- 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99
- 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119
- 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139
- 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159
- 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179
- 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199
- 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219
- 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239
- 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 nctx = 486105
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 161 changed.
- pass 2: 11 changed.
- pass 3: 1 changed.
- pass 4: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (1176 1179 1182) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Sun Oct 8 03:45:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Sun Oct 8 03:45:38 CEST 2017
- setenv SUBJECTS_DIR /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0
- cd /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-545 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-6.0.0/0051264/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-545
- machine x86_64
- user ntraut
- input aparc+aseg.mgz
- frame 0
- nErode3d 0
- nErode2d 0
- output aseg.mgz
- Binarizing based on threshold
- min -infinity
- max +infinity
- binval 1
- binvalnot 0
- fstart = 0, fend = 0, nframes = 1
- Replacing 72
- 1: 1000 3
- 2: 2000 42
- 3: 1001 3
- 4: 2001 42
- 5: 1002 3
- 6: 2002 42
- 7: 1003 3
- 8: 2003 42
- 9: 1004 3
- 10: 2004 42
- 11: 1005 3
- 12: 2005 42
- 13: 1006 3
- 14: 2006 42
- 15: 1007 3
- 16: 2007 42
- 17: 1008 3
- 18: 2008 42
- 19: 1009 3
- 20: 2009 42
- 21: 1010 3
- 22: 2010 42
- 23: 1011 3
- 24: 2011 42
- 25: 1012 3
- 26: 2012 42
- 27: 1013 3
- 28: 2013 42
- 29: 1014 3
- 30: 2014 42
- 31: 1015 3
- 32: 2015 42
- 33: 1016 3
- 34: 2016 42
- 35: 1017 3
- 36: 2017 42
- 37: 1018 3
- 38: 2018 42
- 39: 1019 3
- 40: 2019 42
- 41: 1020 3
- 42: 2020 42
- 43: 1021 3
- 44: 2021 42
- 45: 1022 3
- 46: 2022 42
- 47: 1023 3
- 48: 2023 42
- 49: 1024 3
- 50: 2024 42
- 51: 1025 3
- 52: 2025 42
- 53: 1026 3
- 54: 2026 42
- 55: 1027 3
- 56: 2027 42
- 57: 1028 3
- 58: 2028 42
- 59: 1029 3
- 60: 2029 42
- 61: 1030 3
- 62: 2030 42
- 63: 1031 3
- 64: 2031 42
- 65: 1032 3
- 66: 2032 42
- 67: 1033 3
- 68: 2033 42
- 69: 1034 3
- 70: 2034 42
- 71: 1035 3
- 72: 2035 42
- Found 0 values in range
- Counting number of voxels in first frame
- Found 0 voxels in final mask
- Count: 0 0.000000 16777216 0.000000
- mri_binarize done
-
- Started at Sun Oct 8 03:45:38 CEST 2017
- Ended at Sun Oct 8 03:45:43 CEST 2017
- Apas2aseg-Run-Time-Sec 5
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Sun Oct 8 03:45:43 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264
- 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 0051264
- $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 0051264
- sysname Linux
- hostname tars-545
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1411699 mm^3 (det: 1.379973 )
- Computing euler number
- orig.nofix lheno = -52, rheno = -30
- orig.nofix lhholes = 27, rhholes = 16
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- Loading mri/norm.mgz
- Loading mri/norm.mgz
- Voxel Volume is 1 mm^3
- Generating list of segmentation ids
- Found 50 segmentations
- Computing statistics for each segmentation
- Reporting on 45 segmentations
- Using PrintSegStat
- mri_segstats done
- #-----------------------------------------
- #@# WMParc Sun Oct 8 03:47:05 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264
- mri_aparc2aseg --s 0051264 --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 0051264
- 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-6.0.0/0051264/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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-6.0.0/0051264/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 6993 vertices from left hemi
- Ripped 7186 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-6.0.0/0051264/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 = 888890
- Used brute-force search on 1 voxels
- Fixing Parahip LH WM
- Found 12 clusters
- 0 k 1.000000
- 1 k 2.000000
- 2 k 1.000000
- 3 k 1.000000
- 4 k 1226.000000
- 5 k 1.000000
- 6 k 1.000000
- 7 k 1.000000
- 8 k 28.000000
- 9 k 9.000000
- 10 k 1.000000
- 11 k 1.000000
- Fixing Parahip RH WM
- Found 15 clusters
- 0 k 1.000000
- 1 k 1.000000
- 2 k 1.000000
- 3 k 2.000000
- 4 k 2.000000
- 5 k 2.000000
- 6 k 1.000000
- 7 k 1.000000
- 8 k 7.000000
- 9 k 2.000000
- 10 k 1440.000000
- 11 k 1.000000
- 12 k 1.000000
- 13 k 1.000000
- 14 k 1.000000
- Writing output aseg to mri/wmparc.mgz
- mri_segstats --seg mri/wmparc.mgz --sum stats/wmparc.stats --pv mri/norm.mgz --excludeid 0 --brainmask mri/brainmask.mgz --in mri/norm.mgz --in-intensity-name norm --in-intensity-units MR --subject 0051264 --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 0051264 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-545
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1411699 mm^3 (det: 1.379973 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 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-6.0.0/0051264/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Sun Oct 8 03:54:47 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 0051264 --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 0051264 --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 0051264 --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 0051264 --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 0051264 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 2321 of (2321 2327 2333 2339 2345) to complete...
- Waiting for PID 2327 of (2321 2327 2333 2339 2345) to complete...
- Waiting for PID 2333 of (2321 2327 2333 2339 2345) to complete...
- Waiting for PID 2339 of (2321 2327 2333 2339 2345) to complete...
- Waiting for PID 2345 of (2321 2327 2333 2339 2345) 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 169
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 4298
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 310
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 8219
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 108
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4185
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 187
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 6170
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 229
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 6013
- mri_label2label: Done
- PIDs (2321 2327 2333 2339 2345) 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 0051264 --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 0051264 --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 0051264 --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 0051264 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 2401 of (2401 2407 2413 2419) to complete...
- Waiting for PID 2407 of (2401 2407 2413 2419) to complete...
- Waiting for PID 2413 of (2401 2407 2413 2419) to complete...
- Waiting for PID 2419 of (2401 2407 2413 2419) 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 131
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4201
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 974
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 14563
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 243
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 4424
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 626
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 4048
- mri_label2label: Done
- PIDs (2401 2407 2413 2419) 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 0051264 --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 0051264 --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 0051264 --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 0051264 --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 0051264 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 2464 of (2464 2470 2476 2482 2488) to complete...
- Waiting for PID 2470 of (2464 2470 2476 2482 2488) to complete...
- Waiting for PID 2476 of (2464 2470 2476 2482 2488) to complete...
- Waiting for PID 2482 of (2464 2470 2476 2482 2488) to complete...
- Waiting for PID 2488 of (2464 2470 2476 2482 2488) 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 867
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 5508
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 2315
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 10429
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 751
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 2769
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 71
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1361
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 30
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1229
- mri_label2label: Done
- PIDs (2464 2470 2476 2482 2488) 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 0051264 --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 0051264 --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 0051264 --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 0051264 --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 0051264 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 2533 of (2533 2539 2545 2551 2556) to complete...
- Waiting for PID 2539 of (2533 2539 2545 2551 2556) to complete...
- Waiting for PID 2545 of (2533 2539 2545 2551 2556) to complete...
- Waiting for PID 2551 of (2533 2539 2545 2551 2556) to complete...
- Waiting for PID 2556 of (2533 2539 2545 2551 2556) 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 57
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.thresh.label 1071
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 81
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 2173
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 54
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1558
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 60
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2056
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 106
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 2425
- mri_label2label: Done
- PIDs (2533 2539 2545 2551 2556) 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 0051264 --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 0051264 --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 0051264 --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 0051264 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 2618 of (2618 2624 2630 2635) to complete...
- Waiting for PID 2624 of (2618 2624 2630 2635) to complete...
- Waiting for PID 2630 of (2618 2624 2630 2635) to complete...
- Waiting for PID 2635 of (2618 2624 2630 2635) 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 53
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1602
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 403
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 7438
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 78
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 1990
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 265
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1416
- mri_label2label: Done
- PIDs (2618 2624 2630 2635) 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 0051264 --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 0051264 --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 0051264 --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 0051264 --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 0051264 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 2684 of (2684 2690 2696 2702 2707) to complete...
- Waiting for PID 2690 of (2684 2690 2696 2702 2707) to complete...
- Waiting for PID 2696 of (2684 2690 2696 2702 2707) to complete...
- Waiting for PID 2702 of (2684 2690 2696 2702 2707) to complete...
- Waiting for PID 2707 of (2684 2690 2696 2702 2707) 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 553
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 3958
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 1090
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 4424
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 191
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 704
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 14
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 484
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131800
- Number of reverse mapping hits = 10
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 460
- mri_label2label: Done
- PIDs (2684 2690 2696 2702 2707) completed and logs appended.
- mris_label2annot --s 0051264 --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-6.0.0/0051264/label
- cmdline mris_label2annot --s 0051264 --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-545
- machine x86_64
- user ntraut
- subject 0051264
- 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-6.0.0/0051264/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 92374 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/label/lh.BA_exvivo.annot
- mris_label2annot --s 0051264 --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-6.0.0/0051264/label
- cmdline mris_label2annot --s 0051264 --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-545
- machine x86_64
- user ntraut
- subject 0051264
- 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-6.0.0/0051264/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 109017 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0051264 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 246405
- Total vertex volume 243484 (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) = 1411699 mm^3 (det: 1.379973 )
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 1066 595 1877 2.346 0.457 0.129 0.032 16 1.2 BA1_exvivo
- 3722 2460 5751 2.280 0.442 0.114 0.022 35 3.3 BA2_exvivo
- 1044 676 964 1.784 0.346 0.130 0.029 9 1.2 BA3a_exvivo
- 2086 1416 3065 1.874 0.537 0.099 0.019 17 1.6 BA3b_exvivo
- 1610 1037 3301 2.742 0.469 0.099 0.021 11 1.4 BA4a_exvivo
- 1216 818 2059 2.522 0.422 0.091 0.018 6 1.0 BA4p_exvivo
- 9167 6267 21444 2.860 0.577 0.118 0.024 95 8.5 BA6_exvivo
- 2083 1427 4349 2.642 0.479 0.115 0.022 24 1.9 BA44_exvivo
- 3017 2099 5946 2.484 0.529 0.131 0.031 40 3.6 BA45_exvivo
- 2948 2033 3753 1.890 0.515 0.136 0.035 39 4.1 V1_exvivo
- 7838 5187 11784 2.118 0.558 0.153 0.038 120 12.1 V2_exvivo
- 2520 1652 4677 2.549 0.445 0.139 0.029 38 2.8 MT_exvivo
- 542 331 1466 3.186 0.846 0.112 0.033 5 0.8 perirhinal_exvivo
- 567 388 1178 2.750 0.701 0.093 0.019 3 0.4 entorhinal_exvivo
- mris_anatomical_stats -th3 -mgz -f ../stats/lh.BA_exvivo.thresh.stats -b -a ./lh.BA_exvivo.thresh.annot -c ./BA_exvivo.thresh.ctab 0051264 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 246405
- Total vertex volume 243484 (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) = 1411699 mm^3 (det: 1.379973 )
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 700 372 1242 2.410 0.406 0.124 0.031 10 0.7 BA1_exvivo
- 1455 953 2480 2.346 0.400 0.107 0.021 12 1.2 BA2_exvivo
- 896 574 792 1.768 0.354 0.133 0.030 8 1.0 BA3a_exvivo
- 1307 893 1512 1.635 0.347 0.085 0.014 6 0.9 BA3b_exvivo
- 1520 980 3091 2.771 0.433 0.084 0.016 6 1.0 BA4a_exvivo
- 1011 684 1684 2.477 0.444 0.095 0.020 6 0.8 BA4p_exvivo
- 5012 3392 11851 2.905 0.548 0.117 0.023 51 4.6 BA6_exvivo
- 1283 904 2783 2.622 0.470 0.117 0.023 16 1.2 BA44_exvivo
- 1208 845 2798 2.670 0.492 0.150 0.038 21 2.0 BA45_exvivo
- 3180 2181 4079 1.883 0.505 0.136 0.034 41 4.5 V1_exvivo
- 3992 2628 5637 2.017 0.545 0.166 0.043 71 6.9 V2_exvivo
- 660 440 1181 2.559 0.365 0.131 0.024 9 0.6 MT_exvivo
- 256 159 905 3.494 0.868 0.100 0.018 2 0.2 perirhinal_exvivo
- 303 193 545 2.632 0.526 0.066 0.013 1 0.2 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Sun Oct 8 03:57:32 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 0051264 --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 0051264 --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 0051264 --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 0051264 --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 0051264 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 2964 of (2964 2970 2976 2982 2988) to complete...
- Waiting for PID 2970 of (2964 2970 2976 2982 2988) to complete...
- Waiting for PID 2976 of (2964 2970 2976 2982 2988) to complete...
- Waiting for PID 2982 of (2964 2970 2976 2982 2988) to complete...
- Waiting for PID 2988 of (2964 2970 2976 2982 2988) 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 436
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 4398
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 730
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 7417
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 151
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4131
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 303
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 4825
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 259
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 6006
- mri_label2label: Done
- PIDs (2964 2970 2976 2982 2988) 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 0051264 --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 0051264 --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 0051264 --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 0051264 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 3029 of (3029 3035 3041 3046) to complete...
- Waiting for PID 3035 of (3029 3035 3041 3046) to complete...
- Waiting for PID 3041 of (3029 3035 3041 3046) to complete...
- Waiting for PID 3046 of (3029 3035 3041 3046) 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 204
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 4677
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 601
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 12857
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 766
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 7678
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 1226
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 6581
- mri_label2label: Done
- PIDs (3029 3035 3041 3046) 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 0051264 --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 0051264 --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 0051264 --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 0051264 --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 0051264 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 3111 of (3111 3117 3123 3129 3134) to complete...
- Waiting for PID 3117 of (3111 3117 3123 3129 3134) to complete...
- Waiting for PID 3123 of (3111 3117 3123 3129 3134) to complete...
- Waiting for PID 3129 of (3111 3117 3123 3129 3134) to complete...
- Waiting for PID 3134 of (3111 3117 3123 3129 3134) 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 1255
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 5982
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 2443
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 10459
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 449
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.label 2381
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 75
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1113
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 72
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 824
- mri_label2label: Done
- PIDs (3111 3117 3123 3129 3134) 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 0051264 --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 0051264 --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 0051264 --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 0051264 --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 0051264 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 3223 of (3223 3229 3235 3241 3246) to complete...
- Waiting for PID 3229 of (3223 3229 3235 3241 3246) to complete...
- Waiting for PID 3235 of (3223 3229 3235 3241 3246) to complete...
- Waiting for PID 3241 of (3223 3229 3235 3241 3246) to complete...
- Waiting for PID 3246 of (3223 3229 3235 3241 3246) 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 99
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 975
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 347
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 3035
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 58
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1756
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 122
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2305
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 105
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1493
- mri_label2label: Done
- PIDs (3223 3229 3235 3241 3246) 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 0051264 --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 0051264 --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 0051264 --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 0051264 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 3347 of (3347 3353 3359 3364) to complete...
- Waiting for PID 3353 of (3347 3353 3359 3364) to complete...
- Waiting for PID 3359 of (3347 3353 3359 3364) to complete...
- Waiting for PID 3364 of (3347 3353 3359 3364) 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 70
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1559
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 275
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 7234
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 204
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1216
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 259
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1437
- mri_label2label: Done
- PIDs (3347 3353 3359 3364) 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 0051264 --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 0051264 --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 0051264 --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 0051264 --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 0051264 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 3422 of (3422 3428 3434 3439 3444) to complete...
- Waiting for PID 3428 of (3422 3428 3434 3439 3444) to complete...
- Waiting for PID 3434 of (3422 3428 3434 3439 3444) to complete...
- Waiting for PID 3439 of (3422 3428 3434 3439 3444) to complete...
- Waiting for PID 3444 of (3422 3428 3434 3439 3444) 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 794
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 4026
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 1037
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 4474
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 59
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 327
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- 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 0051264 --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 = 0051264
- 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-6.0.0/0051264/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 131897
- Number of reverse mapping hits = 12
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 303
- mri_label2label: Done
- PIDs (3422 3428 3434 3439 3444) completed and logs appended.
- mris_label2annot --s 0051264 --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-6.0.0/0051264/label
- cmdline mris_label2annot --s 0051264 --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-545
- machine x86_64
- user ntraut
- subject 0051264
- 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-6.0.0/0051264/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 91079 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/label/rh.BA_exvivo.annot
- mris_label2annot --s 0051264 --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-6.0.0/0051264/label
- cmdline mris_label2annot --s 0051264 --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-545
- machine x86_64
- user ntraut
- subject 0051264
- 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-6.0.0/0051264/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 109191 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/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 0051264 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 249666
- Total vertex volume 245800 (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) = 1411699 mm^3 (det: 1.379973 )
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 1029 576 1865 2.364 0.503 0.122 0.036 13 1.1 BA1_exvivo
- 4011 2611 5939 2.211 0.390 0.113 0.023 42 3.6 BA2_exvivo
- 1100 712 981 1.779 0.441 0.131 0.028 10 1.2 BA3a_exvivo
- 2123 1300 2507 1.727 0.422 0.102 0.022 20 1.9 BA3b_exvivo
- 1605 1007 3222 2.687 0.468 0.103 0.022 11 1.5 BA4a_exvivo
- 1303 808 2047 2.518 0.388 0.101 0.026 10 1.5 BA4p_exvivo
- 7118 4799 16363 2.862 0.544 0.117 0.026 71 7.3 BA6_exvivo
- 3322 2269 6920 2.587 0.517 0.116 0.024 41 3.3 BA44_exvivo
- 4649 3158 9422 2.477 0.591 0.138 0.033 76 6.2 BA45_exvivo
- 3606 2428 4867 1.915 0.591 0.141 0.039 51 5.5 V1_exvivo
- 7970 5155 12203 2.234 0.591 0.150 0.039 125 12.0 V2_exvivo
- 2115 1431 3682 2.599 0.456 0.134 0.026 25 2.2 MT_exvivo
- 510 346 1869 3.499 0.823 0.125 0.040 6 0.6 perirhinal_exvivo
- 357 239 858 2.730 0.780 0.102 0.037 4 0.5 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 0051264 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0051264/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 249666
- Total vertex volume 245800 (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) = 1411699 mm^3 (det: 1.379973 )
- lhCtxGM: 243256.447 242603.000 diff= 653.4 pctdiff= 0.269
- rhCtxGM: 245306.551 244425.000 diff= 881.6 pctdiff= 0.359
- lhCtxWM: 202997.246 203448.000 diff= -450.8 pctdiff=-0.222
- rhCtxWM: 200856.540 201206.000 diff= -349.5 pctdiff=-0.174
- SubCortGMVol 53031.000
- SupraTentVol 954712.784 (952312.000) diff=2400.784 pctdiff=0.251
- SupraTentVolNotVent 947193.784 (944793.000) diff=2400.784 pctdiff=0.253
- BrainSegVol 1090587.000 (1087935.000) diff=2652.000 pctdiff=0.243
- BrainSegVolNotVent 1079736.000 (1080333.784) diff=-597.784 pctdiff=-0.055
- BrainSegVolNotVent 1079736.000
- CerebellumVol 134806.000
- VentChorVol 7519.000
- 3rd4th5thCSF 3332.000
- CSFVol 680.000, OptChiasmVol 137.000
- MaskVol 1458420.000
- 685 372 1286 2.436 0.488 0.123 0.042 10 0.9 BA1_exvivo
- 2359 1539 3721 2.246 0.383 0.112 0.023 23 2.1 BA2_exvivo
- 1002 648 827 1.760 0.415 0.136 0.029 9 1.2 BA3a_exvivo
- 1664 1056 1702 1.584 0.297 0.090 0.018 10 1.3 BA3b_exvivo
- 1014 606 2161 2.812 0.481 0.102 0.022 7 0.9 BA4a_exvivo
- 1051 679 1731 2.579 0.374 0.092 0.026 7 1.3 BA4p_exvivo
- 4422 2988 10284 2.868 0.558 0.115 0.026 43 4.4 BA6_exvivo
- 1003 690 2031 2.416 0.515 0.120 0.026 18 1.2 BA44_exvivo
- 1221 832 2782 2.550 0.477 0.151 0.041 25 1.9 BA45_exvivo
- 3415 2289 4445 1.885 0.565 0.139 0.038 47 5.2 V1_exvivo
- 4032 2626 6141 2.175 0.615 0.155 0.041 68 6.4 V2_exvivo
- 299 207 667 2.662 0.353 0.162 0.028 5 0.4 MT_exvivo
- 321 203 1113 3.454 0.756 0.110 0.027 3 0.3 perirhinal_exvivo
- 218 147 440 2.608 0.582 0.082 0.020 1 0.1 entorhinal_exvivo
- Started at Sat Oct 7 21:25:38 CEST 2017
- Ended at Sun Oct 8 04:00:16 CEST 2017
- #@#%# recon-all-run-time-hours 6.577
- recon-all -s 0051264 finished without error at Sun Oct 8 04:00:16 CEST 2017
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