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- Sat Oct 7 16:31:06 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815
- /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/recon-all
- -subjid 0050815 -sd fs-6.0.0 -i /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/KKI_4/0050815/session_1/anat_1/mprage.nii.gz -autorecon-all -parallel -openmp 2
- subjid 0050815
- 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-551 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: 65993948 56823204 9170744 1758704 0 53754960
- -/+ buffers/cache: 3068244 62925704
- Swap: 0 0 0
- ########################################
- program versions used
- $Id: recon-all,v 1.580.2.16 2017/01/18 14:11:24 zkaufman Exp $
- $Id: mri_motion_correct.fsl,v 1.15 2016/02/16 17:17:20 zkaufman Exp $
- mri_convert.bin -all-info
- ProgramName: mri_convert.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- FLIRT version 5.5
- $Id: talairach_avi,v 1.13 2015/12/23 04:25:17 greve Exp $
- mri_convert.bin --version
- stable6
- ProgramName: tkregister2_cmdl ProgramArguments: --all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- Program nu_correct, built from:
- Package MNI N3, version 1.12.0, compiled by nicks@terrier (x86_64-unknown-linux-gnu) on 2015-06-19 at 01:25:34
- ProgramName: mri_make_uchar ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_label2label.bin ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_pretess ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_concatenate_lta.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:06-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_inflate ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_volmask ProgramArguments: --all-info ProgramVersion: $Name: $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- $Id: mri_robust_register.cpp,v 1.77 2016/01/20 23:36:17 greve Exp $
- ProgramName: mri_robust_register.bin ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- $Id: mri_robust_template.cpp,v 1.54 2016/05/05 21:17:08 mreuter Exp $
- ProgramName: mri_robust_template ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 Platform: Linux PlatformVersion: 2.6.32-696.3.2.el6.x86_64 CompilerName: GCC CompilerVersion: 40400
- ProgramName: mri_relabel_hypointensities ProgramArguments: -all-info ProgramVersion: $Name: stable6 $ TimeStamp: 2017/10/07-14:31:07-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-551 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-6.0.0/0050815
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/KKI_4/0050815/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/orig/001.mgz
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/_orig/raw_nii/KKI_4/0050815/session_1/anat_1/mprage.nii.gz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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/KKI_4/0050815/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-6.0.0/0050815/mri/orig/001.mgz...
- #--------------------------------------------
- #@# MotionCor Sat Oct 7 16:31:09 CEST 2017
- Found 1 runs
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/mri/orig/001.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/rawavg.mgz
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815
- mri_convert /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/orig.mgz --conform
- mri_convert.bin /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/rawavg.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/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-6.0.0/0050815/mri/orig.mgz...
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/transforms/talairach.xfm /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/orig.mgz /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/orig.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Talairach Sat Oct 7 16:31:18 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/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-551 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
- Sat Oct 7 16:31:18 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.9490
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.9490/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.9490/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.9490/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:31:20 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.9490/nu0.mnc ./tmp.mri_nu_correct.mni.9490/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.9490/0/ -iterations 1000 -distance 50
- [ntraut@tars-551:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/] [2017-10-07 16:31:20] 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.9490/0/ ./tmp.mri_nu_correct.mni.9490/nu0.mnc ./tmp.mri_nu_correct.mni.9490/nu1.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 31
- CV of field change: 0.000979716
-
-
-
- mri_convert ./tmp.mri_nu_correct.mni.9490/nu1.mnc orig_nu.mgz --like orig.mgz --conform
- mri_convert.bin ./tmp.mri_nu_correct.mni.9490/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.9490/nu1.mnc...
- TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
- i_ras = (-1, 0, 0)
- j_ras = (0, 0, -1)
- k_ras = (0, 1, 0)
- INFO: transform src into the like-volume: orig.mgz
- changing data type from float to uchar (noscale = 0)...
- MRIchangeType: Building histogram
- writing to orig_nu.mgz...
-
-
- Sat Oct 7 16:32:20 CEST 2017
- mri_nu_correct.mni done
- talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm
- talairach_avi log file is transforms/talairach_avi.log...
- Started at Sat Oct 7 16:32:20 CEST 2017
- Ended at Sat Oct 7 16:32:50 CEST 2017
- talairach_avi done
- cp transforms/talairach.auto.xfm transforms/talairach.xfm
- #--------------------------------------------
- #@# Talairach Failure Detection Sat Oct 7 16:32:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri
- talairach_afd -T 0.005 -xfm transforms/talairach.xfm
- talairach_afd: Talairach Transform: transforms/talairach.xfm OK (p=0.7422, pval=0.6675 >= threshold=0.0050)
- awk -f /pasteur/homes/ntraut/bin/freesurfer-6.0.0/bin/extract_talairach_avi_QA.awk /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/transforms/talairach_avi.log
- tal_QC_AZS /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/transforms/talairach_avi.log
- TalAviQA: 0.97461
- z-score: 0
- #--------------------------------------------
- #@# Nu Intensity Correction Sat Oct 7 16:32:52 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-6.0.0/0050815/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-551 2.6.32-696.3.2.el6.x86_64 #1 SMP Tue Jun 20 01:26:55 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
- Sat Oct 7 16:32:52 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.10164
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri
- mri_convert orig.mgz ./tmp.mri_nu_correct.mni.10164/nu0.mnc -odt float
- mri_convert.bin orig.mgz ./tmp.mri_nu_correct.mni.10164/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.10164/nu0.mnc...
-
- --------------------------------------------------------
- Iteration 1 Sat Oct 7 16:32:54 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.10164/nu0.mnc ./tmp.mri_nu_correct.mni.10164/nu1.mnc -tmpdir ./tmp.mri_nu_correct.mni.10164/0/
- [ntraut@tars-551:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/] [2017-10-07 16:32:54] 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.10164/0/ ./tmp.mri_nu_correct.mni.10164/nu0.mnc ./tmp.mri_nu_correct.mni.10164/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
- Number of iterations: 18
- CV of field change: 0.000993847
-
-
- --------------------------------------------------------
- Iteration 2 Sat Oct 7 16:33:34 CEST 2017
- nu_correct -clobber ./tmp.mri_nu_correct.mni.10164/nu1.mnc ./tmp.mri_nu_correct.mni.10164/nu2.mnc -tmpdir ./tmp.mri_nu_correct.mni.10164/1/
- [ntraut@tars-551:/pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/] [2017-10-07 16:33:34] 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.10164/1/ ./tmp.mri_nu_correct.mni.10164/nu1.mnc ./tmp.mri_nu_correct.mni.10164/nu2.imp
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Processing:.................................................................Done
- Number of iterations: 14
- CV of field change: 0.000973781
-
-
-
- mri_binarize --i ./tmp.mri_nu_correct.mni.10164/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.10164/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-6.0.0/0050815/mri
- cmdline mri_binarize.bin --i ./tmp.mri_nu_correct.mni.10164/nu2.mnc --min -1 --o ./tmp.mri_nu_correct.mni.10164/ones.mgz
- sysname Linux
- hostname tars-551
- machine x86_64
- user ntraut
- input ./tmp.mri_nu_correct.mni.10164/nu2.mnc
- frame 0
- nErode3d 0
- nErode2d 0
- output ./tmp.mri_nu_correct.mni.10164/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.10164/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.10164/sum.junk --avgwf ./tmp.mri_nu_correct.mni.10164/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.10164/ones.mgz --i orig.mgz --sum ./tmp.mri_nu_correct.mni.10164/sum.junk --avgwf ./tmp.mri_nu_correct.mni.10164/input.mean.dat
- sysname Linux
- hostname tars-551
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.10164/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.10164/input.mean.dat
- mri_segstats done
- mri_segstats --id 1 --seg ./tmp.mri_nu_correct.mni.10164/ones.mgz --i ./tmp.mri_nu_correct.mni.10164/nu2.mnc --sum ./tmp.mri_nu_correct.mni.10164/sum.junk --avgwf ./tmp.mri_nu_correct.mni.10164/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.10164/ones.mgz --i ./tmp.mri_nu_correct.mni.10164/nu2.mnc --sum ./tmp.mri_nu_correct.mni.10164/sum.junk --avgwf ./tmp.mri_nu_correct.mni.10164/output.mean.dat
- sysname Linux
- hostname tars-551
- machine x86_64
- user ntraut
- UseRobust 0
- Loading ./tmp.mri_nu_correct.mni.10164/ones.mgz
- Loading ./tmp.mri_nu_correct.mni.10164/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.10164/output.mean.dat
- mri_segstats done
- mris_calc -o ./tmp.mri_nu_correct.mni.10164/nu2.mnc ./tmp.mri_nu_correct.mni.10164/nu2.mnc mul 1.04055382522017564117
- Saving result to './tmp.mri_nu_correct.mni.10164/nu2.mnc' (type = MINC ) [ ok ]
- mri_convert ./tmp.mri_nu_correct.mni.10164/nu2.mnc nu.mgz --like orig.mgz
- mri_convert.bin ./tmp.mri_nu_correct.mni.10164/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.10164/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 7 seconds.
- mapping (10, 129) to ( 3, 110)
-
-
- Sat Oct 7 16:34:41 CEST 2017
- mri_nu_correct.mni done
- mri_add_xform_to_header -c /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/transforms/talairach.xfm nu.mgz nu.mgz
- INFO: extension is mgz
- #--------------------------------------------
- #@# Intensity Normalization Sat Oct 7 16:34:42 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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
- 1.06606 0.03765 0.00917 10.83012;
- -0.03083 0.95548 0.29125 1.84535;
- -0.02558 -0.24101 1.11999 -27.52129;
- 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 = 6
- Starting OpenSpline(): npoints = 6
- 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 90
- gm peak at 58 (58), valley at 43 (43)
- csf peak at 29, setting threshold to 48
- 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 89
- gm peak at 55 (55), valley at 25 (25)
- csf peak at 14, setting threshold to 41
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to T1.mgz
- 3D bias adjustment took 2 minutes and 6 seconds.
- #--------------------------------------------
- #@# Skull Stripping Sat Oct 7 16:36:48 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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=17.0
- skull bounding box = (48, 46, 26) --> (208, 193, 228)
- using (101, 95, 127) as brain centroid...
- mean wm in atlas = 108, using box (81,77,102) --> (120, 113,151) to find MRI wm
- before smoothing, mri peak at 106
- robust fit to distribution - 105 +- 13.1
- distribution too broad for accurate scaling - disabling
- after smoothing, mri peak at 108, scaling input intensities by 1.000
- scaling channel 0 by 1
- initial log_p = -4.474
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.474477 @ (0.000, 0.000, 0.000)
- max log p = -4.264393 @ (-4.545, -4.545, -13.636)
- max log p = -4.264393 @ (0.000, 0.000, 0.000)
- max log p = -4.251993 @ (1.136, -1.136, -1.136)
- max log p = -4.201511 @ (-1.705, 1.705, -3.977)
- max log p = -4.201511 @ (0.000, 0.000, 0.000)
- Found translation: (-5.1, -4.0, -18.8): log p = -4.202
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.994, old_max_log_p =-4.202 (thresh=-4.2)
- 1.06375 0.00000 0.00000 -13.40042;
- 0.00000 1.11081 0.29764 -51.26917;
- 0.00000 -0.27532 1.02750 17.92177;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.994, old_max_log_p =-3.994 (thresh=-4.0)
- 1.06375 0.00000 0.00000 -13.40042;
- 0.00000 1.11081 0.29764 -51.26917;
- 0.00000 -0.27532 1.02750 17.92177;
- 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=-3.901, old_max_log_p =-3.994 (thresh=-4.0)
- 1.04334 0.00515 -0.03461 -5.24322;
- -0.00266 1.18381 0.27400 -55.98196;
- 0.03779 -0.23433 1.01592 8.88465;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.901, old_max_log_p =-3.901 (thresh=-3.9)
- 1.04334 0.00515 -0.03461 -5.24322;
- -0.00266 1.18381 0.27400 -55.98196;
- 0.03779 -0.23433 1.01592 8.88465;
- 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=-3.875, old_max_log_p =-3.901 (thresh=-3.9)
- 1.04604 -0.00668 -0.02873 -4.70422;
- 0.00634 1.18322 0.28240 -58.12589;
- 0.02934 -0.24461 1.01627 11.81291;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.871, old_max_log_p =-3.875 (thresh=-3.9)
- 1.04359 -0.00667 -0.02867 -4.40052;
- 0.00633 1.18184 0.28207 -57.89116;
- 0.02934 -0.24461 1.01627 11.81291;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.869, old_max_log_p =-3.871 (thresh=-3.9)
- 1.04359 -0.00667 -0.02867 -4.40052;
- 0.00656 1.17841 0.29003 -57.99115;
- 0.02929 -0.25427 1.01393 13.45299;
- 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
- 1.04359 -0.00667 -0.02867 -4.40052;
- 0.00656 1.17841 0.29003 -57.99115;
- 0.02929 -0.25427 1.01393 13.45299;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 3243
- Quasinewton: input matrix
- 1.04359 -0.00667 -0.02867 -4.40052;
- 0.00656 1.17841 0.29003 -57.99115;
- 0.02929 -0.25427 1.01393 13.45299;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 009: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.04359 -0.00667 -0.02867 -4.40052;
- 0.00656 1.17841 0.29003 -57.99115;
- 0.02929 -0.25427 1.01393 13.45299;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.869 (old=-4.474)
- transform before final EM align:
- 1.04359 -0.00667 -0.02867 -4.40052;
- 0.00656 1.17841 0.29003 -57.99115;
- 0.02929 -0.25427 1.01393 13.45299;
- 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
- 1.04359 -0.00667 -0.02867 -4.40052;
- 0.00656 1.17841 0.29003 -57.99115;
- 0.02929 -0.25427 1.01393 13.45299;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 364799
- Quasinewton: input matrix
- 1.04359 -0.00667 -0.02867 -4.40052;
- 0.00656 1.17841 0.29003 -57.99115;
- 0.02929 -0.25427 1.01393 13.45299;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 011: -log(p) = 4.3 tol 0.000000
- final transform:
- 1.04359 -0.00667 -0.02867 -4.40052;
- 0.00656 1.17841 0.29003 -57.99115;
- 0.02929 -0.25427 1.01393 13.45299;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach_with_skull.lta...
- mri_em_register utimesec 1256.175032
- mri_em_register stimesec 1.586758
- 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 157598
- mri_em_register ru_majflt 0
- mri_em_register ru_nswap 0
- mri_em_register ru_inblock 0
- mri_em_register ru_oublock 24
- mri_em_register ru_msgsnd 0
- mri_em_register ru_msgrcv 0
- mri_em_register ru_nsignals 0
- mri_em_register ru_nvcsw 2347
- mri_em_register ru_nivcsw 7714
- registration took 10 minutes and 55 seconds.
- mri_watershed -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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=130 y=112 z=125 r=69
- first estimation of the main basin volume: 1404763 voxels
- Looking for seedpoints
- 2 found in the cerebellum
- 16 found in the rest of the brain
- global maximum in x=105, y=96, z=119, Imax=255
- CSF=15, 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=8543849093 voxels, voxel volume =1.000
- = 8543849093 mmm3 = 8543848.960 cm3
- done.
- PostAnalyze...Basin Prior
- 237 basins merged thanks to atlas
- ***** 0 basin(s) merged in 1 iteration(s)
- ***** 0 voxel(s) added to the main basin
- done.
- Weighting the input with prior template
- ****************TEMPLATE DEFORMATION****************
- second estimation of the COG coord: x=128,y=121, z=116, r=10470 iterations
- ^^^^^^^^ couldn't find WM with original limits - expanding ^^^^^^
- GLOBAL CSF_MIN=0, CSF_intensity=9, CSF_MAX=50 , nb = 43856
- RIGHT_CER CSF_MIN=0, CSF_intensity=9, CSF_MAX=47 , nb = -1038944217
- LEFT_CER CSF_MIN=0, CSF_intensity=9, CSF_MAX=44 , nb = -1039104202
- RIGHT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=48 , nb = -1056263196
- LEFT_BRAIN CSF_MIN=0, CSF_intensity=9, CSF_MAX=52 , nb = 1060165302
- OTHER CSF_MIN=0, CSF_intensity=23, CSF_MAX=55 , nb = 1077832686
-
- CSF_MAX TRANSITION GM_MIN GM
- GLOBAL
- before analyzing : 50, 33, 21, 50
- after analyzing : 26, 33, 33, 37
- RIGHT_CER
- before analyzing : 47, 32, 21, 50
- after analyzing : 26, 32, 32, 36
- LEFT_CER
- before analyzing : 44, 31, 21, 50
- after analyzing : 25, 31, 31, 35
- RIGHT_BRAIN
- before analyzing : 48, 32, 21, 51
- after analyzing : 26, 32, 32, 36
- LEFT_BRAIN
- before analyzing : 52, 33, 23, 49
- after analyzing : 26, 33, 33, 37
- OTHER
- before analyzing : 55, 37, 21, 50
- after analyzing : 32, 37, 37, 40
- mri_strip_skull: done peeling brain
- highly tesselated surface with 10242 vertices
- matching...64 iterations
- *********************VALIDATION*********************
- curvature mean = -0.013, std = 0.011
- curvature mean = 69.921, std = 8.370
- No Rigid alignment: -atlas Mode Off (basic atlas / no registration)
- before rotation: sse = 3.01, sigma = 4.34
- after rotation: sse = 3.01, sigma = 4.34
- Localization of inacurate regions: Erosion-Dilation steps
- the sse mean is 3.12, its var is 3.99
- before Erosion-Dilatation 0.31% of inacurate vertices
- after Erosion-Dilatation 0.00% of inacurate vertices
- Validation of the shape of the surface done.
- Scaling of atlas fields onto current surface fields
- ********FINAL ITERATIVE TEMPLATE DEFORMATION********
- Compute Local values csf/gray
- Fine Segmentation...30 iterations
- mri_strip_skull: done peeling brain
- Brain Size = 1615982 voxels, voxel volume = 1.000 mm3
- = 1615982 mmm3 = 1615.982 cm3
- ******************************
- Saving brainmask.auto.mgz
- done
- mri_watershed utimesec 22.542573
- mri_watershed stimesec 0.361944
- mri_watershed ru_maxrss 820348
- mri_watershed ru_ixrss 0
- mri_watershed ru_idrss 0
- mri_watershed ru_isrss 0
- mri_watershed ru_minflt 212414
- mri_watershed ru_majflt 2
- mri_watershed ru_nswap 0
- mri_watershed ru_inblock 12640
- mri_watershed ru_oublock 2864
- mri_watershed ru_msgsnd 0
- mri_watershed ru_msgrcv 0
- mri_watershed ru_nsignals 0
- mri_watershed ru_nvcsw 1114
- mri_watershed ru_nivcsw 919
- mri_watershed done
- cp brainmask.auto.mgz brainmask.mgz
- #-------------------------------------
- #@# EM Registration Sat Oct 7 16:48:07 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri
- mri_em_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/touch/rusage.mri_em_register.dat -uns 3 -mask brainmask.mgz nu.mgz /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca transforms/talairach.lta
- setting unknown_nbr_spacing = 3
- using MR volume brainmask.mgz to mask input volume...
- == Number of threads available to mri_em_register for OpenMP = 2 ==
- reading 1 input volumes...
- logging results to talairach.log
- reading '/pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca'...
- average std = 7.3 using min determinant for regularization = 5.3
- 0 singular and 841 ill-conditioned covariance matrices regularized
- reading 'nu.mgz'...
- freeing gibbs priors...done.
- accounting for voxel sizes in initial transform
- bounding unknown intensity as < 6.3 or > 503.7
- total sample mean = 78.8 (1011 zeros)
- ************************************************
- spacing=8, using 2830 sample points, tol=1.00e-05...
- ************************************************
- register_mri: find_optimal_transform
- find_optimal_transform: nsamples 2830, passno 0, spacing 8
- resetting wm mean[0]: 98 --> 107
- resetting gm mean[0]: 61 --> 61
- input volume #1 is the most T1-like
- using real data threshold=22.0
- skull bounding box = (56, 63, 42) --> (199, 187, 216)
- using (104, 104, 129) as brain centroid...
- mean wm in atlas = 107, using box (86,89,108) --> (121, 119,150) to find MRI wm
- before smoothing, mri peak at 108
- robust fit to distribution - 105 +- 11.8
- distribution too broad for accurate scaling - disabling
- after smoothing, mri peak at 107, scaling input intensities by 1.000
- scaling channel 0 by 1
- initial log_p = -4.304
- ************************************************
- First Search limited to translation only.
- ************************************************
- max log p = -4.212747 @ (-9.091, -9.091, -9.091)
- max log p = -3.981273 @ (4.545, 4.545, -4.545)
- max log p = -3.903367 @ (2.273, 2.273, -2.273)
- max log p = -3.903367 @ (0.000, 0.000, 0.000)
- max log p = -3.879127 @ (0.568, 2.841, 2.841)
- max log p = -3.879127 @ (0.000, 0.000, 0.000)
- Found translation: (-1.7, 0.6, -13.1): log p = -3.879
- ****************************************
- Nine parameter search. iteration 0 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.725, old_max_log_p =-3.879 (thresh=-3.9)
- 1.00000 0.00000 0.00000 -1.70455;
- 0.00000 1.11081 0.29764 -47.86224;
- 0.00000 -0.25882 0.96593 21.69751;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 1 nscales = 0 ...
- ****************************************
- Result so far: scale 1.000: max_log_p=-3.725, old_max_log_p =-3.725 (thresh=-3.7)
- 1.00000 0.00000 0.00000 -1.70455;
- 0.00000 1.11081 0.29764 -47.86224;
- 0.00000 -0.25882 0.96593 21.69751;
- 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=-3.585, old_max_log_p =-3.725 (thresh=-3.7)
- 1.01734 0.00419 -0.03569 -0.19136;
- 0.00404 1.13178 0.29815 -52.72718;
- 0.02945 -0.25930 0.94563 22.50247;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 3 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.578, old_max_log_p =-3.585 (thresh=-3.6)
- 1.01583 0.01267 -0.06661 2.59038;
- 0.00404 1.13178 0.29815 -52.72718;
- 0.06155 -0.25417 0.92625 20.02610;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 4 nscales = 1 ...
- ****************************************
- Result so far: scale 0.250: max_log_p=-3.578, old_max_log_p =-3.578 (thresh=-3.6)
- 1.01583 0.01267 -0.06661 2.59038;
- 0.00404 1.13178 0.29815 -52.72718;
- 0.06155 -0.25417 0.92625 20.02610;
- 0.00000 0.00000 0.00000 1.00000;
- reducing scale to 0.0625
- ****************************************
- Nine parameter search. iteration 5 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.544, old_max_log_p =-3.578 (thresh=-3.6)
- 1.01630 0.01054 -0.05903 1.43200;
- 0.00398 1.12784 0.29698 -52.10687;
- 0.05344 -0.25501 0.93007 20.25334;
- 0.00000 0.00000 0.00000 1.00000;
- ****************************************
- Nine parameter search. iteration 6 nscales = 2 ...
- ****************************************
- Result so far: scale 0.062: max_log_p=-3.542, old_max_log_p =-3.544 (thresh=-3.5)
- 1.01749 0.01056 -0.05910 1.28517;
- 0.00398 1.12784 0.29698 -52.10687;
- 0.05350 -0.25530 0.93116 20.15351;
- 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
- 1.01749 0.01056 -0.05910 1.28517;
- 0.00398 1.12784 0.29698 -52.10687;
- 0.05350 -0.25530 0.93116 20.15351;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 2830
- Quasinewton: input matrix
- 1.01749 0.01056 -0.05910 1.28517;
- 0.00398 1.12784 0.29698 -52.10687;
- 0.05350 -0.25530 0.93116 20.15351;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 009: -log(p) = -0.0 tol 0.000010
- Resulting transform:
- 1.01749 0.01056 -0.05910 1.28517;
- 0.00398 1.12784 0.29698 -52.10687;
- 0.05350 -0.25530 0.93116 20.15351;
- 0.00000 0.00000 0.00000 1.00000;
- pass 1, spacing 8: log(p) = -3.542 (old=-4.304)
- transform before final EM align:
- 1.01749 0.01056 -0.05910 1.28517;
- 0.00398 1.12784 0.29698 -52.10687;
- 0.05350 -0.25530 0.93116 20.15351;
- 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
- 1.01749 0.01056 -0.05910 1.28517;
- 0.00398 1.12784 0.29698 -52.10687;
- 0.05350 -0.25530 0.93116 20.15351;
- 0.00000 0.00000 0.00000 1.00000;
- nsamples 315557
- Quasinewton: input matrix
- 1.01749 0.01056 -0.05910 1.28517;
- 0.00398 1.12784 0.29698 -52.10687;
- 0.05350 -0.25530 0.93116 20.15351;
- 0.00000 0.00000 0.00000 1.00000;
- outof QuasiNewtonEMA: 011: -log(p) = 4.0 tol 0.000000
- final transform:
- 1.01749 0.01056 -0.05910 1.28517;
- 0.00398 1.12784 0.29698 -52.10687;
- 0.05350 -0.25530 0.93116 20.15351;
- 0.00000 0.00000 0.00000 1.00000;
- writing output transformation to transforms/talairach.lta...
- mri_em_register utimesec 1169.888149
- mri_em_register stimesec 1.654748
- 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 158949
- mri_em_register ru_majflt 0
- mri_em_register ru_nswap 0
- mri_em_register ru_inblock 0
- mri_em_register ru_oublock 24
- mri_em_register ru_msgsnd 0
- mri_em_register ru_msgrcv 0
- mri_em_register ru_nsignals 0
- mri_em_register ru_nvcsw 13268
- mri_em_register ru_nivcsw 4370
- registration took 10 minutes and 17 seconds.
- #--------------------------------------
- #@# CA Normalize Sat Oct 7 16:58:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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=22.0
- skull bounding box = (56, 63, 42) --> (199, 187, 216)
- using (104, 104, 129) as brain centroid...
- mean wm in atlas = 107, using box (86,89,108) --> (121, 119,150) to find MRI wm
- before smoothing, mri peak at 108
- robust fit to distribution - 105 +- 11.8
- distribution too broad for accurate scaling - disabling
- after smoothing, mri peak at 107, scaling input intensities by 1.000
- scaling channel 0 by 1
- using 246344 sample points...
- INFO: compute sample coordinates transform
- 1.01749 0.01056 -0.05910 1.28517;
- 0.00398 1.12784 0.29698 -52.10687;
- 0.05350 -0.25530 0.93116 20.15351;
- 0.00000 0.00000 0.00000 1.00000;
- INFO: transform used
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (123, 63, 39) --> (193, 167, 208)
- Left_Cerebral_White_Matter: limiting intensities to 92.0 --> 132.0
- 0 of 16 (0.0%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (65, 62, 39) --> (132, 159, 209)
- Right_Cerebral_White_Matter: limiting intensities to 108.0 --> 132.0
- 11 of 14 (78.6%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (128, 144, 68) --> (176, 182, 124)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 7 of 8 (87.5%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (83, 144, 67) --> (127, 180, 126)
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (112, 130, 105) --> (146, 191, 136)
- Brain_Stem: limiting intensities to 103.0 --> 132.0
- 8 of 9 (88.9%) samples deleted
- using 47 total control points for intensity normalization...
- bias field = 0.983 +- 0.065
- 0 of 21 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (123, 63, 39) --> (193, 167, 208)
- Left_Cerebral_White_Matter: limiting intensities to 120.0 --> 132.0
- 75 of 83 (90.4%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (65, 62, 39) --> (132, 159, 209)
- Right_Cerebral_White_Matter: limiting intensities to 113.0 --> 132.0
- 49 of 80 (61.2%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (128, 144, 68) --> (176, 182, 124)
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (83, 144, 67) --> (127, 180, 126)
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (112, 130, 105) --> (146, 191, 136)
- Brain_Stem: limiting intensities to 109.0 --> 132.0
- 38 of 41 (92.7%) samples deleted
- using 204 total control points for intensity normalization...
- bias field = 0.876 +- 0.050
- 0 of 42 control points discarded
- finding control points in Left_Cerebral_White_Matter....
- found 39915 control points for structure...
- bounding box (123, 63, 39) --> (193, 167, 208)
- Left_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 24 of 183 (13.1%) samples deleted
- finding control points in Right_Cerebral_White_Matter....
- found 39557 control points for structure...
- bounding box (65, 62, 39) --> (132, 159, 209)
- Right_Cerebral_White_Matter: limiting intensities to 88.0 --> 132.0
- 36 of 182 (19.8%) samples deleted
- finding control points in Left_Cerebellum_White_Matter....
- found 3059 control points for structure...
- bounding box (128, 144, 68) --> (176, 182, 124)
- Left_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 11 of 11 (100.0%) samples deleted
- finding control points in Right_Cerebellum_White_Matter....
- found 2705 control points for structure...
- bounding box (83, 144, 67) --> (127, 180, 126)
- Right_Cerebellum_White_Matter: limiting intensities to 88.0 --> 132.0
- 9 of 9 (100.0%) samples deleted
- finding control points in Brain_Stem....
- found 3518 control points for structure...
- bounding box (112, 130, 105) --> (146, 191, 136)
- Brain_Stem: limiting intensities to 88.0 --> 132.0
- 58 of 61 (95.1%) samples deleted
- using 446 total control points for intensity normalization...
- bias field = 1.072 +- 0.075
- 0 of 303 control points discarded
- writing normalized volume to norm.mgz...
- writing control points to ctrl_pts.mgz
- freeing GCA...done.
- normalization took 1 minutes and 49 seconds.
- #--------------------------------------
- #@# CA Reg Sat Oct 7 17:00:14 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri
- mri_ca_register -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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) = 1.15 (predicted orig area = 7.0)
- label assignment complete, 0 changed (0.00%)
- freeing gibbs priors...done.
- average std[0] = 5.0
- **************** pass 1 of 1 ************************
- enabling zero nodes
- setting smoothness coefficient to 0.039
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.877, neg=0, invalid=762
- 0001: dt=223.019973, rms=0.809 (7.812%), neg=0, invalid=762
- 0002: dt=228.155844, rms=0.794 (1.855%), neg=0, invalid=762
- 0003: dt=168.106667, rms=0.784 (1.174%), neg=0, invalid=762
- 0004: dt=295.936000, rms=0.778 (0.794%), neg=0, invalid=762
- 0005: dt=156.190476, rms=0.773 (0.635%), neg=0, invalid=762
- 0006: dt=369.920000, rms=0.769 (0.529%), neg=0, invalid=762
- 0007: dt=137.513514, rms=0.765 (0.454%), neg=0, invalid=762
- 0008: dt=517.888000, rms=0.762 (0.481%), neg=0, invalid=762
- 0009: dt=129.472000, rms=0.759 (0.367%), neg=0, invalid=762
- 0010: dt=517.888000, rms=0.756 (0.371%), neg=0, invalid=762
- 0011: dt=129.472000, rms=0.755 (0.210%), neg=0, invalid=762
- 0012: dt=129.472000, rms=0.754 (0.101%), neg=0, invalid=762
- 0013: dt=129.472000, rms=0.753 (0.174%), neg=0, invalid=762
- 0014: dt=129.472000, rms=0.751 (0.243%), neg=0, invalid=762
- 0015: dt=129.472000, rms=0.749 (0.283%), neg=0, invalid=762
- 0016: dt=129.472000, rms=0.746 (0.300%), neg=0, invalid=762
- 0017: dt=129.472000, rms=0.744 (0.310%), neg=0, invalid=762
- 0018: dt=129.472000, rms=0.742 (0.295%), neg=0, invalid=762
- 0019: dt=129.472000, rms=0.740 (0.264%), neg=0, invalid=762
- 0020: dt=129.472000, rms=0.738 (0.217%), neg=0, invalid=762
- 0021: dt=129.472000, rms=0.737 (0.184%), neg=0, invalid=762
- 0022: dt=129.472000, rms=0.736 (0.181%), neg=0, invalid=762
- 0023: dt=129.472000, rms=0.734 (0.187%), neg=0, invalid=762
- 0024: dt=129.472000, rms=0.733 (0.184%), neg=0, invalid=762
- 0025: dt=129.472000, rms=0.731 (0.181%), neg=0, invalid=762
- 0026: dt=129.472000, rms=0.730 (0.159%), neg=0, invalid=762
- 0027: dt=129.472000, rms=0.729 (0.158%), neg=0, invalid=762
- 0028: dt=129.472000, rms=0.728 (0.164%), neg=0, invalid=762
- 0029: dt=129.472000, rms=0.727 (0.141%), neg=0, invalid=762
- 0030: dt=129.472000, rms=0.726 (0.133%), neg=0, invalid=762
- 0031: dt=129.472000, rms=0.725 (0.120%), neg=0, invalid=762
- 0032: dt=129.472000, rms=0.724 (0.114%), neg=0, invalid=762
- 0033: dt=517.888000, rms=0.724 (0.079%), neg=0, invalid=762
- 0034: dt=517.888000, rms=0.724 (-0.140%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.725, neg=0, invalid=762
- 0035: dt=221.952000, rms=0.723 (0.308%), neg=0, invalid=762
- 0036: dt=369.920000, rms=0.722 (0.091%), neg=0, invalid=762
- 0037: dt=369.920000, rms=0.722 (0.057%), neg=0, invalid=762
- 0038: dt=369.920000, rms=0.721 (0.142%), neg=0, invalid=762
- 0039: dt=369.920000, rms=0.720 (0.074%), neg=0, invalid=762
- 0040: dt=369.920000, rms=0.719 (0.129%), neg=0, invalid=762
- 0041: dt=369.920000, rms=0.718 (0.118%), neg=0, invalid=762
- 0042: dt=369.920000, rms=0.718 (0.042%), neg=0, invalid=762
- 0043: dt=129.472000, rms=0.718 (0.042%), neg=0, invalid=762
- 0044: dt=129.472000, rms=0.718 (0.011%), neg=0, invalid=762
- 0045: dt=129.472000, rms=0.718 (0.016%), neg=0, invalid=762
- 0046: dt=129.472000, rms=0.717 (0.023%), neg=0, invalid=762
- 0047: dt=129.472000, rms=0.717 (0.024%), neg=0, invalid=762
- 0048: dt=129.472000, rms=0.717 (0.029%), neg=0, invalid=762
- 0049: dt=129.472000, rms=0.717 (0.017%), neg=0, invalid=762
- 0050: dt=129.472000, rms=0.717 (0.022%), neg=0, invalid=762
- 0051: dt=129.472000, rms=0.717 (0.017%), neg=0, invalid=762
- setting smoothness coefficient to 0.154
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.724, neg=0, invalid=762
- 0052: dt=200.373832, rms=0.715 (1.273%), neg=0, invalid=762
- 0053: dt=182.582583, rms=0.705 (1.423%), neg=0, invalid=762
- 0054: dt=73.076364, rms=0.700 (0.657%), neg=0, invalid=762
- 0055: dt=248.832000, rms=0.695 (0.674%), neg=0, invalid=762
- 0056: dt=65.607306, rms=0.691 (0.627%), neg=0, invalid=762
- 0057: dt=145.152000, rms=0.689 (0.333%), neg=0, invalid=762
- 0058: dt=78.147368, rms=0.686 (0.358%), neg=0, invalid=762
- 0059: dt=87.317829, rms=0.685 (0.163%), neg=0, invalid=762
- 0060: dt=87.317829, rms=0.683 (0.280%), neg=0, invalid=762
- 0061: dt=87.317829, rms=0.681 (0.360%), neg=0, invalid=762
- 0062: dt=87.317829, rms=0.678 (0.448%), neg=0, invalid=762
- 0063: dt=87.317829, rms=0.674 (0.511%), neg=0, invalid=762
- 0064: dt=87.317829, rms=0.670 (0.610%), neg=0, invalid=762
- 0065: dt=87.317829, rms=0.667 (0.508%), neg=0, invalid=762
- 0066: dt=87.317829, rms=0.664 (0.391%), neg=0, invalid=762
- 0067: dt=87.317829, rms=0.662 (0.373%), neg=0, invalid=762
- 0068: dt=87.317829, rms=0.659 (0.379%), neg=0, invalid=762
- 0069: dt=87.317829, rms=0.657 (0.288%), neg=0, invalid=762
- 0070: dt=87.317829, rms=0.656 (0.199%), neg=0, invalid=762
- 0071: dt=87.317829, rms=0.655 (0.194%), neg=0, invalid=762
- 0072: dt=87.317829, rms=0.653 (0.189%), neg=0, invalid=762
- 0073: dt=87.317829, rms=0.653 (0.117%), neg=0, invalid=762
- 0074: dt=87.317829, rms=0.652 (0.085%), neg=0, invalid=762
- 0075: dt=124.416000, rms=0.652 (0.093%), neg=0, invalid=762
- 0076: dt=20.736000, rms=0.651 (0.013%), neg=0, invalid=762
- 0077: dt=20.736000, rms=0.652 (-0.005%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.653, neg=0, invalid=762
- 0078: dt=36.288000, rms=0.651 (0.291%), neg=0, invalid=762
- 0079: dt=36.288000, rms=0.651 (0.023%), neg=0, invalid=762
- 0080: dt=36.288000, rms=0.651 (0.006%), neg=0, invalid=762
- 0081: dt=36.288000, rms=0.651 (-0.006%), neg=0, invalid=762
- setting smoothness coefficient to 0.588
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.684, neg=0, invalid=762
- 0082: dt=6.400000, rms=0.682 (0.281%), neg=0, invalid=762
- 0083: dt=2.000000, rms=0.682 (0.004%), neg=0, invalid=762
- 0084: dt=2.000000, rms=0.682 (0.004%), neg=0, invalid=762
- 0085: dt=2.000000, rms=0.682 (-0.018%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.683, neg=0, invalid=762
- 0086: dt=0.000000, rms=0.682 (0.211%), neg=0, invalid=762
- 0087: dt=0.000000, rms=0.682 (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=0.765, neg=0, invalid=762
- 0088: dt=6.255319, rms=0.739 (3.374%), neg=0, invalid=762
- 0089: dt=5.200000, rms=0.736 (0.345%), neg=0, invalid=762
- 0090: dt=3.456000, rms=0.736 (0.041%), neg=0, invalid=762
- 0091: dt=3.456000, rms=0.736 (0.015%), neg=0, invalid=762
- 0092: dt=3.456000, rms=0.736 (-0.103%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.737, neg=0, invalid=762
- 0093: dt=0.000000, rms=0.736 (0.164%), neg=0, invalid=762
- 0094: dt=0.000000, rms=0.736 (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=0.792, neg=0, invalid=762
- 0095: dt=0.000000, rms=0.791 (0.142%), neg=0, invalid=762
- 0096: dt=0.000000, rms=0.791 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.792, neg=0, invalid=762
- 0097: dt=0.112000, rms=0.790 (0.151%), neg=0, invalid=762
- 0098: dt=0.112000, rms=0.790 (0.002%), neg=0, invalid=762
- 0099: dt=0.112000, rms=0.790 (0.003%), neg=0, invalid=762
- 0100: dt=0.112000, rms=0.790 (-0.010%), 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=0.704, neg=0, invalid=762
- 0101: dt=0.842030, rms=0.684 (2.793%), neg=0, invalid=762
- 0102: dt=0.080000, rms=0.683 (0.136%), neg=0, invalid=762
- 0103: dt=0.080000, rms=0.683 (-0.083%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.684, neg=0, invalid=762
- 0104: dt=0.028000, rms=0.683 (0.205%), neg=0, invalid=762
- 0105: dt=0.016000, rms=0.683 (0.002%), neg=0, invalid=762
- 0106: dt=0.016000, rms=0.683 (-0.004%), neg=0, invalid=762
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.10027 (20)
- mri peak = 0.06531 (55)
- Left_Lateral_Ventricle (4): linear fit = 2.60 x + 0.0 (628 voxels, overlap=0.005)
- Left_Lateral_Ventricle (4): linear fit = 1.50 x + 0.0 (628 voxels, peak = 52), gca=30.0
- gca peak = 0.15565 (16)
- mri peak = 0.05468 (10)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (612 voxels, overlap=0.589)
- Right_Lateral_Ventricle (43): linear fit = 1.03 x + 0.0 (612 voxels, peak = 17), gca=16.6
- gca peak = 0.26829 (96)
- mri peak = 0.15773 (75)
- Right_Pallidum (52): linear fit = 0.80 x + 0.0 (819 voxels, overlap=0.023)
- Right_Pallidum (52): linear fit = 0.80 x + 0.0 (819 voxels, peak = 76), gca=76.3
- gca peak = 0.20183 (93)
- mri peak = 0.12536 (80)
- Left_Pallidum (13): linear fit = 0.85 x + 0.0 (678 voxels, overlap=0.029)
- Left_Pallidum (13): linear fit = 0.85 x + 0.0 (678 voxels, peak = 79), gca=78.6
- gca peak = 0.21683 (55)
- mri peak = 0.08081 (53)
- Right_Hippocampus (53): linear fit = 0.94 x + 0.0 (312 voxels, overlap=0.862)
- Right_Hippocampus (53): linear fit = 0.94 x + 0.0 (312 voxels, peak = 52), gca=52.0
- gca peak = 0.30730 (58)
- mri peak = 0.09426 (51)
- Left_Hippocampus (17): linear fit = 0.92 x + 0.0 (332 voxels, overlap=0.661)
- Left_Hippocampus (17): linear fit = 0.92 x + 0.0 (332 voxels, peak = 53), gca=53.1
- gca peak = 0.11430 (101)
- mri peak = 0.05330 (98)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (52250 voxels, overlap=0.977)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (52250 voxels, peak = 102), gca=101.5
- gca peak = 0.12076 (102)
- mri peak = 0.04863 (101)
- Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (49871 voxels, overlap=0.978)
- Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (49871 voxels, peak = 104), gca=103.5
- gca peak = 0.14995 (59)
- mri peak = 0.03623 (51)
- Left_Cerebral_Cortex (3): linear fit = 0.89 x + 0.0 (13542 voxels, overlap=0.434)
- Left_Cerebral_Cortex (3): linear fit = 0.89 x + 0.0 (13542 voxels, peak = 53), gca=52.8
- gca peak = 0.15082 (58)
- mri peak = 0.03666 (46)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (16248 voxels, overlap=0.755)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (16248 voxels, peak = 52), gca=51.9
- gca peak = 0.14161 (67)
- mri peak = 0.10063 (53)
- Right_Caudate (50): linear fit = 0.80 x + 0.0 (654 voxels, overlap=0.038)
- Right_Caudate (50): linear fit = 0.80 x + 0.0 (654 voxels, peak = 53), gca=53.3
- gca peak = 0.15243 (71)
- mri peak = 0.05525 (63)
- Left_Caudate (11): linear fit = 0.86 x + 0.0 (936 voxels, overlap=0.279)
- Left_Caudate (11): linear fit = 0.86 x + 0.0 (936 voxels, peak = 61), gca=60.7
- gca peak = 0.13336 (57)
- mri peak = 0.03524 (47)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (12624 voxels, overlap=0.912)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (12624 voxels, peak = 54), gca=53.9
- gca peak = 0.13252 (56)
- mri peak = 0.03549 (53)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (13914 voxels, overlap=0.905)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (13914 voxels, peak = 53), gca=52.9
- gca peak = 0.18181 (84)
- mri peak = 0.03432 (80)
- Left_Cerebellum_White_Matter (7): linear fit = 0.93 x + 0.0 (4698 voxels, overlap=0.473)
- Left_Cerebellum_White_Matter (7): linear fit = 0.93 x + 0.0 (4698 voxels, peak = 78), gca=77.7
- gca peak = 0.20573 (83)
- mri peak = 0.03744 (80)
- Right_Cerebellum_White_Matter (46): linear fit = 0.98 x + 0.0 (3666 voxels, overlap=0.986)
- Right_Cerebellum_White_Matter (46): linear fit = 0.98 x + 0.0 (3666 voxels, peak = 81), gca=80.9
- gca peak = 0.21969 (57)
- mri peak = 0.07488 (50)
- Left_Amygdala (18): linear fit = 0.89 x + 0.0 (139 voxels, overlap=0.771)
- Left_Amygdala (18): linear fit = 0.89 x + 0.0 (139 voxels, peak = 51), gca=51.0
- gca peak = 0.39313 (56)
- mri peak = 0.11765 (53)
- Right_Amygdala (54): linear fit = 0.94 x + 0.0 (106 voxels, overlap=0.913)
- Right_Amygdala (54): linear fit = 0.94 x + 0.0 (106 voxels, peak = 52), gca=52.4
- gca peak = 0.14181 (85)
- mri peak = 0.10199 (75)
- Left_Thalamus_Proper (10): linear fit = 0.89 x + 0.0 (5458 voxels, overlap=0.756)
- Left_Thalamus_Proper (10): linear fit = 0.89 x + 0.0 (5458 voxels, peak = 76), gca=76.1
- gca peak = 0.11978 (83)
- mri peak = 0.14411 (75)
- Right_Thalamus_Proper (49): linear fit = 0.95 x + 0.0 (4433 voxels, overlap=0.787)
- Right_Thalamus_Proper (49): linear fit = 0.95 x + 0.0 (4433 voxels, peak = 79), gca=79.3
- gca peak = 0.13399 (79)
- mri peak = 0.05287 (76)
- Left_Putamen (12): linear fit = 0.94 x + 0.0 (2068 voxels, overlap=0.945)
- Left_Putamen (12): linear fit = 0.94 x + 0.0 (2068 voxels, peak = 75), gca=74.7
- gca peak = 0.14159 (79)
- mri peak = 0.08464 (63)
- Right_Putamen (51): linear fit = 0.82 x + 0.0 (2377 voxels, overlap=0.348)
- Right_Putamen (51): linear fit = 0.82 x + 0.0 (2377 voxels, peak = 65), gca=65.2
- gca peak = 0.10025 (80)
- mri peak = 0.11595 (80)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (6270 voxels, overlap=0.401)
- Brain_Stem (16): linear fit = 1.07 x + 0.0 (6270 voxels, peak = 85), gca=85.2
- gca peak = 0.13281 (86)
- mri peak = 0.11982 (80)
- Right_VentralDC (60): linear fit = 1.02 x + 0.0 (645 voxels, overlap=0.614)
- Right_VentralDC (60): linear fit = 1.02 x + 0.0 (645 voxels, peak = 88), gca=88.2
- gca peak = 0.12801 (89)
- mri peak = 0.11842 (80)
- Left_VentralDC (28): linear fit = 0.93 x + 0.0 (879 voxels, overlap=0.817)
- Left_VentralDC (28): linear fit = 0.93 x + 0.0 (879 voxels, peak = 82), gca=82.3
- gca peak = 0.20494 (23)
- mri peak = 0.04285 (10)
- gca peak = 0.15061 (21)
- mri peak = 0.07369 (12)
- Fourth_Ventricle (15): linear fit = 0.62 x + 0.0 (279 voxels, overlap=0.345)
- Fourth_Ventricle (15): linear fit = 0.62 x + 0.0 (279 voxels, peak = 13), gca=13.1
- 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 0.91 x + 0.0
- estimating mean wm scale to be 1.01 x + 0.0
- estimating mean csf scale to be 1.27 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=0.682, neg=0, invalid=762
- 0107: dt=144.888889, rms=0.677 (0.703%), neg=0, invalid=762
- 0108: dt=369.920000, rms=0.674 (0.448%), neg=0, invalid=762
- 0109: dt=110.976000, rms=0.673 (0.148%), neg=0, invalid=762
- 0110: dt=129.472000, rms=0.672 (0.086%), neg=0, invalid=762
- 0111: dt=443.904000, rms=0.671 (0.163%), neg=0, invalid=762
- 0112: dt=73.984000, rms=0.671 (0.089%), neg=0, invalid=762
- 0113: dt=1183.744000, rms=0.669 (0.200%), neg=0, invalid=762
- 0114: dt=92.480000, rms=0.668 (0.133%), neg=0, invalid=762
- 0115: dt=295.936000, rms=0.668 (0.028%), neg=0, invalid=762
- 0116: dt=295.936000, rms=0.668 (0.006%), neg=0, invalid=762
- 0117: dt=295.936000, rms=0.668 (-0.121%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.670, neg=0, invalid=762
- 0118: dt=129.472000, rms=0.667 (0.408%), neg=0, invalid=762
- 0119: dt=129.472000, rms=0.666 (0.051%), neg=0, invalid=762
- 0120: dt=517.888000, rms=0.666 (0.108%), neg=0, invalid=762
- 0121: dt=129.472000, rms=0.665 (0.038%), neg=0, invalid=762
- 0122: dt=129.472000, rms=0.665 (0.022%), neg=0, invalid=762
- 0123: dt=129.472000, rms=0.665 (0.036%), neg=0, invalid=762
- 0124: dt=129.472000, rms=0.665 (0.050%), neg=0, invalid=762
- 0125: dt=129.472000, rms=0.664 (0.049%), neg=0, invalid=762
- 0126: dt=129.472000, rms=0.664 (0.052%), neg=0, invalid=762
- 0127: dt=129.472000, rms=0.664 (0.057%), neg=0, invalid=762
- 0128: dt=129.472000, rms=0.663 (0.060%), neg=0, invalid=762
- 0129: dt=129.472000, rms=0.663 (0.060%), neg=0, invalid=762
- 0130: dt=129.472000, rms=0.663 (0.061%), neg=0, invalid=762
- 0131: dt=129.472000, rms=0.662 (0.062%), neg=0, invalid=762
- 0132: dt=129.472000, rms=0.662 (0.069%), neg=0, invalid=762
- 0133: dt=129.472000, rms=0.661 (0.068%), neg=0, invalid=762
- 0134: dt=129.472000, rms=0.661 (0.065%), neg=0, invalid=762
- 0135: dt=129.472000, rms=0.660 (0.052%), neg=0, invalid=762
- 0136: dt=129.472000, rms=0.660 (0.055%), neg=0, invalid=762
- 0137: dt=129.472000, rms=0.660 (0.052%), neg=0, invalid=762
- 0138: dt=129.472000, rms=0.659 (0.054%), neg=0, invalid=762
- 0139: dt=129.472000, rms=0.659 (0.051%), neg=0, invalid=762
- 0140: dt=129.472000, rms=0.659 (0.042%), neg=0, invalid=762
- 0141: dt=129.472000, rms=0.658 (0.043%), neg=0, invalid=762
- 0142: dt=129.472000, rms=0.658 (0.041%), neg=0, invalid=762
- 0143: dt=129.472000, rms=0.658 (0.033%), neg=0, invalid=762
- 0144: dt=129.472000, rms=0.658 (0.034%), neg=0, invalid=762
- 0145: dt=129.472000, rms=0.658 (0.037%), neg=0, invalid=762
- 0146: dt=129.472000, rms=0.657 (0.038%), neg=0, invalid=762
- 0147: dt=129.472000, rms=0.657 (0.037%), neg=0, invalid=762
- 0148: dt=129.472000, rms=0.657 (0.033%), neg=0, invalid=762
- 0149: dt=129.472000, rms=0.657 (0.031%), neg=0, invalid=762
- 0150: dt=129.472000, rms=0.656 (0.029%), neg=0, invalid=762
- 0151: dt=129.472000, rms=0.656 (0.025%), neg=0, invalid=762
- 0152: dt=129.472000, rms=0.656 (0.025%), neg=0, invalid=762
- 0153: dt=129.472000, rms=0.656 (0.026%), neg=0, invalid=762
- 0154: dt=129.472000, rms=0.656 (0.021%), neg=0, invalid=762
- 0155: dt=129.472000, rms=0.656 (0.023%), neg=0, invalid=762
- 0156: dt=129.472000, rms=0.655 (0.020%), neg=0, invalid=762
- 0157: dt=517.888000, rms=0.655 (0.012%), neg=0, invalid=762
- 0158: dt=517.888000, rms=0.655 (-0.086%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.657, neg=0, invalid=762
- 0159: dt=117.800797, rms=0.652 (0.713%), neg=0, invalid=762
- 0160: dt=145.152000, rms=0.647 (0.852%), neg=0, invalid=762
- 0161: dt=103.680000, rms=0.645 (0.314%), neg=0, invalid=762
- 0162: dt=124.416000, rms=0.642 (0.401%), neg=0, invalid=762
- 0163: dt=78.181818, rms=0.640 (0.337%), neg=0, invalid=762
- 0164: dt=89.239437, rms=0.639 (0.190%), neg=0, invalid=762
- 0165: dt=118.421769, rms=0.637 (0.310%), neg=0, invalid=762
- 0166: dt=36.288000, rms=0.636 (0.152%), neg=0, invalid=762
- 0167: dt=414.720000, rms=0.633 (0.457%), neg=0, invalid=762
- 0168: dt=36.288000, rms=0.630 (0.400%), neg=0, invalid=762
- 0169: dt=145.152000, rms=0.629 (0.215%), neg=0, invalid=762
- 0170: dt=36.288000, rms=0.629 (0.086%), neg=0, invalid=762
- 0171: dt=331.776000, rms=0.627 (0.226%), neg=0, invalid=762
- 0172: dt=65.574944, rms=0.625 (0.280%), neg=0, invalid=762
- 0173: dt=36.288000, rms=0.625 (0.038%), neg=0, invalid=762
- 0174: dt=36.288000, rms=0.625 (0.048%), neg=0, invalid=762
- 0175: dt=36.288000, rms=0.624 (0.066%), neg=0, invalid=762
- 0176: dt=0.567000, rms=0.624 (0.001%), neg=0, invalid=762
- 0177: dt=0.035437, rms=0.624 (0.000%), neg=0, invalid=762
- 0178: dt=0.030375, rms=0.624 (0.000%), neg=0, invalid=762
- 0179: dt=0.001898, rms=0.624 (0.000%), neg=0, invalid=762
- 0180: dt=0.000237, rms=0.624 (0.000%), neg=0, invalid=762
- 0181: dt=0.000059, rms=0.624 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.626, neg=0, invalid=762
- 0182: dt=122.947368, rms=0.622 (0.551%), neg=0, invalid=762
- 0183: dt=103.680000, rms=0.621 (0.191%), neg=0, invalid=762
- 0184: dt=90.000000, rms=0.620 (0.167%), neg=0, invalid=762
- 0185: dt=62.208000, rms=0.619 (0.084%), neg=0, invalid=762
- 0186: dt=331.776000, rms=0.618 (0.228%), neg=0, invalid=762
- 0187: dt=36.288000, rms=0.617 (0.165%), neg=0, invalid=762
- 0188: dt=103.680000, rms=0.617 (0.053%), neg=0, invalid=762
- 0189: dt=124.416000, rms=0.616 (0.122%), neg=0, invalid=762
- 0190: dt=36.288000, rms=0.616 (0.044%), neg=0, invalid=762
- 0191: dt=36.288000, rms=0.616 (0.029%), neg=0, invalid=762
- 0192: dt=36.288000, rms=0.615 (0.040%), neg=0, invalid=762
- 0193: dt=36.288000, rms=0.615 (0.066%), neg=0, invalid=762
- 0194: dt=36.288000, rms=0.614 (0.088%), neg=0, invalid=762
- 0195: dt=36.288000, rms=0.614 (0.108%), neg=0, invalid=762
- 0196: dt=36.288000, rms=0.613 (0.114%), neg=0, invalid=762
- 0197: dt=36.288000, rms=0.612 (0.116%), neg=0, invalid=762
- 0198: dt=36.288000, rms=0.612 (0.110%), neg=0, invalid=762
- 0199: dt=36.288000, rms=0.611 (0.116%), neg=0, invalid=762
- 0200: dt=36.288000, rms=0.610 (0.114%), neg=0, invalid=762
- 0201: dt=36.288000, rms=0.609 (0.113%), neg=0, invalid=762
- 0202: dt=36.288000, rms=0.609 (0.114%), neg=0, invalid=762
- 0203: dt=36.288000, rms=0.608 (0.118%), neg=0, invalid=762
- 0204: dt=36.288000, rms=0.607 (0.115%), neg=0, invalid=762
- 0205: dt=36.288000, rms=0.607 (0.109%), neg=0, invalid=762
- 0206: dt=36.288000, rms=0.606 (0.119%), neg=0, invalid=762
- 0207: dt=36.288000, rms=0.605 (0.102%), neg=0, invalid=762
- 0208: dt=36.288000, rms=0.605 (0.102%), neg=0, invalid=762
- 0209: dt=36.288000, rms=0.604 (0.092%), neg=0, invalid=762
- 0210: dt=36.288000, rms=0.604 (0.086%), neg=0, invalid=762
- 0211: dt=36.288000, rms=0.603 (0.089%), neg=0, invalid=762
- 0212: dt=36.288000, rms=0.603 (0.096%), neg=0, invalid=762
- 0213: dt=36.288000, rms=0.602 (0.093%), neg=0, invalid=762
- 0214: dt=36.288000, rms=0.601 (0.087%), neg=0, invalid=762
- 0215: dt=36.288000, rms=0.601 (0.084%), neg=0, invalid=762
- 0216: dt=36.288000, rms=0.600 (0.083%), neg=0, invalid=762
- 0217: dt=36.288000, rms=0.600 (0.073%), neg=0, invalid=762
- 0218: dt=36.288000, rms=0.600 (0.072%), neg=0, invalid=762
- 0219: dt=36.288000, rms=0.599 (0.069%), neg=0, invalid=762
- 0220: dt=36.288000, rms=0.599 (0.067%), neg=0, invalid=762
- 0221: dt=36.288000, rms=0.598 (0.075%), neg=0, invalid=762
- 0222: dt=36.288000, rms=0.598 (0.063%), neg=0, invalid=762
- 0223: dt=36.288000, rms=0.598 (0.064%), neg=0, invalid=762
- 0224: dt=36.288000, rms=0.597 (0.058%), neg=0, invalid=762
- 0225: dt=36.288000, rms=0.597 (0.059%), neg=0, invalid=762
- 0226: dt=36.288000, rms=0.597 (0.054%), neg=0, invalid=762
- 0227: dt=36.288000, rms=0.596 (0.051%), neg=0, invalid=762
- 0228: dt=36.288000, rms=0.596 (0.050%), neg=0, invalid=762
- 0229: dt=36.288000, rms=0.596 (0.055%), neg=0, invalid=762
- 0230: dt=36.288000, rms=0.595 (0.047%), neg=0, invalid=762
- 0231: dt=36.288000, rms=0.595 (0.049%), neg=0, invalid=762
- 0232: dt=36.288000, rms=0.595 (0.044%), neg=0, invalid=762
- 0233: dt=36.288000, rms=0.595 (0.044%), neg=0, invalid=762
- 0234: dt=36.288000, rms=0.594 (0.042%), neg=0, invalid=762
- 0235: dt=36.288000, rms=0.594 (0.049%), neg=0, invalid=762
- 0236: dt=36.288000, rms=0.594 (0.041%), neg=0, invalid=762
- 0237: dt=36.288000, rms=0.594 (0.043%), neg=0, invalid=762
- 0238: dt=36.288000, rms=0.593 (0.041%), neg=0, invalid=762
- 0239: dt=36.288000, rms=0.593 (0.034%), neg=0, invalid=762
- 0240: dt=36.288000, rms=0.593 (0.036%), neg=0, invalid=762
- 0241: dt=36.288000, rms=0.593 (0.036%), neg=0, invalid=762
- 0242: dt=36.288000, rms=0.592 (0.034%), neg=0, invalid=762
- 0243: dt=36.288000, rms=0.592 (0.034%), neg=0, invalid=762
- 0244: dt=36.288000, rms=0.592 (0.032%), neg=0, invalid=762
- 0245: dt=36.288000, rms=0.592 (0.030%), neg=0, invalid=762
- 0246: dt=36.288000, rms=0.592 (0.029%), neg=0, invalid=762
- 0247: dt=36.288000, rms=0.592 (0.026%), neg=0, invalid=762
- 0248: dt=36.288000, rms=0.591 (0.033%), neg=0, invalid=762
- 0249: dt=36.288000, rms=0.591 (0.027%), neg=0, invalid=762
- 0250: dt=36.288000, rms=0.591 (0.023%), neg=0, invalid=762
- 0251: dt=36.288000, rms=0.591 (0.030%), neg=0, invalid=762
- 0252: dt=36.288000, rms=0.591 (0.028%), neg=0, invalid=762
- 0253: dt=36.288000, rms=0.591 (0.023%), neg=0, invalid=762
- 0254: dt=36.288000, rms=0.590 (0.026%), neg=0, invalid=762
- 0255: dt=36.288000, rms=0.590 (0.030%), neg=0, invalid=762
- 0256: dt=36.288000, rms=0.590 (0.025%), neg=0, invalid=762
- 0257: dt=36.288000, rms=0.590 (0.026%), neg=0, invalid=762
- 0258: dt=36.288000, rms=0.590 (0.029%), neg=0, invalid=762
- 0259: dt=36.288000, rms=0.590 (0.027%), neg=0, invalid=762
- 0260: dt=36.288000, rms=0.590 (0.020%), neg=0, invalid=762
- 0261: dt=36.288000, rms=0.589 (0.021%), neg=0, invalid=762
- 0262: dt=36.288000, rms=0.589 (0.002%), neg=0, invalid=762
- 0263: dt=2.268000, rms=0.589 (-0.002%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.596, neg=0, invalid=762
- 0264: dt=11.200000, rms=0.593 (0.446%), neg=0, invalid=762
- 0265: dt=9.600000, rms=0.592 (0.155%), neg=0, invalid=762
- 0266: dt=0.700000, rms=0.592 (0.011%), neg=0, invalid=762
- 0267: dt=0.043750, rms=0.592 (0.000%), neg=0, invalid=762
- 0268: dt=0.021875, rms=0.592 (0.001%), neg=0, invalid=762
- 0269: dt=0.002734, rms=0.592 (0.000%), neg=0, invalid=762
- 0270: dt=0.001367, rms=0.592 (0.000%), neg=0, invalid=762
- 0271: dt=0.000684, rms=0.592 (0.000%), neg=0, invalid=762
- 0272: dt=0.000488, rms=0.592 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.594, neg=0, invalid=762
- 0273: dt=108.571429, rms=0.589 (0.721%), neg=0, invalid=762
- 0274: dt=44.800000, rms=0.584 (0.954%), neg=0, invalid=762
- 0275: dt=32.000000, rms=0.582 (0.332%), neg=0, invalid=762
- 0276: dt=2.400000, rms=0.582 (0.037%), neg=0, invalid=762
- 0277: dt=0.150000, rms=0.582 (0.002%), neg=0, invalid=762
- 0278: dt=0.037500, rms=0.582 (0.001%), neg=0, invalid=762
- 0279: dt=0.009375, rms=0.582 (0.000%), neg=0, invalid=762
- 0280: dt=0.001953, rms=0.582 (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=0.595, neg=0, invalid=762
- 0281: dt=4.032000, rms=0.591 (0.788%), neg=0, invalid=762
- 0282: dt=1.008000, rms=0.590 (0.116%), neg=0, invalid=762
- 0283: dt=0.720000, rms=0.589 (0.079%), neg=0, invalid=762
- 0284: dt=0.063000, rms=0.589 (0.004%), neg=0, invalid=762
- 0285: dt=0.031500, rms=0.589 (0.004%), neg=0, invalid=762
- 0286: dt=0.015750, rms=0.589 (0.002%), neg=0, invalid=762
- 0287: dt=0.007875, rms=0.589 (0.001%), neg=0, invalid=762
- 0288: dt=0.000630, rms=0.589 (0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.591, neg=0, invalid=762
- 0289: dt=11.520000, rms=0.586 (0.833%), neg=0, invalid=762
- 0290: dt=4.032000, rms=0.585 (0.181%), neg=0, invalid=762
- 0291: dt=1.008000, rms=0.584 (0.040%), neg=0, invalid=762
- 0292: dt=1.008000, rms=0.584 (0.041%), neg=0, invalid=762
- 0293: dt=1.008000, rms=0.584 (0.041%), neg=0, invalid=762
- 0294: dt=0.504000, rms=0.584 (0.018%), neg=0, invalid=762
- 0295: dt=0.504000, rms=0.584 (0.019%), neg=0, invalid=762
- 0296: dt=0.252000, rms=0.584 (0.008%), neg=0, invalid=762
- 0297: dt=0.003938, rms=0.584 (0.001%), neg=0, invalid=762
- 0298: dt=0.001969, rms=0.584 (0.000%), neg=0, invalid=762
- 0299: dt=0.000984, rms=0.584 (0.000%), neg=0, invalid=762
- 0300: dt=0.000492, rms=0.584 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.602, neg=0, invalid=762
- 0301: dt=0.000000, rms=0.601 (0.192%), neg=0, invalid=762
- 0302: dt=0.000000, rms=0.601 (0.000%), neg=0, invalid=762
- 0303: dt=0.100000, rms=0.601 (-0.017%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.602, neg=0, invalid=762
- 0304: dt=0.112000, rms=0.601 (0.193%), neg=0, invalid=762
- 0305: dt=0.080000, rms=0.601 (-0.001%), neg=0, invalid=762
- 0306: dt=0.080000, rms=0.601 (0.000%), neg=0, invalid=762
- 0307: dt=0.080000, rms=0.601 (0.001%), neg=0, invalid=762
- 0308: dt=0.080000, rms=0.601 (-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=0.574, neg=0, invalid=762
- 0309: dt=0.448000, rms=0.557 (2.838%), neg=0, invalid=762
- 0310: dt=0.448000, rms=0.554 (0.632%), neg=0, invalid=762
- 0311: dt=0.448000, rms=0.552 (0.349%), neg=0, invalid=762
- 0312: dt=0.448000, rms=0.551 (0.202%), neg=0, invalid=762
- 0313: dt=0.448000, rms=0.550 (0.152%), neg=0, invalid=762
- 0314: dt=0.448000, rms=0.549 (0.105%), neg=0, invalid=762
- 0315: dt=0.448000, rms=0.549 (0.097%), neg=0, invalid=762
- 0316: dt=0.448000, rms=0.549 (0.054%), neg=0, invalid=762
- 0317: dt=0.448000, rms=0.548 (0.070%), neg=0, invalid=762
- 0318: dt=0.448000, rms=0.548 (0.039%), neg=0, invalid=762
- 0319: dt=0.448000, rms=0.548 (0.048%), neg=0, invalid=762
- 0320: dt=0.448000, rms=0.547 (0.069%), neg=0, invalid=762
- 0321: dt=0.224000, rms=0.547 (0.013%), neg=0, invalid=762
- 0322: dt=0.224000, rms=0.547 (0.027%), neg=0, invalid=762
- 0323: dt=0.224000, rms=0.547 (0.038%), neg=0, invalid=762
- 0324: dt=0.224000, rms=0.547 (0.040%), neg=0, invalid=762
- 0325: dt=0.224000, rms=0.547 (0.002%), neg=0, invalid=762
- 0326: dt=0.224000, rms=0.547 (0.006%), neg=0, invalid=762
- 0327: dt=0.224000, rms=0.547 (0.013%), neg=0, invalid=762
- 0328: dt=0.224000, rms=0.547 (0.024%), neg=0, invalid=762
- 0329: dt=0.224000, rms=0.546 (0.020%), neg=0, invalid=762
- 0330: dt=0.320000, rms=0.546 (0.002%), neg=0, invalid=762
- 0331: dt=0.320000, rms=0.546 (0.005%), neg=0, invalid=762
- 0332: dt=0.320000, rms=0.546 (0.005%), neg=0, invalid=762
- 0333: dt=0.160000, rms=0.546 (0.005%), neg=0, invalid=762
- 0334: dt=0.160000, rms=0.546 (0.009%), neg=0, invalid=762
- 0335: dt=0.160000, rms=0.546 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.548, neg=0, invalid=762
- 0336: dt=0.320000, rms=0.541 (1.123%), neg=0, invalid=762
- 0337: dt=0.448000, rms=0.539 (0.441%), neg=0, invalid=762
- 0338: dt=0.448000, rms=0.539 (0.043%), neg=0, invalid=762
- 0339: dt=0.448000, rms=0.539 (-0.006%), 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=0.537, neg=0, invalid=762
- 0340: dt=4.624000, rms=0.536 (0.235%), neg=0, invalid=762
- 0341: dt=0.011560, rms=0.536 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.537, neg=0, invalid=762
- 0342: dt=129.472000, rms=0.536 (0.259%), neg=0, invalid=762
- 0343: dt=110.976000, rms=0.536 (0.008%), neg=0, invalid=762
- 0344: dt=110.976000, rms=0.536 (0.016%), neg=0, invalid=762
- 0345: dt=110.976000, rms=0.536 (0.012%), neg=0, invalid=762
- 0346: dt=110.976000, rms=0.536 (0.005%), neg=0, invalid=762
- 0347: dt=129.472000, rms=0.536 (0.013%), neg=0, invalid=762
- 0348: dt=8.092000, rms=0.536 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.537, neg=0, invalid=762
- 0349: dt=20.736000, rms=0.535 (0.269%), neg=0, invalid=762
- 0350: dt=9.072000, rms=0.535 (0.003%), neg=0, invalid=762
- 0351: dt=9.072000, rms=0.535 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.537, neg=0, invalid=762
- 0352: dt=103.680000, rms=0.535 (0.403%), neg=0, invalid=762
- 0353: dt=64.447552, rms=0.534 (0.126%), neg=0, invalid=762
- 0354: dt=64.447552, rms=0.533 (0.077%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0355: dt=64.447552, rms=0.533 (0.095%), neg=0, invalid=762
- 0356: dt=64.447552, rms=0.532 (0.143%), neg=0, invalid=762
- 0357: dt=64.447552, rms=0.531 (0.137%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 1 iterations, nbhd size=0, neg = 0
- 0358: dt=64.447552, rms=0.531 (0.123%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0359: dt=64.447552, rms=0.530 (0.089%), neg=0, invalid=762
- 0360: dt=36.288000, rms=0.530 (0.029%), neg=0, invalid=762
- 0361: dt=36.288000, rms=0.530 (0.014%), neg=0, invalid=762
- 0362: dt=36.288000, rms=0.530 (0.024%), neg=0, invalid=762
- 0363: dt=36.288000, rms=0.530 (0.030%), neg=0, invalid=762
- 0364: dt=36.288000, rms=0.530 (0.032%), neg=0, invalid=762
- 0365: dt=36.288000, rms=0.529 (0.035%), neg=0, invalid=762
- 0366: dt=36.288000, rms=0.529 (0.036%), neg=0, invalid=762
- 0367: dt=36.288000, rms=0.529 (0.038%), neg=0, invalid=762
- 0368: dt=36.288000, rms=0.529 (0.040%), neg=0, invalid=762
- 0369: dt=36.288000, rms=0.529 (0.041%), neg=0, invalid=762
- 0370: dt=36.288000, rms=0.528 (0.038%), neg=0, invalid=762
- 0371: dt=36.288000, rms=0.528 (0.037%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.530, neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 11 iterations, nbhd size=1, neg = 0
- 0372: dt=25.600000, rms=0.527 (0.494%), neg=0, invalid=762
- iter 0, gcam->neg = 14
- after 3 iterations, nbhd size=0, neg = 0
- 0373: dt=44.800000, rms=0.527 (0.160%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 1 iterations, nbhd size=0, neg = 0
- 0374: dt=44.800000, rms=0.526 (0.186%), neg=0, invalid=762
- iter 0, gcam->neg = 17
- after 10 iterations, nbhd size=1, neg = 0
- 0375: dt=44.800000, rms=0.524 (0.208%), neg=0, invalid=762
- iter 0, gcam->neg = 12
- after 3 iterations, nbhd size=0, neg = 0
- 0376: dt=44.800000, rms=0.524 (0.154%), neg=0, invalid=762
- iter 0, gcam->neg = 40
- after 10 iterations, nbhd size=1, neg = 0
- 0377: dt=44.800000, rms=0.523 (0.108%), neg=0, invalid=762
- iter 0, gcam->neg = 26
- after 4 iterations, nbhd size=0, neg = 0
- 0378: dt=44.800000, rms=0.522 (0.156%), neg=0, invalid=762
- iter 0, gcam->neg = 31
- after 18 iterations, nbhd size=1, neg = 0
- 0379: dt=44.800000, rms=0.521 (0.161%), neg=0, invalid=762
- iter 0, gcam->neg = 28
- after 13 iterations, nbhd size=1, neg = 0
- 0380: dt=44.800000, rms=0.520 (0.209%), neg=0, invalid=762
- iter 0, gcam->neg = 23
- after 10 iterations, nbhd size=1, neg = 0
- 0381: dt=44.800000, rms=0.519 (0.177%), neg=0, invalid=762
- iter 0, gcam->neg = 29
- after 18 iterations, nbhd size=1, neg = 0
- 0382: dt=44.800000, rms=0.519 (0.158%), neg=0, invalid=762
- iter 0, gcam->neg = 31
- after 12 iterations, nbhd size=1, neg = 0
- 0383: dt=44.800000, rms=0.518 (0.155%), neg=0, invalid=762
- iter 0, gcam->neg = 23
- after 13 iterations, nbhd size=1, neg = 0
- 0384: dt=44.800000, rms=0.517 (0.108%), neg=0, invalid=762
- iter 0, gcam->neg = 30
- after 15 iterations, nbhd size=1, neg = 0
- 0385: dt=44.800000, rms=0.517 (0.089%), neg=0, invalid=762
- iter 0, gcam->neg = 10
- after 3 iterations, nbhd size=0, neg = 0
- 0386: dt=44.800000, rms=0.516 (0.170%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0387: dt=25.600000, rms=0.515 (0.089%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 2 iterations, nbhd size=0, neg = 0
- 0388: dt=25.600000, rms=0.515 (0.062%), neg=0, invalid=762
- 0389: dt=25.600000, rms=0.515 (0.061%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 3 iterations, nbhd size=0, neg = 0
- 0390: dt=25.600000, rms=0.514 (0.064%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 0 iterations, nbhd size=0, neg = 0
- 0391: dt=25.600000, rms=0.514 (0.043%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.516, neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 8 iterations, nbhd size=1, neg = 0
- 0392: dt=66.838710, rms=0.511 (0.946%), neg=0, invalid=762
- 0393: dt=32.000000, rms=0.509 (0.339%), neg=0, invalid=762
- 0394: dt=38.400000, rms=0.508 (0.180%), neg=0, invalid=762
- 0395: dt=38.400000, rms=0.508 (0.070%), neg=0, invalid=762
- 0396: dt=38.400000, rms=0.507 (0.238%), neg=0, invalid=762
- 0397: dt=38.400000, rms=0.506 (0.123%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 7 iterations, nbhd size=1, neg = 0
- 0398: dt=38.400000, rms=0.505 (0.140%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 2 iterations, nbhd size=0, neg = 0
- 0399: dt=38.400000, rms=0.505 (-0.056%), neg=0, invalid=762
- 0400: dt=25.600000, rms=0.505 (0.047%), neg=0, invalid=762
- 0401: dt=38.400000, rms=0.505 (0.059%), neg=0, invalid=762
- 0402: dt=19.200000, rms=0.505 (0.029%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.514, neg=0, invalid=762
- 0403: dt=3.456000, rms=0.512 (0.313%), neg=0, invalid=762
- 0404: dt=2.000000, rms=0.512 (0.007%), neg=0, invalid=762
- 0405: dt=2.000000, rms=0.512 (-0.005%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.513, neg=0, invalid=762
- 0406: dt=7.937984, rms=0.511 (0.409%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 1 iterations, nbhd size=0, neg = 0
- 0407: dt=9.704918, rms=0.511 (0.117%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0408: dt=9.704918, rms=0.510 (0.107%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 3 iterations, nbhd size=0, neg = 0
- 0409: dt=9.704918, rms=0.510 (0.088%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 3 iterations, nbhd size=0, neg = 0
- 0410: dt=9.704918, rms=0.509 (0.060%), neg=0, invalid=762
- iter 0, gcam->neg = 79
- after 12 iterations, nbhd size=1, neg = 0
- 0411: dt=62.726368, rms=0.503 (1.288%), neg=0, invalid=762
- 0412: dt=6.909091, rms=0.502 (0.068%), neg=0, invalid=762
- 0413: dt=6.909091, rms=0.502 (0.013%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 11 iterations, nbhd size=1, neg = 0
- 0414: dt=6.909091, rms=0.502 (-0.132%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.510, neg=0, invalid=762
- 0415: dt=0.000000, rms=0.508 (0.267%), neg=0, invalid=762
- 0416: dt=0.000000, rms=0.508 (0.000%), neg=0, invalid=762
- 0417: dt=0.100000, rms=0.508 (-0.068%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.510, neg=0, invalid=762
- 0418: dt=0.000000, rms=0.508 (0.267%), neg=0, invalid=762
- 0419: dt=0.000000, rms=0.508 (0.000%), neg=0, invalid=762
- 0420: dt=0.100000, rms=0.508 (-0.048%), 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=0.500, neg=0, invalid=762
- iter 0, gcam->neg = 1258
- after 15 iterations, nbhd size=1, neg = 0
- 0421: dt=1.915657, rms=0.469 (6.115%), neg=0, invalid=762
- 0422: dt=0.000013, rms=0.469 (0.010%), neg=0, invalid=762
- 0423: dt=0.000013, rms=0.469 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.470, neg=0, invalid=762
- 0424: dt=0.096000, rms=0.469 (0.397%), neg=0, invalid=762
- 0425: dt=0.007000, rms=0.469 (0.004%), neg=0, invalid=762
- 0426: dt=0.007000, rms=0.469 (0.002%), neg=0, invalid=762
- 0427: dt=0.007000, rms=0.469 (-0.004%), 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=0.456, neg=0, invalid=762
- 0428: 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=0.456, neg=0, invalid=762
- 0429: dt=-0.002604, rms=0.456 (0.000%), neg=0, invalid=762
- 0430: dt=0.000000, rms=0.456 (0.000%), neg=0, invalid=762
- setting smoothness coefficient to 0.031
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.456, neg=0, invalid=762
- 0431: dt=1.296000, rms=0.456 (0.000%), neg=0, invalid=762
- 0432: 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=0.456, neg=0, invalid=762
- 0433: dt=36.288000, rms=0.456 (0.022%), neg=0, invalid=762
- 0434: dt=103.680000, rms=0.455 (0.029%), neg=0, invalid=762
- 0435: dt=331.776000, rms=0.455 (0.073%), neg=0, invalid=762
- 0436: dt=31.104000, rms=0.455 (0.009%), neg=0, invalid=762
- 0437: dt=31.104000, rms=0.455 (0.001%), neg=0, invalid=762
- 0438: dt=31.104000, rms=0.455 (-0.001%), neg=0, invalid=762
- setting smoothness coefficient to 0.118
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.456, neg=0, invalid=762
- 0439: dt=6.400000, rms=0.456 (0.028%), neg=0, invalid=762
- 0440: dt=1.600000, rms=0.456 (0.001%), neg=0, invalid=762
- 0441: dt=1.600000, rms=0.456 (-0.001%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.456, neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0442: dt=89.400347, rms=0.453 (0.510%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0443: dt=25.600000, rms=0.452 (0.179%), neg=0, invalid=762
- 0444: dt=25.600000, rms=0.452 (0.069%), neg=0, invalid=762
- iter 0, gcam->neg = 2
- after 8 iterations, nbhd size=1, neg = 0
- 0445: dt=25.600000, rms=0.452 (0.087%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 8 iterations, nbhd size=1, neg = 0
- 0446: dt=25.600000, rms=0.451 (0.117%), neg=0, invalid=762
- iter 0, gcam->neg = 4
- after 0 iterations, nbhd size=0, neg = 0
- 0447: dt=25.600000, rms=0.451 (0.131%), neg=0, invalid=762
- iter 0, gcam->neg = 7
- after 4 iterations, nbhd size=0, neg = 0
- 0448: dt=25.600000, rms=0.450 (0.135%), neg=0, invalid=762
- iter 0, gcam->neg = 10
- after 8 iterations, nbhd size=1, neg = 0
- 0449: dt=25.600000, rms=0.450 (0.119%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 2 iterations, nbhd size=0, neg = 0
- 0450: dt=25.600000, rms=0.449 (0.098%), neg=0, invalid=762
- 0451: dt=38.400000, rms=0.449 (0.022%), neg=0, invalid=762
- 0452: dt=38.400000, rms=0.449 (0.024%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0453: dt=38.400000, rms=0.449 (0.037%), neg=0, invalid=762
- 0454: dt=38.400000, rms=0.449 (0.037%), neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0455: dt=38.400000, rms=0.448 (0.056%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 2 iterations, nbhd size=0, neg = 0
- 0456: dt=38.400000, rms=0.448 (0.044%), neg=0, invalid=762
- setting smoothness coefficient to 0.400
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.451, neg=0, invalid=762
- iter 0, gcam->neg = 1
- after 0 iterations, nbhd size=0, neg = 0
- 0457: dt=1.008000, rms=0.451 (0.003%), neg=0, invalid=762
- 0458: dt=0.252000, rms=0.451 (0.000%), neg=0, invalid=762
- 0459: dt=0.252000, rms=0.451 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.451, neg=0, invalid=762
- 0460: dt=12.895522, rms=0.451 (0.147%), neg=0, invalid=762
- iter 0, gcam->neg = 33
- after 15 iterations, nbhd size=1, neg = 0
- 0461: dt=41.882353, rms=0.449 (0.327%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 1 iterations, nbhd size=0, neg = 0
- 0462: dt=14.254545, rms=0.449 (0.148%), neg=0, invalid=762
- iter 0, gcam->neg = 5
- after 8 iterations, nbhd size=1, neg = 0
- 0463: dt=14.254545, rms=0.448 (0.139%), neg=0, invalid=762
- iter 0, gcam->neg = 27
- after 12 iterations, nbhd size=1, neg = 0
- 0464: dt=14.254545, rms=0.447 (0.135%), neg=0, invalid=762
- iter 0, gcam->neg = 20
- after 11 iterations, nbhd size=1, neg = 0
- 0465: dt=14.254545, rms=0.447 (0.107%), neg=0, invalid=762
- iter 0, gcam->neg = 12
- after 12 iterations, nbhd size=1, neg = 0
- 0466: dt=14.254545, rms=0.446 (0.116%), neg=0, invalid=762
- iter 0, gcam->neg = 24
- after 16 iterations, nbhd size=1, neg = 0
- 0467: dt=14.254545, rms=0.446 (0.124%), neg=0, invalid=762
- iter 0, gcam->neg = 50
- after 12 iterations, nbhd size=1, neg = 0
- 0468: dt=14.254545, rms=0.446 (0.085%), neg=0, invalid=762
- 0469: dt=7.783784, rms=0.445 (0.041%), neg=0, invalid=762
- 0470: dt=7.783784, rms=0.445 (0.016%), neg=0, invalid=762
- iter 0, gcam->neg = 3
- after 0 iterations, nbhd size=0, neg = 0
- 0471: dt=7.783784, rms=0.445 (0.016%), neg=0, invalid=762
- iter 0, gcam->neg = 6
- after 2 iterations, nbhd size=0, neg = 0
- 0472: dt=7.783784, rms=0.445 (0.006%), neg=0, invalid=762
- setting smoothness coefficient to 1.000
- blurring input image with Gaussian with sigma=2.000...
- 0000: dt=0.000, rms=0.451, neg=0, invalid=762
- 0473: dt=0.000050, rms=0.451 (0.000%), neg=0, invalid=762
- 0474: dt=0.000000, rms=0.451 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.451, neg=0, invalid=762
- 0475: dt=0.000000, rms=0.451 (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=0.441, neg=0, invalid=762
- iter 0, gcam->neg = 951
- after 15 iterations, nbhd size=1, neg = 0
- 0476: dt=1.280000, rms=0.430 (2.568%), neg=0, invalid=762
- 0477: dt=0.000013, rms=0.430 (0.000%), neg=0, invalid=762
- 0478: dt=0.000013, rms=0.430 (-0.000%), neg=0, invalid=762
- blurring input image with Gaussian with sigma=0.500...
- 0000: dt=0.000, rms=0.430, neg=0, invalid=762
- 0479: dt=0.112000, rms=0.429 (0.077%), neg=0, invalid=762
- 0480: dt=0.080000, rms=0.429 (0.017%), neg=0, invalid=762
- 0481: dt=0.080000, rms=0.429 (0.007%), neg=0, invalid=762
- 0482: dt=0.080000, rms=0.429 (-0.037%), neg=0, invalid=762
- writing output transformation to transforms/talairach.m3z...
- GCAMwrite
- mri_ca_register took 3 hours, 2 minutes and 2 seconds.
- mri_ca_register utimesec 11824.199448
- mri_ca_register stimesec 11.048320
- mri_ca_register ru_maxrss 1337220
- mri_ca_register ru_ixrss 0
- mri_ca_register ru_idrss 0
- mri_ca_register ru_isrss 0
- mri_ca_register ru_minflt 6617332
- mri_ca_register ru_majflt 0
- mri_ca_register ru_nswap 0
- mri_ca_register ru_inblock 0
- mri_ca_register ru_oublock 63288
- mri_ca_register ru_msgsnd 0
- mri_ca_register ru_msgrcv 0
- mri_ca_register ru_nsignals 0
- mri_ca_register ru_nvcsw 8796
- mri_ca_register ru_nivcsw 33523
- FSRUNTIME@ mri_ca_register 3.0338 hours 2 threads
- #--------------------------------------
- #@# SubCort Seg Sat Oct 7 20:02:15 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-551
- 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-6.0.0/0050815/mri
- mri_ca_label -relabel_unlikely 9 .3 -prior 0.5 -align norm.mgz transforms/talairach.m3z /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca aseg.auto_noCCseg.mgz
- == Number of threads available to mri_ca_label for OpenMP = 2 ==
- relabeling unlikely voxels with window_size = 9 and prior threshold 0.30
- using Gibbs prior factor = 0.500
- renormalizing sequences with structure alignment, equivalent to:
- -renormalize
- -renormalize_mean 0.500
- -regularize 0.500
- reading 1 input volumes
- reading classifier array from /pasteur/homes/ntraut/bin/freesurfer-6.0.0/average/RB_all_2016-05-10.vc700.gca
- reading input volume from norm.mgz
- average std[0] = 7.3
- reading transform from transforms/talairach.m3z
- setting orig areas to linear transform determinant scaled 6.96
- 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 = 0.08946 ( 4)
- Left_Lateral_Ventricle (4): linear fit = 0.17 x + 0.0 (302 voxels, overlap=0.360)
- Left_Lateral_Ventricle (4): linear fit = 0.40 x + 0.0 (302 voxels, peak = 3), gca=8.0
- gca peak = 0.17677 (13)
- mri peak = 0.08036 ( 4)
- Right_Lateral_Ventricle (43): linear fit = 0.22 x + 0.0 (531 voxels, overlap=0.394)
- Right_Lateral_Ventricle (43): linear fit = 0.40 x + 0.0 (531 voxels, peak = 3), gca=5.2
- gca peak = 0.28129 (95)
- mri peak = 0.09853 (81)
- Right_Pallidum (52): linear fit = 0.87 x + 0.0 (123 voxels, overlap=0.032)
- Right_Pallidum (52): linear fit = 0.87 x + 0.0 (123 voxels, peak = 82), gca=82.2
- gca peak = 0.16930 (96)
- mri peak = 0.09250 (84)
- Left_Pallidum (13): linear fit = 0.86 x + 0.0 (466 voxels, overlap=0.152)
- Left_Pallidum (13): linear fit = 0.86 x + 0.0 (466 voxels, peak = 82), gca=82.1
- gca peak = 0.24553 (55)
- mri peak = 0.08528 (55)
- Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (365 voxels, overlap=1.009)
- Right_Hippocampus (53): linear fit = 0.99 x + 0.0 (365 voxels, peak = 54), gca=54.2
- gca peak = 0.30264 (59)
- mri peak = 0.06186 (57)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (317 voxels, overlap=1.015)
- Left_Hippocampus (17): linear fit = 0.94 x + 0.0 (317 voxels, peak = 56), gca=55.8
- gca peak = 0.07580 (103)
- mri peak = 0.05253 (102)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (28242 voxels, overlap=0.941)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (28242 voxels, peak = 104), gca=103.5
- gca peak = 0.07714 (104)
- mri peak = 0.04725 (101)
- Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (29763 voxels, overlap=0.905)
- Left_Cerebral_White_Matter (2): linear fit = 1.01 x + 0.0 (29763 voxels, peak = 106), gca=105.6
- gca peak = 0.09712 (58)
- mri peak = 0.04121 (51)
- Left_Cerebral_Cortex (3): linear fit = 0.88 x + 0.0 (18646 voxels, overlap=0.720)
- Left_Cerebral_Cortex (3): linear fit = 0.88 x + 0.0 (18646 voxels, peak = 51), gca=51.3
- gca peak = 0.11620 (58)
- mri peak = 0.04076 (50)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (23156 voxels, overlap=0.858)
- Right_Cerebral_Cortex (42): linear fit = 0.89 x + 0.0 (23156 voxels, peak = 52), gca=51.9
- gca peak = 0.30970 (66)
- mri peak = 0.06467 (58)
- Right_Caudate (50): linear fit = 0.87 x + 0.0 (926 voxels, overlap=0.907)
- Right_Caudate (50): linear fit = 0.87 x + 0.0 (926 voxels, peak = 57), gca=57.1
- gca peak = 0.15280 (69)
- mri peak = 0.06940 (63)
- Left_Caudate (11): linear fit = 0.86 x + 0.0 (735 voxels, overlap=0.346)
- Left_Caudate (11): linear fit = 0.86 x + 0.0 (735 voxels, peak = 59), gca=59.0
- gca peak = 0.13902 (56)
- mri peak = 0.04033 (52)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (13263 voxels, overlap=0.978)
- Left_Cerebellum_Cortex (8): linear fit = 0.94 x + 0.0 (13263 voxels, peak = 53), gca=52.9
- gca peak = 0.14777 (55)
- mri peak = 0.03929 (53)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (13068 voxels, overlap=0.962)
- Right_Cerebellum_Cortex (47): linear fit = 0.94 x + 0.0 (13068 voxels, peak = 52), gca=52.0
- gca peak = 0.16765 (84)
- mri peak = 0.05042 (80)
- Left_Cerebellum_White_Matter (7): linear fit = 0.93 x + 0.0 (2940 voxels, overlap=1.000)
- Left_Cerebellum_White_Matter (7): linear fit = 0.93 x + 0.0 (2940 voxels, peak = 78), gca=77.7
- gca peak = 0.18739 (84)
- mri peak = 0.04610 (80)
- Right_Cerebellum_White_Matter (46): linear fit = 0.98 x + 0.0 (2471 voxels, overlap=0.992)
- Right_Cerebellum_White_Matter (46): linear fit = 0.98 x + 0.0 (2471 voxels, peak = 82), gca=81.9
- gca peak = 0.29869 (57)
- mri peak = 0.08205 (63)
- Left_Amygdala (18): linear fit = 0.92 x + 0.0 (162 voxels, overlap=0.999)
- Left_Amygdala (18): linear fit = 0.92 x + 0.0 (162 voxels, peak = 52), gca=52.2
- gca peak = 0.33601 (57)
- mri peak = 0.08128 (52)
- Right_Amygdala (54): linear fit = 0.92 x + 0.0 (131 voxels, overlap=0.502)
- Right_Amygdala (54): linear fit = 0.92 x + 0.0 (131 voxels, peak = 52), gca=52.2
- gca peak = 0.11131 (90)
- mri peak = 0.13477 (75)
- Left_Thalamus_Proper (10): linear fit = 0.88 x + 0.0 (4202 voxels, overlap=0.477)
- Left_Thalamus_Proper (10): linear fit = 0.88 x + 0.0 (4202 voxels, peak = 79), gca=78.8
- gca peak = 0.11793 (83)
- mri peak = 0.11931 (75)
- Right_Thalamus_Proper (49): linear fit = 0.95 x + 0.0 (3779 voxels, overlap=0.837)
- Right_Thalamus_Proper (49): linear fit = 0.95 x + 0.0 (3779 voxels, peak = 79), gca=79.3
- gca peak = 0.08324 (81)
- mri peak = 0.07279 (65)
- Left_Putamen (12): linear fit = 0.89 x + 0.0 (1831 voxels, overlap=0.656)
- Left_Putamen (12): linear fit = 0.89 x + 0.0 (1831 voxels, peak = 72), gca=72.5
- gca peak = 0.10360 (77)
- mri peak = 0.09603 (66)
- Right_Putamen (51): linear fit = 0.86 x + 0.0 (615 voxels, overlap=0.259)
- Right_Putamen (51): linear fit = 0.86 x + 0.0 (615 voxels, peak = 66), gca=65.8
- gca peak = 0.08424 (78)
- mri peak = 0.11780 (80)
- Brain_Stem (16): linear fit = 1.05 x + 0.0 (5382 voxels, overlap=0.476)
- Brain_Stem (16): linear fit = 1.05 x + 0.0 (5382 voxels, peak = 82), gca=82.3
- gca peak = 0.12631 (89)
- mri peak = 0.14238 (80)
- Right_VentralDC (60): linear fit = 0.94 x + 0.0 (968 voxels, overlap=0.752)
- Right_VentralDC (60): linear fit = 0.94 x + 0.0 (968 voxels, peak = 84), gca=84.1
- gca peak = 0.14500 (87)
- mri peak = 0.14900 (80)
- Left_VentralDC (28): linear fit = 0.94 x + 0.0 (995 voxels, overlap=0.835)
- Left_VentralDC (28): linear fit = 0.94 x + 0.0 (995 voxels, peak = 81), gca=81.3
- gca peak = 0.14975 (24)
- mri peak = 0.07757 (54)
- gca peak = 0.19357 (14)
- mri peak = 0.08371 (12)
- Fourth_Ventricle (15): linear fit = 0.43 x + 0.0 (294 voxels, overlap=0.495)
- Fourth_Ventricle (15): linear fit = 0.43 x + 0.0 (294 voxels, peak = 6), gca=6.0
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.16825 (27)
- gca peak Left_Thalamus = 1.00000 (94)
- gca peak Third_Ventricle = 0.14975 (24)
- gca peak Fourth_Ventricle = 0.19357 (14)
- gca peak CSF = 0.23379 (36)
- gca peak Left_Accumbens_area = 0.70037 (62)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.75997 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.24655 (23)
- gca peak Right_Accumbens_area = 0.45042 (65)
- gca peak Right_vessel = 0.82168 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65475 (32)
- gca peak WM_hypointensities = 0.07854 (76)
- gca peak non_WM_hypointensities = 0.08491 (43)
- gca peak Optic_Chiasm = 0.71127 (75)
- not using caudate to estimate GM means
- estimating mean gm scale to be 0.92 x + 0.0
- estimating mean wm scale to be 1.01 x + 0.0
- estimating mean csf scale to be 0.40 x + 0.0
- saving intensity scales to aseg.auto_noCCseg.label_intensities.txt
- renormalizing by structure alignment....
- renormalizing input #0
- gca peak = 0.30837 ( 7)
- mri peak = 0.08946 ( 4)
- Left_Lateral_Ventricle (4): linear fit = 0.44 x + 0.0 (302 voxels, overlap=0.256)
- Left_Lateral_Ventricle (4): linear fit = 0.44 x + 0.0 (302 voxels, peak = 3), gca=3.0
- gca peak = 0.30173 ( 5)
- mri peak = 0.08036 ( 4)
- Right_Lateral_Ventricle (43): linear fit = 1.89 x + 0.0 (531 voxels, overlap=0.606)
- Right_Lateral_Ventricle (43): linear fit = 1.50 x + 0.0 (531 voxels, peak = 9), gca=7.5
- gca peak = 0.26111 (81)
- mri peak = 0.09853 (81)
- Right_Pallidum (52): linear fit = 0.99 x + 0.0 (123 voxels, overlap=1.009)
- Right_Pallidum (52): linear fit = 0.99 x + 0.0 (123 voxels, peak = 80), gca=79.8
- gca peak = 0.19284 (81)
- mri peak = 0.09250 (84)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (466 voxels, overlap=0.981)
- Left_Pallidum (13): linear fit = 1.00 x + 0.0 (466 voxels, peak = 81), gca=81.0
- gca peak = 0.29530 (55)
- mri peak = 0.08528 (55)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (365 voxels, overlap=1.008)
- Right_Hippocampus (53): linear fit = 1.00 x + 0.0 (365 voxels, peak = 55), gca=55.0
- gca peak = 0.29344 (53)
- mri peak = 0.06186 (57)
- Left_Hippocampus (17): linear fit = 1.07 x + 0.0 (317 voxels, overlap=1.016)
- Left_Hippocampus (17): linear fit = 1.07 x + 0.0 (317 voxels, peak = 56), gca=56.4
- gca peak = 0.07876 (103)
- mri peak = 0.05253 (102)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (28242 voxels, overlap=0.948)
- Right_Cerebral_White_Matter (41): linear fit = 1.00 x + 0.0 (28242 voxels, peak = 103), gca=103.0
- gca peak = 0.07821 (106)
- mri peak = 0.04725 (101)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (29763 voxels, overlap=0.935)
- Left_Cerebral_White_Matter (2): linear fit = 1.00 x + 0.0 (29763 voxels, peak = 107), gca=106.5
- gca peak = 0.11072 (51)
- mri peak = 0.04121 (51)
- Left_Cerebral_Cortex (3): linear fit = 0.99 x + 0.0 (18646 voxels, overlap=0.998)
- Left_Cerebral_Cortex (3): linear fit = 0.99 x + 0.0 (18646 voxels, peak = 50), gca=50.2
- gca peak = 0.12857 (52)
- mri peak = 0.04076 (50)
- Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (23156 voxels, overlap=0.998)
- Right_Cerebral_Cortex (42): linear fit = 0.99 x + 0.0 (23156 voxels, peak = 51), gca=51.2
- gca peak = 0.29496 (57)
- mri peak = 0.06467 (58)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (926 voxels, overlap=1.003)
- Right_Caudate (50): linear fit = 1.00 x + 0.0 (926 voxels, peak = 57), gca=57.0
- gca peak = 0.14974 (59)
- mri peak = 0.06940 (63)
- Left_Caudate (11): linear fit = 0.99 x + 0.0 (735 voxels, overlap=0.992)
- Left_Caudate (11): linear fit = 0.99 x + 0.0 (735 voxels, peak = 58), gca=58.1
- gca peak = 0.14765 (52)
- mri peak = 0.04033 (52)
- Left_Cerebellum_Cortex (8): linear fit = 0.96 x + 0.0 (13263 voxels, overlap=1.000)
- Left_Cerebellum_Cortex (8): linear fit = 0.96 x + 0.0 (13263 voxels, peak = 50), gca=50.2
- gca peak = 0.15520 (52)
- mri peak = 0.03929 (53)
- Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (13068 voxels, overlap=0.999)
- Right_Cerebellum_Cortex (47): linear fit = 1.00 x + 0.0 (13068 voxels, peak = 52), gca=51.7
- gca peak = 0.17489 (78)
- mri peak = 0.05042 (80)
- Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (2940 voxels, overlap=0.970)
- Left_Cerebellum_White_Matter (7): linear fit = 1.04 x + 0.0 (2940 voxels, peak = 82), gca=81.5
- gca peak = 0.18659 (82)
- mri peak = 0.04610 (80)
- Right_Cerebellum_White_Matter (46): linear fit = 1.05 x + 0.0 (2471 voxels, overlap=0.972)
- Right_Cerebellum_White_Matter (46): linear fit = 1.05 x + 0.0 (2471 voxels, peak = 87), gca=86.5
- gca peak = 0.30458 (53)
- mri peak = 0.08205 (63)
- Left_Amygdala (18): linear fit = 1.00 x + 0.0 (162 voxels, overlap=1.027)
- Left_Amygdala (18): linear fit = 1.00 x + 0.0 (162 voxels, peak = 53), gca=53.0
- gca peak = 0.33346 (52)
- mri peak = 0.08128 (52)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (131 voxels, overlap=0.898)
- Right_Amygdala (54): linear fit = 1.00 x + 0.0 (131 voxels, peak = 52), gca=52.0
- gca peak = 0.11596 (77)
- mri peak = 0.13477 (75)
- Left_Thalamus_Proper (10): linear fit = 1.02 x + 0.0 (4202 voxels, overlap=0.652)
- Left_Thalamus_Proper (10): linear fit = 1.02 x + 0.0 (4202 voxels, peak = 79), gca=78.9
- gca peak = 0.10619 (77)
- mri peak = 0.11931 (75)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (3779 voxels, overlap=0.847)
- Right_Thalamus_Proper (49): linear fit = 1.01 x + 0.0 (3779 voxels, peak = 78), gca=78.2
- gca peak = 0.08598 (71)
- mri peak = 0.07279 (65)
- Left_Putamen (12): linear fit = 0.99 x + 0.0 (1831 voxels, overlap=1.000)
- Left_Putamen (12): linear fit = 0.99 x + 0.0 (1831 voxels, peak = 70), gca=69.9
- gca peak = 0.10238 (68)
- mri peak = 0.09603 (66)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (615 voxels, overlap=0.984)
- Right_Putamen (51): linear fit = 1.00 x + 0.0 (615 voxels, peak = 68), gca=68.0
- gca peak = 0.08167 (85)
- mri peak = 0.11780 (80)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (5382 voxels, overlap=0.674)
- Brain_Stem (16): linear fit = 1.00 x + 0.0 (5382 voxels, peak = 85), gca=84.6
- gca peak = 0.12420 (85)
- mri peak = 0.14238 (80)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (968 voxels, overlap=0.706)
- Right_VentralDC (60): linear fit = 1.00 x + 0.0 (968 voxels, peak = 85), gca=84.6
- gca peak = 0.16562 (80)
- mri peak = 0.14900 (80)
- Left_VentralDC: unreasonable value (79.6/80.0), not in range [80, 110] - rejecting
- gca peak = 0.33708 (10)
- mri peak = 0.07757 (54)
- gca peak = 0.45928 ( 6)
- mri peak = 0.08371 (12)
- Fourth_Ventricle (15): linear fit = 1.79 x + 0.0 (294 voxels, overlap=0.945)
- Fourth_Ventricle (15): linear fit = 1.79 x + 0.0 (294 voxels, peak = 11), gca=10.8
- gca peak Unknown = 0.94835 ( 0)
- gca peak Left_Inf_Lat_Vent = 0.18199 (30)
- gca peak Left_Thalamus = 1.00000 (87)
- gca peak Third_Ventricle = 0.33708 (10)
- gca peak Fourth_Ventricle = 0.45928 ( 6)
- gca peak CSF = 0.26605 (13)
- gca peak Left_Accumbens_area = 0.81464 (53)
- gca peak Left_VentralDC = 0.16562 (80)
- gca peak Left_undetermined = 1.00000 (26)
- gca peak Left_vessel = 0.68929 (52)
- gca peak Left_choroid_plexus = 0.12089 (35)
- gca peak Right_Inf_Lat_Vent = 0.24867 (23)
- gca peak Right_Accumbens_area = 0.32354 (56)
- gca peak Right_vessel = 0.81765 (52)
- gca peak Right_choroid_plexus = 0.14516 (37)
- gca peak Fifth_Ventricle = 0.65560 (13)
- gca peak WM_hypointensities = 0.07285 (77)
- gca peak non_WM_hypointensities = 0.12093 (55)
- gca peak Optic_Chiasm = 0.71095 (75)
- not using caudate to estimate GM means
- setting label Left_VentralDC based on Right_VentralDC = 1.00 x + 0: 85
- estimating mean gm scale to be 1.01 x + 0.0
- estimating mean wm scale to be 1.00 x + 0.0
- estimating mean csf scale to be 0.97 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
- 119664 voxels changed in iteration 0 of unlikely voxel relabeling
- 296 voxels changed in iteration 1 of unlikely voxel relabeling
- 0 voxels changed in iteration 2 of unlikely voxel relabeling
- 50688 gm and wm labels changed (%28 to gray, %72 to white out of all changed labels)
- 877 hippocampal voxels changed.
- 0 amygdala voxels changed.
- pass 1: 106505 changed. image ll: -2.184, PF=0.500
- pass 2: 34803 changed. image ll: -2.183, PF=0.500
- pass 3: 11897 changed.
- pass 4: 4734 changed.
- 68243 voxels changed in iteration 0 of unlikely voxel relabeling
- 386 voxels changed in iteration 1 of unlikely voxel relabeling
- 1 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 8208 voxels changed in iteration 0 of unlikely voxel relabeling
- 194 voxels changed in iteration 1 of unlikely voxel relabeling
- 4 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- 6750 voxels changed in iteration 0 of unlikely voxel relabeling
- 73 voxels changed in iteration 1 of unlikely voxel relabeling
- 27 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
- 6209 voxels changed in iteration 0 of unlikely voxel relabeling
- 24 voxels changed in iteration 1 of unlikely voxel relabeling
- 5 voxels changed in iteration 2 of unlikely voxel relabeling
- 0 voxels changed in iteration 3 of unlikely voxel relabeling
- MRItoUCHAR: min=0, max=85
- MRItoUCHAR: converting to UCHAR
- writing labeled volume to aseg.auto_noCCseg.mgz
- mri_ca_label utimesec 4009.242502
- mri_ca_label stimesec 1.920708
- mri_ca_label ru_maxrss 2105440
- mri_ca_label ru_ixrss 0
- mri_ca_label ru_idrss 0
- mri_ca_label ru_isrss 0
- mri_ca_label ru_minflt 734347
- mri_ca_label ru_majflt 0
- mri_ca_label ru_nswap 0
- mri_ca_label ru_inblock 63280
- mri_ca_label ru_oublock 520
- mri_ca_label ru_msgsnd 0
- mri_ca_label ru_msgrcv 0
- mri_ca_label ru_nsignals 0
- mri_ca_label ru_nvcsw 285
- mri_ca_label ru_nivcsw 16360
- auto-labeling took 66 minutes and 5 seconds.
- mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz -lta /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/transforms/cc_up.lta 0050815
- 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-6.0.0/0050815/mri/transforms/cc_up.lta
- reading aseg from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/aseg.auto_noCCseg.mgz
- reading norm from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/norm.mgz
- 21853 voxels in left wm, 41277 in right wm, xrange [124, 133]
- searching rotation angles z=[-8 6], y=[-9 5]
-
searching scale 1 Z rot -7.7
searching scale 1 Z rot -7.5
searching scale 1 Z rot -7.2
searching scale 1 Z rot -7.0
searching scale 1 Z rot -6.7
searching scale 1 Z rot -6.5
searching scale 1 Z rot -6.2
searching scale 1 Z rot -6.0
searching scale 1 Z rot -5.7
searching scale 1 Z rot -5.5
searching scale 1 Z rot -5.2
searching scale 1 Z rot -5.0
searching scale 1 Z rot -4.7
searching scale 1 Z rot -4.5
searching scale 1 Z rot -4.2
searching scale 1 Z rot -4.0
searching scale 1 Z rot -3.7
searching scale 1 Z rot -3.5
searching scale 1 Z rot -3.2
searching scale 1 Z rot -3.0
searching scale 1 Z rot -2.7
searching scale 1 Z rot -2.5
searching scale 1 Z rot -2.2
searching scale 1 Z rot -2.0
searching scale 1 Z rot -1.7
searching scale 1 Z rot -1.5
searching scale 1 Z rot -1.2
searching scale 1 Z rot -1.0
searching scale 1 Z rot -0.7
searching scale 1 Z rot -0.5
searching scale 1 Z rot -0.2
searching scale 1 Z rot 0.0
searching scale 1 Z rot 0.3
searching scale 1 Z rot 0.5
searching scale 1 Z rot 0.8
searching scale 1 Z rot 1.0
searching scale 1 Z rot 1.3
searching scale 1 Z rot 1.5
searching scale 1 Z rot 1.8
searching scale 1 Z rot 2.0
searching scale 1 Z rot 2.3
searching scale 1 Z rot 2.5
searching scale 1 Z rot 2.8
searching scale 1 Z rot 3.0
searching scale 1 Z rot 3.3
searching scale 1 Z rot 3.5
searching scale 1 Z rot 3.8
searching scale 1 Z rot 4.0
searching scale 1 Z rot 4.3
searching scale 1 Z rot 4.5
searching scale 1 Z rot 4.8
searching scale 1 Z rot 5.0
searching scale 1 Z rot 5.3
searching scale 1 Z rot 5.5
searching scale 1 Z rot 5.8
searching scale 1 Z rot 6.0 global minimum found at slice 128.8, rotations (-1.78, -0.72)
- final transformation (x=128.8, yr=-1.775, zr=-0.718):
- 0.99944 0.01253 -0.03098 1.58180;
- -0.01252 0.99992 0.00039 19.57518;
- 0.03098 -0.00000 0.99952 6.06746;
- 0.00000 0.00000 0.00000 1.00000;
- updating x range to be [125, 131] in xformed coordinates
- best xformed slice 127
- cc center is found at 127 110 118
- eigenvectors:
- -0.00020 -0.00216 1.00000;
- -0.15918 -0.98725 -0.00217;
- 0.98725 -0.15918 -0.00015;
- writing aseg with callosum to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/aseg.auto.mgz...
- corpus callosum segmentation took 0.7 minutes
- #--------------------------------------
- #@# Merge ASeg Sat Oct 7 21:09:02 CEST 2017
- cp aseg.auto.mgz aseg.presurf.mgz
- #--------------------------------------------
- #@# Intensity Normalization2 Sat Oct 7 21:09:02 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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...
- 1767 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 90
- gm peak at 55 (55), valley at 0 (-1)
- 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 90
- gm peak at 51 (51), valley at 0 (-1)
- csf peak at 25, setting threshold to 42
- building Voronoi diagram...
- performing soap bubble smoothing, sigma = 8...
- Done iterating ---------------------------------
- writing output to brain.mgz
- 3D bias adjustment took 3 minutes and 8 seconds.
- #--------------------------------------------
- #@# Mask BFS Sat Oct 7 21:12:11 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri
- mri_mask -T 5 brain.mgz brainmask.mgz brain.finalsurfs.mgz
- threshold mask volume at 5
- DoAbs = 0
- Found 1588882 voxels in mask (pct= 9.47)
- Writing masked volume to brain.finalsurfs.mgz...done.
- #--------------------------------------------
- #@# WM Segmentation Sat Oct 7 21:12:12 CEST 2017
- mri_segment -mprage brain.mgz wm.seg.mgz
- doing initial intensity segmentation...
- using local statistics to label ambiguous voxels...
- computing class statistics for intensity windows...
- WM (104.0): 106.4 +- 6.0 [79.0 --> 125.0]
- GM (69.0) : 67.4 +- 9.6 [30.0 --> 95.0]
- setting bottom of white matter range to 77.0
- setting top of gray matter range to 86.6
- 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...
- 10651 sparsely connected voxels removed...
- thickening thin strands....
- 20 segments, 2823 filled
- 14 bright non-wm voxels segmented.
- 6126 diagonally connected voxels added...
- white matter segmentation took 1.5 minutes
- writing output to wm.seg.mgz...
- assuming input volume is MGH (Van der Kouwe) MP-RAGE
- mri_edit_wm_with_aseg -keep-in wm.seg.mgz brain.mgz aseg.presurf.mgz wm.asegedit.mgz
- preserving editing changes in input volume...
- auto filling took 1.05 minutes
- reading wm segmentation from wm.seg.mgz...
- 4077 voxels added to wm to prevent paths from MTL structures to cortex
- 6488 additional wm voxels added
- 0 additional wm voxels added
- SEG EDIT: 61282 voxels turned on, 9932 voxels turned off.
- propagating editing to output volume from wm.seg.mgz
- 115,126,128 old 89 new 89
- 115,126,128 old 89 new 89
- writing edited volume to wm.asegedit.mgz....
- mri_pretess wm.asegedit.mgz wm norm.mgz wm.mgz
- Iteration Number : 1
- pass 1 (xy+): 93 found - 93 modified | TOTAL: 93
- pass 2 (xy+): 0 found - 93 modified | TOTAL: 93
- pass 1 (xy-): 81 found - 81 modified | TOTAL: 174
- pass 2 (xy-): 0 found - 81 modified | TOTAL: 174
- pass 1 (yz+): 89 found - 89 modified | TOTAL: 263
- pass 2 (yz+): 0 found - 89 modified | TOTAL: 263
- pass 1 (yz-): 75 found - 75 modified | TOTAL: 338
- pass 2 (yz-): 0 found - 75 modified | TOTAL: 338
- pass 1 (xz+): 84 found - 84 modified | TOTAL: 422
- pass 2 (xz+): 0 found - 84 modified | TOTAL: 422
- pass 1 (xz-): 79 found - 79 modified | TOTAL: 501
- pass 2 (xz-): 0 found - 79 modified | TOTAL: 501
- Iteration Number : 1
- pass 1 (+++): 75 found - 75 modified | TOTAL: 75
- pass 2 (+++): 0 found - 75 modified | TOTAL: 75
- pass 1 (+++): 94 found - 94 modified | TOTAL: 169
- pass 2 (+++): 0 found - 94 modified | TOTAL: 169
- pass 1 (+++): 82 found - 82 modified | TOTAL: 251
- pass 2 (+++): 0 found - 82 modified | TOTAL: 251
- pass 1 (+++): 85 found - 85 modified | TOTAL: 336
- pass 2 (+++): 0 found - 85 modified | TOTAL: 336
- Iteration Number : 1
- pass 1 (++): 201 found - 201 modified | TOTAL: 201
- pass 2 (++): 0 found - 201 modified | TOTAL: 201
- pass 1 (+-): 233 found - 233 modified | TOTAL: 434
- pass 2 (+-): 1 found - 234 modified | TOTAL: 435
- pass 3 (+-): 0 found - 234 modified | TOTAL: 435
- pass 1 (--): 200 found - 200 modified | TOTAL: 635
- pass 2 (--): 0 found - 200 modified | TOTAL: 635
- pass 1 (-+): 235 found - 235 modified | TOTAL: 870
- pass 2 (-+): 0 found - 235 modified | TOTAL: 870
- Iteration Number : 2
- pass 1 (xy+): 22 found - 22 modified | TOTAL: 22
- pass 2 (xy+): 0 found - 22 modified | TOTAL: 22
- pass 1 (xy-): 32 found - 32 modified | TOTAL: 54
- pass 2 (xy-): 0 found - 32 modified | TOTAL: 54
- pass 1 (yz+): 21 found - 21 modified | TOTAL: 75
- pass 2 (yz+): 0 found - 21 modified | TOTAL: 75
- pass 1 (yz-): 16 found - 16 modified | TOTAL: 91
- pass 2 (yz-): 0 found - 16 modified | TOTAL: 91
- pass 1 (xz+): 24 found - 24 modified | TOTAL: 115
- pass 2 (xz+): 0 found - 24 modified | TOTAL: 115
- pass 1 (xz-): 22 found - 22 modified | TOTAL: 137
- pass 2 (xz-): 0 found - 22 modified | TOTAL: 137
- Iteration Number : 2
- pass 1 (+++): 7 found - 7 modified | TOTAL: 7
- pass 2 (+++): 0 found - 7 modified | TOTAL: 7
- pass 1 (+++): 5 found - 5 modified | TOTAL: 12
- pass 2 (+++): 0 found - 5 modified | TOTAL: 12
- pass 1 (+++): 6 found - 6 modified | TOTAL: 18
- pass 2 (+++): 0 found - 6 modified | TOTAL: 18
- pass 1 (+++): 7 found - 7 modified | TOTAL: 25
- pass 2 (+++): 0 found - 7 modified | TOTAL: 25
- Iteration Number : 2
- pass 1 (++): 16 found - 16 modified | TOTAL: 16
- pass 2 (++): 0 found - 16 modified | TOTAL: 16
- pass 1 (+-): 9 found - 9 modified | TOTAL: 25
- pass 2 (+-): 0 found - 9 modified | TOTAL: 25
- pass 1 (--): 9 found - 9 modified | TOTAL: 34
- pass 2 (--): 0 found - 9 modified | TOTAL: 34
- pass 1 (-+): 11 found - 11 modified | TOTAL: 45
- pass 2 (-+): 0 found - 11 modified | TOTAL: 45
- Iteration Number : 3
- pass 1 (xy+): 5 found - 5 modified | TOTAL: 5
- pass 2 (xy+): 0 found - 5 modified | TOTAL: 5
- pass 1 (xy-): 3 found - 3 modified | TOTAL: 8
- pass 2 (xy-): 0 found - 3 modified | TOTAL: 8
- pass 1 (yz+): 2 found - 2 modified | TOTAL: 10
- pass 2 (yz+): 0 found - 2 modified | TOTAL: 10
- pass 1 (yz-): 3 found - 3 modified | TOTAL: 13
- pass 2 (yz-): 0 found - 3 modified | TOTAL: 13
- pass 1 (xz+): 2 found - 2 modified | TOTAL: 15
- pass 2 (xz+): 0 found - 2 modified | TOTAL: 15
- pass 1 (xz-): 1 found - 1 modified | TOTAL: 16
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 16
- 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 (++): 1 found - 1 modified | TOTAL: 1
- pass 2 (++): 0 found - 1 modified | TOTAL: 1
- pass 1 (+-): 1 found - 1 modified | TOTAL: 2
- pass 2 (+-): 0 found - 1 modified | TOTAL: 2
- pass 1 (--): 0 found - 0 modified | TOTAL: 2
- pass 1 (-+): 2 found - 2 modified | TOTAL: 4
- pass 2 (-+): 0 found - 2 modified | TOTAL: 4
- 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+): 1 found - 1 modified | TOTAL: 1
- pass 2 (xz+): 0 found - 1 modified | TOTAL: 1
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 4
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 4
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 5
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 5
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 5
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 1935 (out of 419316: 0.461466)
- binarizing input wm segmentation...
- Ambiguous edge configurations...
- mri_pretess done
- #--------------------------------------------
- #@# Fill Sat Oct 7 21:14:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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
- 1.01749 0.01056 -0.05910 1.28516;
- 0.00398 1.12784 0.29698 -52.10687;
- 0.05350 -0.25530 0.93116 20.15352;
- 0.00000 0.00000 0.00000 1.00000;
- voxel to talairach voxel transform
- 1.01749 0.01056 -0.05910 1.28516;
- 0.00398 1.12784 0.29698 -52.10687;
- 0.05350 -0.25530 0.93116 20.15352;
- 0.00000 0.00000 0.00000 1.00000;
- reading segmented volume aseg.auto_noCCseg.mgz...
- Looking for area (min, max) = (350, 1400)
- area[0] = 856 (min = 350, max = 1400), aspect = 0.46 (min = 0.10, max = 0.75)
- no need to search
- using seed (126, 107, 117), TAL = (2.0, -11.0, 21.0)
- talairach voxel to voxel transform
- 0.97960 0.00457 0.06071 -2.24416;
- 0.01060 0.82700 -0.26309 48.38084;
- -0.05338 0.22648 0.99831 -8.24954;
- 0.00000 0.00000 0.00000 1.00000;
- segmentation indicates cc at (126, 107, 117) --> (2.0, -11.0, 21.0)
- done.
- writing output to filled.mgz...
- filling took 0.6 minutes
- talairach cc position changed to (2.00, -11.00, 21.00)
- Erasing brainstem...done.
- seed_search_size = 9, min_neighbors = 5
- search rh wm seed point around talairach space:(20.00, -11.00, 21.00) SRC: (111.15, 107.23, 127.02)
- search lh wm seed point around talairach space (-16.00, -11.00, 21.00), SRC: (146.41, 107.61, 125.10)
- compute mri_fill using aseg
- Erasing Brain Stem and Cerebellum ...
- Define left and right masks using aseg:
- Building Voronoi diagram ...
- Using the Voronoi diagram to separate WM into two hemispheres ...
- Find the largest connected component for each hemisphere ...
- #--------------------------------------------
- #@# Tessellate lh Sat Oct 7 21:15:26 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mri_pretess ../mri/filled.mgz 255 ../mri/norm.mgz ../mri/filled-pretess255.mgz
- Iteration Number : 1
- pass 1 (xy+): 3 found - 3 modified | TOTAL: 3
- pass 2 (xy+): 0 found - 3 modified | TOTAL: 3
- pass 1 (xy-): 3 found - 3 modified | TOTAL: 6
- pass 2 (xy-): 0 found - 3 modified | TOTAL: 6
- pass 1 (yz+): 1 found - 1 modified | TOTAL: 7
- pass 2 (yz+): 0 found - 1 modified | TOTAL: 7
- pass 1 (yz-): 4 found - 4 modified | TOTAL: 11
- pass 2 (yz-): 0 found - 4 modified | TOTAL: 11
- pass 1 (xz+): 3 found - 3 modified | TOTAL: 14
- pass 2 (xz+): 0 found - 3 modified | TOTAL: 14
- pass 1 (xz-): 1 found - 1 modified | TOTAL: 15
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 15
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 1 found - 1 modified | TOTAL: 1
- pass 2 (++): 0 found - 1 modified | TOTAL: 1
- pass 1 (+-): 0 found - 0 modified | TOTAL: 1
- pass 1 (--): 2 found - 2 modified | TOTAL: 3
- pass 2 (--): 0 found - 2 modified | TOTAL: 3
- pass 1 (-+): 2 found - 2 modified | TOTAL: 5
- pass 2 (-+): 0 found - 2 modified | TOTAL: 5
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 20 (out of 206691: 0.009676)
- Ambiguous edge configurations...
- mri_pretess done
- mri_tessellate ../mri/filled-pretess255.mgz 255 ../surf/lh.orig.nofix
- $Id: mri_tessellate.c,v 1.38.2.1 2016/07/26 18:46:38 zkaufman Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- slice 40: 46 vertices, 59 faces
- slice 50: 4023 vertices, 4246 faces
- slice 60: 11409 vertices, 11723 faces
- slice 70: 21756 vertices, 22190 faces
- slice 80: 32701 vertices, 33191 faces
- slice 90: 42537 vertices, 43012 faces
- slice 100: 53299 vertices, 53845 faces
- slice 110: 65498 vertices, 66198 faces
- slice 120: 76660 vertices, 77354 faces
- slice 130: 87090 vertices, 87782 faces
- slice 140: 97312 vertices, 98039 faces
- slice 150: 106654 vertices, 107411 faces
- slice 160: 113697 vertices, 114402 faces
- slice 170: 119358 vertices, 120087 faces
- slice 180: 124926 vertices, 125636 faces
- slice 190: 129499 vertices, 130207 faces
- slice 200: 132495 vertices, 133134 faces
- slice 210: 133882 vertices, 134468 faces
- slice 220: 133980 vertices, 134536 faces
- slice 230: 133980 vertices, 134536 faces
- slice 240: 133980 vertices, 134536 faces
- slice 250: 133980 vertices, 134536 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...
- 133980 voxel in cpt #1: X=-556 [v=133980,e=403608,f=269072] located at (-29.023115, -14.950963, 12.139782)
- For the whole surface: X=-556 [v=133980,e=403608,f=269072]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Tessellate rh Sat Oct 7 21:15:32 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mri_pretess ../mri/filled.mgz 127 ../mri/norm.mgz ../mri/filled-pretess127.mgz
- Iteration Number : 1
- pass 1 (xy+): 1 found - 1 modified | TOTAL: 1
- pass 2 (xy+): 0 found - 1 modified | TOTAL: 1
- pass 1 (xy-): 1 found - 1 modified | TOTAL: 2
- pass 2 (xy-): 0 found - 1 modified | TOTAL: 2
- pass 1 (yz+): 1 found - 1 modified | TOTAL: 3
- pass 2 (yz+): 0 found - 1 modified | TOTAL: 3
- pass 1 (yz-): 4 found - 4 modified | TOTAL: 7
- pass 2 (yz-): 0 found - 4 modified | TOTAL: 7
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 7
- pass 1 (xz-): 1 found - 1 modified | TOTAL: 8
- pass 2 (xz-): 0 found - 1 modified | TOTAL: 8
- Iteration Number : 1
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 1
- pass 1 (++): 1 found - 1 modified | TOTAL: 1
- pass 2 (++): 0 found - 1 modified | TOTAL: 1
- pass 1 (+-): 0 found - 0 modified | TOTAL: 1
- pass 1 (--): 0 found - 0 modified | TOTAL: 1
- pass 1 (-+): 0 found - 0 modified | TOTAL: 1
- Iteration Number : 2
- pass 1 (xy+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xy-): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (yz-): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz+): 0 found - 0 modified | TOTAL: 0
- pass 1 (xz-): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+++): 0 found - 0 modified | TOTAL: 0
- Iteration Number : 2
- pass 1 (++): 0 found - 0 modified | TOTAL: 0
- pass 1 (+-): 0 found - 0 modified | TOTAL: 0
- pass 1 (--): 0 found - 0 modified | TOTAL: 0
- pass 1 (-+): 0 found - 0 modified | TOTAL: 0
- Total Number of Modified Voxels = 9 (out of 204800: 0.004395)
- 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 40: 14 vertices, 19 faces
- slice 50: 2354 vertices, 2530 faces
- slice 60: 9673 vertices, 10063 faces
- slice 70: 21026 vertices, 21535 faces
- slice 80: 32424 vertices, 33024 faces
- slice 90: 43206 vertices, 43816 faces
- slice 100: 54048 vertices, 54767 faces
- slice 110: 66922 vertices, 67793 faces
- slice 120: 79549 vertices, 80380 faces
- slice 130: 91125 vertices, 91989 faces
- slice 140: 102517 vertices, 103445 faces
- slice 150: 111023 vertices, 111808 faces
- slice 160: 116546 vertices, 117343 faces
- slice 170: 123213 vertices, 124025 faces
- slice 180: 129174 vertices, 129967 faces
- slice 190: 134369 vertices, 135143 faces
- slice 200: 138127 vertices, 138909 faces
- slice 210: 140553 vertices, 141225 faces
- slice 220: 140682 vertices, 141328 faces
- slice 230: 140682 vertices, 141328 faces
- slice 240: 140682 vertices, 141328 faces
- slice 250: 140682 vertices, 141328 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...
- 140682 voxel in cpt #1: X=-646 [v=140682,e=423984,f=282656] located at (27.795120, -13.204027, 16.639727)
- For the whole surface: X=-646 [v=140682,e=423984,f=282656]
- One single component has been found
- nothing to do
- done
- #--------------------------------------------
- #@# Smooth1 lh Sat Oct 7 21:15:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix ../surf/lh.smoothwm.nofix
- #--------------------------------------------
- #@# Smooth1 rh Sat Oct 7 21:15:38 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_smooth -nw -seed 1234 ../surf/rh.orig.nofix ../surf/rh.smoothwm.nofix
- Waiting for PID 25126 of (25126 25129) to complete...
- Waiting for PID 25129 of (25126 25129) 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 (25126 25129) completed and logs appended.
- #--------------------------------------------
- #@# Inflation1 lh Sat Oct 7 21:15:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- #--------------------------------------------
- #@# Inflation1 rh Sat Oct 7 21:15:44 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Waiting for PID 25183 of (25183 25186) to complete...
- Waiting for PID 25186 of (25183 25186) to complete...
- mris_inflate -no-save-sulc ../surf/lh.smoothwm.nofix ../surf/lh.inflated.nofix
- Not saving sulc
- Reading ../surf/lh.smoothwm.nofix
- avg radius = 47.1 mm, total surface area = 66127 mm^2
- writing inflated surface to ../surf/lh.inflated.nofix
- inflation took 0.7 minutes
-
step 000: RMS=0.205 (target=0.015)
step 005: RMS=0.173 (target=0.015)
step 010: RMS=0.151 (target=0.015)
step 015: RMS=0.140 (target=0.015)
step 020: RMS=0.137 (target=0.015)
step 025: RMS=0.133 (target=0.015)
step 030: RMS=0.130 (target=0.015)
step 035: RMS=0.128 (target=0.015)
step 040: RMS=0.126 (target=0.015)
step 045: RMS=0.124 (target=0.015)
step 050: RMS=0.122 (target=0.015)
step 055: RMS=0.122 (target=0.015)
step 060: RMS=0.121 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 41.640669
- mris_inflate stimesec 0.107983
- mris_inflate ru_maxrss 198768
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 29189
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 9456
- mris_inflate ru_oublock 9472
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2211
- mris_inflate ru_nivcsw 3303
- mris_inflate -no-save-sulc ../surf/rh.smoothwm.nofix ../surf/rh.inflated.nofix
- Not saving sulc
- Reading ../surf/rh.smoothwm.nofix
- avg radius = 47.4 mm, total surface area = 68377 mm^2
- writing inflated surface to ../surf/rh.inflated.nofix
- inflation took 0.7 minutes
-
step 000: RMS=0.213 (target=0.015)
step 005: RMS=0.180 (target=0.015)
step 010: RMS=0.157 (target=0.015)
step 015: RMS=0.148 (target=0.015)
step 020: RMS=0.145 (target=0.015)
step 025: RMS=0.144 (target=0.015)
step 030: RMS=0.143 (target=0.015)
step 035: RMS=0.139 (target=0.015)
step 040: RMS=0.138 (target=0.015)
step 045: RMS=0.138 (target=0.015)
step 050: RMS=0.135 (target=0.015)
step 055: RMS=0.135 (target=0.015)
step 060: RMS=0.135 (target=0.015)
- inflation complete.
- Not saving sulc
- mris_inflate utimesec 40.138897
- mris_inflate stimesec 0.085986
- mris_inflate ru_maxrss 208820
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 30679
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 9928
- mris_inflate ru_oublock 9944
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2288
- mris_inflate ru_nivcsw 3221
- PIDs (25183 25186) completed and logs appended.
- #--------------------------------------------
- #@# QSphere lh Sat Oct 7 21:16:26 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- #--------------------------------------------
- #@# QSphere rh Sat Oct 7 21:16:26 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_sphere -q -seed 1234 ../surf/rh.inflated.nofix ../surf/rh.qsphere.nofix
- Waiting for PID 25285 of (25285 25288) to complete...
- Waiting for PID 25288 of (25285 25288) to complete...
- mris_sphere -q -seed 1234 ../surf/lh.inflated.nofix ../surf/lh.qsphere.nofix
- doing quick spherical unfolding.
- setting seed for random number genererator to 1234
- $Id: mris_sphere.c,v 1.61 2016/01/20 23:42:15 greve Exp $
- $Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $
- reading original vertex positions...
- unfolding cortex into spherical form...
- surface projected - minimizing metric distortion...
- vertex spacing 0.95 +- 0.79 (0.00-->14.30) (max @ vno 67648 --> 67669)
- face area 0.02 +- 0.04 (-0.43-->0.79)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.307...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=177.724, avgs=0
- 005/300: dt: 0.9000, rms radial error=177.460, avgs=0
- 010/300: dt: 0.9000, rms radial error=176.897, avgs=0
- 015/300: dt: 0.9000, rms radial error=176.158, avgs=0
- 020/300: dt: 0.9000, rms radial error=175.316, avgs=0
- 025/300: dt: 0.9000, rms radial error=174.418, avgs=0
- 030/300: dt: 0.9000, rms radial error=173.494, avgs=0
- 035/300: dt: 0.9000, rms radial error=172.553, avgs=0
- 040/300: dt: 0.9000, rms radial error=171.605, avgs=0
- 045/300: dt: 0.9000, rms radial error=170.654, avgs=0
- 050/300: dt: 0.9000, rms radial error=169.704, avgs=0
- 055/300: dt: 0.9000, rms radial error=168.755, avgs=0
- 060/300: dt: 0.9000, rms radial error=167.810, avgs=0
- 065/300: dt: 0.9000, rms radial error=166.868, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.930, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.997, avgs=0
- 080/300: dt: 0.9000, rms radial error=164.069, avgs=0
- 085/300: dt: 0.9000, rms radial error=163.145, avgs=0
- 090/300: dt: 0.9000, rms radial error=162.225, avgs=0
- 095/300: dt: 0.9000, rms radial error=161.311, avgs=0
- 100/300: dt: 0.9000, rms radial error=160.400, avgs=0
- 105/300: dt: 0.9000, rms radial error=159.493, avgs=0
- 110/300: dt: 0.9000, rms radial error=158.591, avgs=0
- 115/300: dt: 0.9000, rms radial error=157.693, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.799, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.910, avgs=0
- 130/300: dt: 0.9000, rms radial error=155.026, avgs=0
- 135/300: dt: 0.9000, rms radial error=154.146, avgs=0
- 140/300: dt: 0.9000, rms radial error=153.271, avgs=0
- 145/300: dt: 0.9000, rms radial error=152.401, avgs=0
- 150/300: dt: 0.9000, rms radial error=151.535, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.674, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.818, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.966, avgs=0
- 170/300: dt: 0.9000, rms radial error=148.120, avgs=0
- 175/300: dt: 0.9000, rms radial error=147.277, avgs=0
- 180/300: dt: 0.9000, rms radial error=146.440, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.607, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.779, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.959, avgs=0
- 200/300: dt: 0.9000, rms radial error=143.149, avgs=0
- 205/300: dt: 0.9000, rms radial error=142.344, avgs=0
- 210/300: dt: 0.9000, rms radial error=141.543, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.747, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.955, avgs=0
- 225/300: dt: 0.9000, rms radial error=139.168, avgs=0
- 230/300: dt: 0.9000, rms radial error=138.385, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.606, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.832, avgs=0
- 245/300: dt: 0.9000, rms radial error=136.062, avgs=0
- 250/300: dt: 0.9000, rms radial error=135.296, avgs=0
- 255/300: dt: 0.9000, rms radial error=134.535, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.778, avgs=0
- 265/300: dt: 0.9000, rms radial error=133.024, avgs=0
- 270/300: dt: 0.9000, rms radial error=132.276, avgs=0
- 275/300: dt: 0.9000, rms radial error=131.531, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.790, avgs=0
- 285/300: dt: 0.9000, rms radial error=130.054, avgs=0
- 290/300: dt: 0.9000, rms radial error=129.322, avgs=0
- 295/300: dt: 0.9000, rms radial error=128.594, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.869, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 16254.00
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00013
- epoch 2 (K=40.0), pass 1, starting sse = 3210.63
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00032
- epoch 3 (K=160.0), pass 1, starting sse = 568.33
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.02/10 = 0.00236
- epoch 4 (K=640.0), pass 1, starting sse = 115.07
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.07/10 = 0.00655
- final distance error %33.61
- writing spherical brain to ../surf/lh.qsphere.nofix
- spherical transformation took 0.06 hours
- mris_sphere utimesec 230.111017
- mris_sphere stimesec 0.203968
- mris_sphere ru_maxrss 198968
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 29237
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 9456
- mris_sphere ru_oublock 9496
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 7640
- mris_sphere ru_nivcsw 17960
- FSRUNTIME@ mris_sphere 0.0639 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 0.91 +- 0.77 (0.00-->10.89) (max @ vno 88377 --> 89542)
- face area 0.02 +- 0.05 (-0.26-->0.98)
- == Number of threads available to mris_sphere for OpenMP = 2 ==
- scaling brain by 0.312...
- inflating to sphere (rms error < 2.00)
- 000: dt: 0.0000, rms radial error=177.164, avgs=0
- 005/300: dt: 0.9000, rms radial error=176.903, avgs=0
- 010/300: dt: 0.9000, rms radial error=176.342, avgs=0
- 015/300: dt: 0.9000, rms radial error=175.606, avgs=0
- 020/300: dt: 0.9000, rms radial error=174.769, avgs=0
- 025/300: dt: 0.9000, rms radial error=173.874, avgs=0
- 030/300: dt: 0.9000, rms radial error=172.946, avgs=0
- 035/300: dt: 0.9000, rms radial error=172.001, avgs=0
- 040/300: dt: 0.9000, rms radial error=171.048, avgs=0
- 045/300: dt: 0.9000, rms radial error=170.092, avgs=0
- 050/300: dt: 0.9000, rms radial error=169.137, avgs=0
- 055/300: dt: 0.9000, rms radial error=168.184, avgs=0
- 060/300: dt: 0.9000, rms radial error=167.234, avgs=0
- 065/300: dt: 0.9000, rms radial error=166.288, avgs=0
- 070/300: dt: 0.9000, rms radial error=165.347, avgs=0
- 075/300: dt: 0.9000, rms radial error=164.410, avgs=0
- 080/300: dt: 0.9000, rms radial error=163.478, avgs=0
- 085/300: dt: 0.9000, rms radial error=162.549, avgs=0
- 090/300: dt: 0.9000, rms radial error=161.628, avgs=0
- 095/300: dt: 0.9000, rms radial error=160.712, avgs=0
- 100/300: dt: 0.9000, rms radial error=159.800, avgs=0
- 105/300: dt: 0.9000, rms radial error=158.893, avgs=0
- 110/300: dt: 0.9000, rms radial error=157.991, avgs=0
- 115/300: dt: 0.9000, rms radial error=157.094, avgs=0
- 120/300: dt: 0.9000, rms radial error=156.202, avgs=0
- 125/300: dt: 0.9000, rms radial error=155.314, avgs=0
- 130/300: dt: 0.9000, rms radial error=154.432, avgs=0
- 135/300: dt: 0.9000, rms radial error=153.553, avgs=0
- 140/300: dt: 0.9000, rms radial error=152.679, avgs=0
- 145/300: dt: 0.9000, rms radial error=151.809, avgs=0
- 150/300: dt: 0.9000, rms radial error=150.945, avgs=0
- 155/300: dt: 0.9000, rms radial error=150.085, avgs=0
- 160/300: dt: 0.9000, rms radial error=149.230, avgs=0
- 165/300: dt: 0.9000, rms radial error=148.379, avgs=0
- 170/300: dt: 0.9000, rms radial error=147.534, avgs=0
- 175/300: dt: 0.9000, rms radial error=146.692, avgs=0
- 180/300: dt: 0.9000, rms radial error=145.862, avgs=0
- 185/300: dt: 0.9000, rms radial error=145.036, avgs=0
- 190/300: dt: 0.9000, rms radial error=144.216, avgs=0
- 195/300: dt: 0.9000, rms radial error=143.400, avgs=0
- 200/300: dt: 0.9000, rms radial error=142.588, avgs=0
- 205/300: dt: 0.9000, rms radial error=141.781, avgs=0
- 210/300: dt: 0.9000, rms radial error=140.979, avgs=0
- 215/300: dt: 0.9000, rms radial error=140.180, avgs=0
- 220/300: dt: 0.9000, rms radial error=139.387, avgs=0
- 225/300: dt: 0.9000, rms radial error=138.597, avgs=0
- 230/300: dt: 0.9000, rms radial error=137.812, avgs=0
- 235/300: dt: 0.9000, rms radial error=137.032, avgs=0
- 240/300: dt: 0.9000, rms radial error=136.255, avgs=0
- 245/300: dt: 0.9000, rms radial error=135.483, avgs=0
- 250/300: dt: 0.9000, rms radial error=134.716, avgs=0
- 255/300: dt: 0.9000, rms radial error=133.952, avgs=0
- 260/300: dt: 0.9000, rms radial error=133.193, avgs=0
- 265/300: dt: 0.9000, rms radial error=132.438, avgs=0
- 270/300: dt: 0.9000, rms radial error=131.687, avgs=0
- 275/300: dt: 0.9000, rms radial error=130.939, avgs=0
- 280/300: dt: 0.9000, rms radial error=130.197, avgs=0
- 285/300: dt: 0.9000, rms radial error=129.458, avgs=0
- 290/300: dt: 0.9000, rms radial error=128.723, avgs=0
- 295/300: dt: 0.9000, rms radial error=127.992, avgs=0
- 300/300: dt: 0.9000, rms radial error=127.266, avgs=0
- spherical inflation complete.
- epoch 1 (K=10.0), pass 1, starting sse = 17033.40
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00014
- epoch 2 (K=40.0), pass 1, starting sse = 3347.00
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.00/10 = 0.00023
- epoch 3 (K=160.0), pass 1, starting sse = 603.55
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.02/10 = 0.00221
- epoch 4 (K=640.0), pass 1, starting sse = 123.48
- taking momentum steps...
- taking momentum steps...
- taking momentum steps...
- pass 1 complete, delta sse/iter = 0.06/11 = 0.00547
- final distance error %33.06
- writing spherical brain to ../surf/rh.qsphere.nofix
- spherical transformation took 0.06 hours
- mris_sphere utimesec 228.029334
- mris_sphere stimesec 0.121981
- mris_sphere ru_maxrss 209024
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 30728
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 9968
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 7726
- mris_sphere ru_nivcsw 17202
- FSRUNTIME@ mris_sphere 0.0634 hours 1 threads
- PIDs (25285 25288) completed and logs appended.
- #--------------------------------------------
- #@# Fix Topology Copy lh Sat Oct 7 21:20:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- cp ../surf/lh.orig.nofix ../surf/lh.orig
- cp ../surf/lh.inflated.nofix ../surf/lh.inflated
- #--------------------------------------------
- #@# Fix Topology Copy rh Sat Oct 7 21:20:16 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- cp ../surf/rh.orig.nofix ../surf/rh.orig
- cp ../surf/rh.inflated.nofix ../surf/rh.inflated
- #@# Fix Topology lh Sat Oct 7 21:20:16 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050815 lh
- #@# Fix Topology rh Sat Oct 7 21:20:16 CEST 2017
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050815 rh
- Waiting for PID 25499 of (25499 25502) to complete...
- Waiting for PID 25502 of (25499 25502) to complete...
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/touch/rusage.mris_fix_topology.lh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050815 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=-556 (nv=133980, nf=269072, ne=403608, g=279)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 11 iterations
- marking ambiguous vertices...
- 66798 ambiguous faces found in tessellation
- segmenting defects...
- 167 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 8 into 4
- -merging segment 62 into 45
- -merging segment 63 into 45
- -merging segment 72 into 66
- -merging segment 87 into 75
- -merging segment 88 into 77
- -merging segment 94 into 77
- -merging segment 97 into 77
- -merging segment 113 into 77
- -merging segment 104 into 101
- -merging segment 99 into 114
- -merging segment 135 into 117
- -merging segment 130 into 118
- -merging segment 119 into 129
- -merging segment 143 into 140
- -merging segment 155 into 153
- -merging segment 150 into 153
- -merging segment 162 into 159
- -merging segment 166 into 165
- 148 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.4220 (-4.7110)
- -vertex loglikelihood: -6.8818 (-3.4409)
- -normal dot loglikelihood: -3.5614 (-3.5614)
- -quad curv loglikelihood: -6.3474 (-3.1737)
- Total Loglikelihood : -26.2126
- CORRECTING DEFECT 0 (vertices=636, convex hull=453, v0=32)
- L defect detected...
- After retessellation of defect 0 (v0=32), euler #=-142 (96227,279247,182878) : difference with theory (-145) = -3
- CORRECTING DEFECT 1 (vertices=67, convex hull=106, v0=1363)
- After retessellation of defect 1 (v0=1363), euler #=-141 (96253,279375,182981) : difference with theory (-144) = -3
- CORRECTING DEFECT 2 (vertices=51, convex hull=62, v0=2263)
- After retessellation of defect 2 (v0=2263), euler #=-140 (96270,279451,183041) : difference with theory (-143) = -3
- CORRECTING DEFECT 3 (vertices=416, convex hull=192, v0=2332)
- After retessellation of defect 3 (v0=2332), euler #=-139 (96385,279887,183363) : difference with theory (-142) = -3
- CORRECTING DEFECT 4 (vertices=38, convex hull=55, v0=2501)
- After retessellation of defect 4 (v0=2501), euler #=-137 (96392,279930,183401) : difference with theory (-141) = -4
- CORRECTING DEFECT 5 (vertices=11, convex hull=21, v0=2799)
- After retessellation of defect 5 (v0=2799), euler #=-136 (96393,279939,183410) : difference with theory (-140) = -4
- CORRECTING DEFECT 6 (vertices=26, convex hull=51, v0=3096)
- After retessellation of defect 6 (v0=3096), euler #=-135 (96410,280007,183462) : difference with theory (-139) = -4
- CORRECTING DEFECT 7 (vertices=1551, convex hull=519, v0=3388)
- L defect detected...
- After retessellation of defect 7 (v0=3388), euler #=-134 (96759,281327,184434) : difference with theory (-138) = -4
- CORRECTING DEFECT 8 (vertices=271, convex hull=241, v0=4774)
- After retessellation of defect 8 (v0=4774), euler #=-133 (96867,281769,184769) : difference with theory (-137) = -4
- CORRECTING DEFECT 9 (vertices=28, convex hull=28, v0=4817)
- After retessellation of defect 9 (v0=4817), euler #=-132 (96870,281785,184783) : difference with theory (-136) = -4
- CORRECTING DEFECT 10 (vertices=23, convex hull=65, v0=5280)
- After retessellation of defect 10 (v0=5280), euler #=-131 (96879,281841,184831) : difference with theory (-135) = -4
- CORRECTING DEFECT 11 (vertices=60, convex hull=119, v0=6097)
- After retessellation of defect 11 (v0=6097), euler #=-130 (96913,281992,184949) : difference with theory (-134) = -4
- CORRECTING DEFECT 12 (vertices=44, convex hull=73, v0=6930)
- After retessellation of defect 12 (v0=6930), euler #=-129 (96934,282085,185022) : difference with theory (-133) = -4
- CORRECTING DEFECT 13 (vertices=5, convex hull=23, v0=7967)
- After retessellation of defect 13 (v0=7967), euler #=-128 (96934,282092,185030) : difference with theory (-132) = -4
- CORRECTING DEFECT 14 (vertices=22, convex hull=84, v0=9295)
- After retessellation of defect 14 (v0=9295), euler #=-127 (96945,282153,185081) : difference with theory (-131) = -4
- CORRECTING DEFECT 15 (vertices=35, convex hull=36, v0=9559)
- After retessellation of defect 15 (v0=9559), euler #=-126 (96951,282186,185109) : difference with theory (-130) = -4
- CORRECTING DEFECT 16 (vertices=314, convex hull=64, v0=10606)
- After retessellation of defect 16 (v0=10606), euler #=-125 (96996,282348,185227) : difference with theory (-129) = -4
- CORRECTING DEFECT 17 (vertices=603, convex hull=150, v0=10629)
- After retessellation of defect 17 (v0=10629), euler #=-124 (97072,282649,185453) : difference with theory (-128) = -4
- CORRECTING DEFECT 18 (vertices=19, convex hull=42, v0=11231)
- After retessellation of defect 18 (v0=11231), euler #=-123 (97081,282690,185486) : difference with theory (-127) = -4
- CORRECTING DEFECT 19 (vertices=97, convex hull=69, v0=11947)
- After retessellation of defect 19 (v0=11947), euler #=-122 (97094,282759,185543) : difference with theory (-126) = -4
- CORRECTING DEFECT 20 (vertices=471, convex hull=128, v0=12684)
- After retessellation of defect 20 (v0=12684), euler #=-121 (97172,283055,185762) : difference with theory (-125) = -4
- CORRECTING DEFECT 21 (vertices=36, convex hull=88, v0=13448)
- After retessellation of defect 21 (v0=13448), euler #=-120 (97191,283154,185843) : difference with theory (-124) = -4
- CORRECTING DEFECT 22 (vertices=177, convex hull=79, v0=14462)
- After retessellation of defect 22 (v0=14462), euler #=-119 (97224,283288,185945) : difference with theory (-123) = -4
- CORRECTING DEFECT 23 (vertices=28, convex hull=85, v0=15107)
- After retessellation of defect 23 (v0=15107), euler #=-118 (97233,283344,185993) : difference with theory (-122) = -4
- CORRECTING DEFECT 24 (vertices=29, convex hull=50, v0=15768)
- After retessellation of defect 24 (v0=15768), euler #=-117 (97242,283387,186028) : difference with theory (-121) = -4
- CORRECTING DEFECT 25 (vertices=1805, convex hull=353, v0=16252)
- L defect detected...
- normal vector of length zero at vertex 101325 with 3 faces
- After retessellation of defect 25 (v0=16252), euler #=-116 (97363,283938,186459) : difference with theory (-120) = -4
- CORRECTING DEFECT 26 (vertices=138, convex hull=163, v0=18828)
- After retessellation of defect 26 (v0=18828), euler #=-115 (97434,284237,186688) : difference with theory (-119) = -4
- CORRECTING DEFECT 27 (vertices=456, convex hull=177, v0=19416)
- After retessellation of defect 27 (v0=19416), euler #=-114 (97515,284564,186935) : difference with theory (-118) = -4
- CORRECTING DEFECT 28 (vertices=8, convex hull=24, v0=19466)
- After retessellation of defect 28 (v0=19466), euler #=-113 (97515,284570,186942) : difference with theory (-117) = -4
- CORRECTING DEFECT 29 (vertices=328, convex hull=160, v0=20296)
- After retessellation of defect 29 (v0=20296), euler #=-112 (97585,284854,187157) : difference with theory (-116) = -4
- CORRECTING DEFECT 30 (vertices=57, convex hull=90, v0=21563)
- After retessellation of defect 30 (v0=21563), euler #=-111 (97608,284962,187243) : difference with theory (-115) = -4
- CORRECTING DEFECT 31 (vertices=508, convex hull=131, v0=22114)
- After retessellation of defect 31 (v0=22114), euler #=-110 (97677,285233,187446) : difference with theory (-114) = -4
- CORRECTING DEFECT 32 (vertices=28, convex hull=59, v0=22566)
- After retessellation of defect 32 (v0=22566), euler #=-109 (97685,285283,187489) : difference with theory (-113) = -4
- CORRECTING DEFECT 33 (vertices=28, convex hull=42, v0=22639)
- After retessellation of defect 33 (v0=22639), euler #=-108 (97694,285325,187523) : difference with theory (-112) = -4
- CORRECTING DEFECT 34 (vertices=47, convex hull=87, v0=23171)
- After retessellation of defect 34 (v0=23171), euler #=-107 (97718,285433,187608) : difference with theory (-111) = -4
- CORRECTING DEFECT 35 (vertices=16, convex hull=27, v0=27757)
- After retessellation of defect 35 (v0=27757), euler #=-106 (97719,285445,187620) : difference with theory (-110) = -4
- CORRECTING DEFECT 36 (vertices=19, convex hull=33, v0=27905)
- After retessellation of defect 36 (v0=27905), euler #=-105 (97723,285472,187644) : difference with theory (-109) = -4
- CORRECTING DEFECT 37 (vertices=31, convex hull=23, v0=30410)
- After retessellation of defect 37 (v0=30410), euler #=-104 (97724,285485,187657) : difference with theory (-108) = -4
- CORRECTING DEFECT 38 (vertices=35, convex hull=86, v0=31086)
- After retessellation of defect 38 (v0=31086), euler #=-103 (97743,285574,187728) : difference with theory (-107) = -4
- CORRECTING DEFECT 39 (vertices=210, convex hull=94, v0=31337)
- After retessellation of defect 39 (v0=31337), euler #=-102 (97786,285743,187855) : difference with theory (-106) = -4
- CORRECTING DEFECT 40 (vertices=36, convex hull=43, v0=31720)
- After retessellation of defect 40 (v0=31720), euler #=-101 (97790,285771,187880) : difference with theory (-105) = -4
- CORRECTING DEFECT 41 (vertices=18, convex hull=55, v0=31979)
- After retessellation of defect 41 (v0=31979), euler #=-100 (97799,285818,187919) : difference with theory (-104) = -4
- CORRECTING DEFECT 42 (vertices=447, convex hull=174, v0=33018)
- After retessellation of defect 42 (v0=33018), euler #=-99 (97872,286121,188150) : difference with theory (-103) = -4
- CORRECTING DEFECT 43 (vertices=313, convex hull=201, v0=33371)
- After retessellation of defect 43 (v0=33371), euler #=-98 (98000,286609,188511) : difference with theory (-102) = -4
- CORRECTING DEFECT 44 (vertices=1244, convex hull=720, v0=33812)
- XL defect detected...
- After retessellation of defect 44 (v0=33812), euler #=-98 (98359,288080,189623) : difference with theory (-101) = -3
- CORRECTING DEFECT 45 (vertices=23, convex hull=23, v0=33833)
- After retessellation of defect 45 (v0=33833), euler #=-97 (98361,288096,189638) : difference with theory (-100) = -3
- CORRECTING DEFECT 46 (vertices=46, convex hull=23, v0=34258)
- After retessellation of defect 46 (v0=34258), euler #=-96 (98367,288120,189657) : difference with theory (-99) = -3
- CORRECTING DEFECT 47 (vertices=196, convex hull=126, v0=34654)
- After retessellation of defect 47 (v0=34654), euler #=-95 (98414,288320,189811) : difference with theory (-98) = -3
- CORRECTING DEFECT 48 (vertices=41, convex hull=72, v0=35489)
- After retessellation of defect 48 (v0=35489), euler #=-94 (98433,288405,189878) : difference with theory (-97) = -3
- CORRECTING DEFECT 49 (vertices=28, convex hull=26, v0=38615)
- After retessellation of defect 49 (v0=38615), euler #=-93 (98434,288417,189890) : difference with theory (-96) = -3
- CORRECTING DEFECT 50 (vertices=27, convex hull=17, v0=38950)
- After retessellation of defect 50 (v0=38950), euler #=-92 (98435,288424,189897) : difference with theory (-95) = -3
- CORRECTING DEFECT 51 (vertices=8, convex hull=23, v0=39243)
- After retessellation of defect 51 (v0=39243), euler #=-91 (98435,288433,189907) : difference with theory (-94) = -3
- CORRECTING DEFECT 52 (vertices=28, convex hull=32, v0=42446)
- After retessellation of defect 52 (v0=42446), euler #=-90 (98437,288450,189923) : difference with theory (-93) = -3
- CORRECTING DEFECT 53 (vertices=146, convex hull=138, v0=42454)
- After retessellation of defect 53 (v0=42454), euler #=-89 (98471,288623,190063) : difference with theory (-92) = -3
- CORRECTING DEFECT 54 (vertices=11, convex hull=33, v0=42915)
- After retessellation of defect 54 (v0=42915), euler #=-88 (98472,288638,190078) : difference with theory (-91) = -3
- CORRECTING DEFECT 55 (vertices=37, convex hull=81, v0=43420)
- After retessellation of defect 55 (v0=43420), euler #=-87 (98494,288740,190159) : difference with theory (-90) = -3
- CORRECTING DEFECT 56 (vertices=72, convex hull=112, v0=44623)
- After retessellation of defect 56 (v0=44623), euler #=-86 (98544,288939,190309) : difference with theory (-89) = -3
- CORRECTING DEFECT 57 (vertices=53, convex hull=72, v0=44708)
- After retessellation of defect 57 (v0=44708), euler #=-85 (98572,289051,190394) : difference with theory (-88) = -3
- CORRECTING DEFECT 58 (vertices=78, convex hull=70, v0=45435)
- After retessellation of defect 58 (v0=45435), euler #=-84 (98615,289210,190511) : difference with theory (-87) = -3
- CORRECTING DEFECT 59 (vertices=21, convex hull=32, v0=45552)
- After retessellation of defect 59 (v0=45552), euler #=-83 (98618,289232,190531) : difference with theory (-86) = -3
- CORRECTING DEFECT 60 (vertices=5, convex hull=21, v0=46397)
- After retessellation of defect 60 (v0=46397), euler #=-82 (98619,289241,190540) : difference with theory (-85) = -3
- CORRECTING DEFECT 61 (vertices=50, convex hull=29, v0=47621)
- After retessellation of defect 61 (v0=47621), euler #=-81 (98628,289277,190568) : difference with theory (-84) = -3
- CORRECTING DEFECT 62 (vertices=110, convex hull=68, v0=47793)
- After retessellation of defect 62 (v0=47793), euler #=-80 (98638,289338,190620) : difference with theory (-83) = -3
- CORRECTING DEFECT 63 (vertices=428, convex hull=376, v0=48803)
- After retessellation of defect 63 (v0=48803), euler #=-78 (98784,289960,191098) : difference with theory (-82) = -4
- CORRECTING DEFECT 64 (vertices=16, convex hull=26, v0=49962)
- After retessellation of defect 64 (v0=49962), euler #=-77 (98785,289972,191110) : difference with theory (-81) = -4
- CORRECTING DEFECT 65 (vertices=895, convex hull=265, v0=50091)
- After retessellation of defect 65 (v0=50091), euler #=-77 (99012,290799,191710) : difference with theory (-80) = -3
- CORRECTING DEFECT 66 (vertices=299, convex hull=160, v0=50709)
- After retessellation of defect 66 (v0=50709), euler #=-76 (99102,291144,191966) : difference with theory (-79) = -3
- CORRECTING DEFECT 67 (vertices=40, convex hull=22, v0=51557)
- After retessellation of defect 67 (v0=51557), euler #=-75 (99108,291172,191989) : difference with theory (-78) = -3
- CORRECTING DEFECT 68 (vertices=221, convex hull=196, v0=51587)
- After retessellation of defect 68 (v0=51587), euler #=-74 (99207,291570,192289) : difference with theory (-77) = -3
- CORRECTING DEFECT 69 (vertices=6, convex hull=24, v0=52367)
- After retessellation of defect 69 (v0=52367), euler #=-73 (99209,291582,192300) : difference with theory (-76) = -3
- CORRECTING DEFECT 70 (vertices=6, convex hull=19, v0=52626)
- After retessellation of defect 70 (v0=52626), euler #=-72 (99211,291595,192312) : difference with theory (-75) = -3
- CORRECTING DEFECT 71 (vertices=347, convex hull=118, v0=52993)
- After retessellation of defect 71 (v0=52993), euler #=-70 (99250,291769,192449) : difference with theory (-74) = -4
- CORRECTING DEFECT 72 (vertices=13, convex hull=26, v0=53076)
- After retessellation of defect 72 (v0=53076), euler #=-69 (99251,291781,192461) : difference with theory (-73) = -4
- CORRECTING DEFECT 73 (vertices=7796, convex hull=2497, v0=53236)
- XL defect detected...
- After retessellation of defect 73 (v0=53236), euler #=-72 (101034,298584,197478) : difference with theory (-72) = 0
- CORRECTING DEFECT 74 (vertices=639, convex hull=311, v0=53316)
- After retessellation of defect 74 (v0=53316), euler #=-71 (101253,299398,198074) : difference with theory (-71) = 0
- CORRECTING DEFECT 75 (vertices=145, convex hull=159, v0=53362)
- After retessellation of defect 75 (v0=53362), euler #=-70 (101346,299749,198333) : difference with theory (-70) = 0
- CORRECTING DEFECT 76 (vertices=35, convex hull=60, v0=53849)
- After retessellation of defect 76 (v0=53849), euler #=-69 (101367,299833,198397) : difference with theory (-69) = 0
- CORRECTING DEFECT 77 (vertices=45, convex hull=81, v0=55058)
- After retessellation of defect 77 (v0=55058), euler #=-68 (101380,299910,198462) : difference with theory (-68) = 0
- CORRECTING DEFECT 78 (vertices=24, convex hull=44, v0=55282)
- After retessellation of defect 78 (v0=55282), euler #=-67 (101385,299942,198490) : difference with theory (-67) = 0
- CORRECTING DEFECT 79 (vertices=55, convex hull=86, v0=55287)
- After retessellation of defect 79 (v0=55287), euler #=-66 (101408,300046,198572) : difference with theory (-66) = 0
- CORRECTING DEFECT 80 (vertices=25, convex hull=29, v0=56306)
- After retessellation of defect 80 (v0=56306), euler #=-65 (101411,300064,198588) : difference with theory (-65) = 0
- CORRECTING DEFECT 81 (vertices=100, convex hull=60, v0=58263)
- After retessellation of defect 81 (v0=58263), euler #=-64 (101420,300112,198628) : difference with theory (-64) = 0
- CORRECTING DEFECT 82 (vertices=87, convex hull=34, v0=59176)
- After retessellation of defect 82 (v0=59176), euler #=-63 (101424,300134,198647) : difference with theory (-63) = 0
- CORRECTING DEFECT 83 (vertices=43, convex hull=23, v0=59670)
- After retessellation of defect 83 (v0=59670), euler #=-62 (101428,300151,198661) : difference with theory (-62) = 0
- CORRECTING DEFECT 84 (vertices=848, convex hull=367, v0=59951)
- After retessellation of defect 84 (v0=59951), euler #=-61 (101684,301100,199355) : difference with theory (-61) = 0
- CORRECTING DEFECT 85 (vertices=43, convex hull=66, v0=59986)
- After retessellation of defect 85 (v0=59986), euler #=-60 (101708,301198,199430) : difference with theory (-60) = 0
- CORRECTING DEFECT 86 (vertices=1329, convex hull=318, v0=60475)
- L defect detected...
- After retessellation of defect 86 (v0=60475), euler #=-60 (101948,302085,200077) : difference with theory (-59) = 1
- CORRECTING DEFECT 87 (vertices=35, convex hull=25, v0=60479)
- After retessellation of defect 87 (v0=60479), euler #=-59 (101952,302107,200096) : difference with theory (-58) = 1
- CORRECTING DEFECT 88 (vertices=33, convex hull=37, v0=61546)
- After retessellation of defect 88 (v0=61546), euler #=-58 (101953,302123,200112) : difference with theory (-57) = 1
- CORRECTING DEFECT 89 (vertices=102, convex hull=60, v0=61970)
- After retessellation of defect 89 (v0=61970), euler #=-57 (101973,302213,200183) : difference with theory (-56) = 1
- CORRECTING DEFECT 90 (vertices=26, convex hull=34, v0=64030)
- After retessellation of defect 90 (v0=64030), euler #=-56 (101975,302227,200196) : difference with theory (-55) = 1
- CORRECTING DEFECT 91 (vertices=19, convex hull=39, v0=64946)
- After retessellation of defect 91 (v0=64946), euler #=-55 (101985,302273,200233) : difference with theory (-54) = 1
- CORRECTING DEFECT 92 (vertices=11, convex hull=27, v0=66009)
- After retessellation of defect 92 (v0=66009), euler #=-53 (101986,302287,200248) : difference with theory (-53) = 0
- CORRECTING DEFECT 93 (vertices=32, convex hull=62, v0=66092)
- After retessellation of defect 93 (v0=66092), euler #=-52 (102003,302358,200303) : difference with theory (-52) = 0
- CORRECTING DEFECT 94 (vertices=117, convex hull=116, v0=66234)
- After retessellation of defect 94 (v0=66234), euler #=-51 (102011,302443,200381) : difference with theory (-51) = 0
- CORRECTING DEFECT 95 (vertices=6, convex hull=22, v0=75310)
- After retessellation of defect 95 (v0=75310), euler #=-50 (102013,302458,200395) : difference with theory (-50) = 0
- CORRECTING DEFECT 96 (vertices=6, convex hull=30, v0=75597)
- After retessellation of defect 96 (v0=75597), euler #=-49 (102015,302473,200409) : difference with theory (-49) = 0
- CORRECTING DEFECT 97 (vertices=60, convex hull=83, v0=77203)
- After retessellation of defect 97 (v0=77203), euler #=-48 (102047,302604,200509) : difference with theory (-48) = 0
- CORRECTING DEFECT 98 (vertices=27, convex hull=42, v0=77629)
- After retessellation of defect 98 (v0=77629), euler #=-47 (102051,302631,200533) : difference with theory (-47) = 0
- CORRECTING DEFECT 99 (vertices=6, convex hull=25, v0=79441)
- After retessellation of defect 99 (v0=79441), euler #=-46 (102053,302644,200545) : difference with theory (-46) = 0
- CORRECTING DEFECT 100 (vertices=39, convex hull=30, v0=79932)
- After retessellation of defect 100 (v0=79932), euler #=-45 (102055,302657,200557) : difference with theory (-45) = 0
- CORRECTING DEFECT 101 (vertices=62, convex hull=56, v0=79981)
- After retessellation of defect 101 (v0=79981), euler #=-44 (102065,302708,200599) : difference with theory (-44) = 0
- CORRECTING DEFECT 102 (vertices=558, convex hull=299, v0=80096)
- After retessellation of defect 102 (v0=80096), euler #=-43 (102253,303429,201133) : difference with theory (-43) = 0
- CORRECTING DEFECT 103 (vertices=1817, convex hull=557, v0=83379)
- XL defect detected...
- After retessellation of defect 103 (v0=83379), euler #=-42 (102527,304539,201970) : difference with theory (-42) = 0
- CORRECTING DEFECT 104 (vertices=78, convex hull=81, v0=85920)
- After retessellation of defect 104 (v0=85920), euler #=-41 (102536,304596,202019) : difference with theory (-41) = 0
- CORRECTING DEFECT 105 (vertices=299, convex hull=207, v0=86347)
- After retessellation of defect 105 (v0=86347), euler #=-40 (102641,305006,202325) : difference with theory (-40) = 0
- CORRECTING DEFECT 106 (vertices=835, convex hull=361, v0=86474)
- After retessellation of defect 106 (v0=86474), euler #=-38 (102869,305880,202973) : difference with theory (-39) = -1
- CORRECTING DEFECT 107 (vertices=220, convex hull=117, v0=88119)
- After retessellation of defect 107 (v0=88119), euler #=-36 (102929,306110,203145) : difference with theory (-38) = -2
- CORRECTING DEFECT 108 (vertices=52, convex hull=32, v0=90152)
- After retessellation of defect 108 (v0=90152), euler #=-35 (102935,306140,203170) : difference with theory (-37) = -2
- CORRECTING DEFECT 109 (vertices=16, convex hull=20, v0=91006)
- After retessellation of defect 109 (v0=91006), euler #=-34 (102935,306146,203177) : difference with theory (-36) = -2
- CORRECTING DEFECT 110 (vertices=24, convex hull=46, v0=91170)
- After retessellation of defect 110 (v0=91170), euler #=-33 (102949,306199,203217) : difference with theory (-35) = -2
- CORRECTING DEFECT 111 (vertices=66, convex hull=109, v0=92256)
- After retessellation of defect 111 (v0=92256), euler #=-32 (102986,306355,203337) : difference with theory (-34) = -2
- CORRECTING DEFECT 112 (vertices=1039, convex hull=515, v0=92429)
- L defect detected...
- After retessellation of defect 112 (v0=92429), euler #=-31 (103209,307295,204055) : difference with theory (-33) = -2
- CORRECTING DEFECT 113 (vertices=42, convex hull=71, v0=92960)
- After retessellation of defect 113 (v0=92960), euler #=-30 (103218,307352,204104) : difference with theory (-32) = -2
- CORRECTING DEFECT 114 (vertices=125, convex hull=109, v0=94862)
- After retessellation of defect 114 (v0=94862), euler #=-29 (103263,307545,204253) : difference with theory (-31) = -2
- CORRECTING DEFECT 115 (vertices=10, convex hull=24, v0=95432)
- After retessellation of defect 115 (v0=95432), euler #=-28 (103264,307557,204265) : difference with theory (-30) = -2
- CORRECTING DEFECT 116 (vertices=70, convex hull=34, v0=96758)
- After retessellation of defect 116 (v0=96758), euler #=-27 (103273,307596,204296) : difference with theory (-29) = -2
- CORRECTING DEFECT 117 (vertices=768, convex hull=235, v0=96995)
- After retessellation of defect 117 (v0=96995), euler #=-25 (103281,307732,204426) : difference with theory (-28) = -3
- CORRECTING DEFECT 118 (vertices=71, convex hull=91, v0=99746)
- After retessellation of defect 118 (v0=99746), euler #=-24 (103325,307898,204549) : difference with theory (-27) = -3
- CORRECTING DEFECT 119 (vertices=568, convex hull=364, v0=100217)
- After retessellation of defect 119 (v0=100217), euler #=-23 (103529,308683,205131) : difference with theory (-26) = -3
- CORRECTING DEFECT 120 (vertices=72, convex hull=106, v0=100238)
- After retessellation of defect 120 (v0=100238), euler #=-22 (103557,308811,205232) : difference with theory (-25) = -3
- CORRECTING DEFECT 121 (vertices=5, convex hull=23, v0=101174)
- After retessellation of defect 121 (v0=101174), euler #=-21 (103558,308820,205241) : difference with theory (-24) = -3
- CORRECTING DEFECT 122 (vertices=42, convex hull=34, v0=105276)
- After retessellation of defect 122 (v0=105276), euler #=-21 (103565,308855,205269) : difference with theory (-23) = -2
- CORRECTING DEFECT 123 (vertices=941, convex hull=411, v0=106075)
- L defect detected...
- After retessellation of defect 123 (v0=106075), euler #=-21 (103892,310052,206139) : difference with theory (-22) = -1
- CORRECTING DEFECT 124 (vertices=13, convex hull=25, v0=109922)
- After retessellation of defect 124 (v0=109922), euler #=-20 (103895,310067,206152) : difference with theory (-21) = -1
- CORRECTING DEFECT 125 (vertices=61, convex hull=74, v0=110723)
- After retessellation of defect 125 (v0=110723), euler #=-19 (103926,310189,206244) : difference with theory (-20) = -1
- CORRECTING DEFECT 126 (vertices=824, convex hull=768, v0=111024)
- XL defect detected...
- After retessellation of defect 126 (v0=111024), euler #=-19 (104374,311970,207577) : difference with theory (-19) = 0
- CORRECTING DEFECT 127 (vertices=10, convex hull=13, v0=114710)
- After retessellation of defect 127 (v0=114710), euler #=-18 (104374,311973,207581) : difference with theory (-18) = 0
- CORRECTING DEFECT 128 (vertices=230, convex hull=116, v0=115257)
- After retessellation of defect 128 (v0=115257), euler #=-17 (104440,312228,207771) : difference with theory (-17) = 0
- CORRECTING DEFECT 129 (vertices=1317, convex hull=374, v0=115812)
- L defect detected...
- After retessellation of defect 129 (v0=115812), euler #=-20 (104582,312871,208269) : difference with theory (-16) = 4
- CORRECTING DEFECT 130 (vertices=65, convex hull=99, v0=116683)
- After retessellation of defect 130 (v0=116683), euler #=-19 (104620,313019,208380) : difference with theory (-15) = 4
- CORRECTING DEFECT 131 (vertices=94, convex hull=47, v0=116865)
- After retessellation of defect 131 (v0=116865), euler #=-18 (104629,313068,208421) : difference with theory (-14) = 4
- CORRECTING DEFECT 132 (vertices=23, convex hull=24, v0=118548)
- After retessellation of defect 132 (v0=118548), euler #=-17 (104631,313082,208434) : difference with theory (-13) = 4
- CORRECTING DEFECT 133 (vertices=39, convex hull=36, v0=120770)
- After retessellation of defect 133 (v0=120770), euler #=-16 (104634,313104,208454) : difference with theory (-12) = 4
- CORRECTING DEFECT 134 (vertices=100, convex hull=118, v0=121263)
- After retessellation of defect 134 (v0=121263), euler #=-15 (104674,313274,208585) : difference with theory (-11) = 4
- CORRECTING DEFECT 135 (vertices=248, convex hull=158, v0=123077)
- After retessellation of defect 135 (v0=123077), euler #=-14 (104751,313578,208813) : difference with theory (-10) = 4
- CORRECTING DEFECT 136 (vertices=32, convex hull=26, v0=123578)
- After retessellation of defect 136 (v0=123578), euler #=-13 (104755,313599,208831) : difference with theory (-9) = 4
- CORRECTING DEFECT 137 (vertices=506, convex hull=565, v0=124096)
- L defect detected...
- After retessellation of defect 137 (v0=124096), euler #=-10 (104963,314532,209559) : difference with theory (-8) = 2
- CORRECTING DEFECT 138 (vertices=15, convex hull=52, v0=124683)
- After retessellation of defect 138 (v0=124683), euler #=-9 (104965,314556,209582) : difference with theory (-7) = 2
- CORRECTING DEFECT 139 (vertices=32, convex hull=29, v0=126913)
- After retessellation of defect 139 (v0=126913), euler #=-8 (104970,314583,209605) : difference with theory (-6) = 2
- CORRECTING DEFECT 140 (vertices=111, convex hull=104, v0=127143)
- After retessellation of defect 140 (v0=127143), euler #=-7 (105005,314732,209720) : difference with theory (-5) = 2
- CORRECTING DEFECT 141 (vertices=70, convex hull=42, v0=127733)
- After retessellation of defect 141 (v0=127733), euler #=-6 (105010,314764,209748) : difference with theory (-4) = 2
- CORRECTING DEFECT 142 (vertices=203, convex hull=131, v0=128241)
- After retessellation of defect 142 (v0=128241), euler #=-4 (105038,314910,209868) : difference with theory (-3) = 1
- CORRECTING DEFECT 143 (vertices=9, convex hull=20, v0=128316)
- After retessellation of defect 143 (v0=128316), euler #=-3 (105039,314918,209876) : difference with theory (-2) = 1
- CORRECTING DEFECT 144 (vertices=120, convex hull=199, v0=129222)
- After retessellation of defect 144 (v0=129222), euler #=-2 (105115,315234,210117) : difference with theory (-1) = 1
- CORRECTING DEFECT 145 (vertices=55, convex hull=83, v0=131029)
- After retessellation of defect 145 (v0=131029), euler #=-1 (105141,315346,210204) : difference with theory (0) = 1
- CORRECTING DEFECT 146 (vertices=97, convex hull=100, v0=132448)
- After retessellation of defect 146 (v0=132448), euler #=0 (105171,315480,210309) : difference with theory (1) = 1
- CORRECTING DEFECT 147 (vertices=57, convex hull=50, v0=133574)
- After retessellation of defect 147 (v0=133574), euler #=2 (105178,315528,210352) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.92 +- 0.40 (0.05-->30.94) (max @ vno 55585 --> 60411)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.92 +- 0.40 (0.05-->30.94) (max @ vno 55585 --> 60411)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 444 mutations (34.4%), 847 crossovers (65.6%), 2642 vertices were eliminated
- building final representation...
- 28802 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=105178, nf=210352, ne=315528, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 663.5 minutes
- 0 defective edges
- removing intersecting faces
- 000: 2690 intersecting
- 001: 146 intersecting
- 002: 44 intersecting
- 003: 31 intersecting
- expanding nbhd size to 2
- 004: 37 intersecting
- expanding nbhd size to 3
- 005: 57 intersecting
- 006: 33 intersecting
- 007: 28 intersecting
- 008: 5 intersecting
- expanding nbhd size to 4
- 009: 5 intersecting
- mris_fix_topology utimesec 39807.188387
- mris_fix_topology stimesec 7.190906
- mris_fix_topology ru_maxrss 1081080
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 119867
- mris_fix_topology ru_majflt 1
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 21440
- mris_fix_topology ru_oublock 11312
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 665
- mris_fix_topology ru_nivcsw 148731
- FSRUNTIME@ mris_fix_topology lh 11.0582 hours 1 threads
- mris_fix_topology -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/touch/rusage.mris_fix_topology.rh.dat -mgz -sphere qsphere.nofix -ga -seed 1234 0050815 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=-646 (nv=140682, nf=282656, ne=423984, g=324)
- using quasi-homeomorphic spherical map to tessellate cortical surface...
- Correction of the Topology
- Finding true center and radius of Spherical Surface...done
- Surface centered at (0,0,0) with radius 100.0 in 10 iterations
- marking ambiguous vertices...
- 85999 ambiguous faces found in tessellation
- segmenting defects...
- 195 defects found, arbitrating ambiguous regions...
- analyzing neighboring defects...
- -merging segment 15 into 0
- -merging segment 29 into 5
- -merging segment 19 into 17
- -merging segment 45 into 36
- -merging segment 65 into 62
- -merging segment 85 into 62
- -merging segment 80 into 73
- -merging segment 123 into 74
- -merging segment 77 into 78
- -merging segment 99 into 92
- -merging segment 107 into 98
- -merging segment 102 into 98
- -merging segment 106 into 98
- -merging segment 128 into 104
- -merging segment 125 into 114
- -merging segment 127 into 116
- -merging segment 133 into 121
- -merging segment 139 into 138
- -merging segment 147 into 145
- -merging segment 162 into 156
- -merging segment 167 into 159
- -merging segment 159 into 168
- -merging segment 176 into 168
- -merging segment 180 into 175
- 171 defects to be corrected
- 0 vertices coincident
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.qsphere.nofix...
- reading brain volume from brain...
- reading wm segmentation from wm...
- Computing Initial Surface Statistics
- -face loglikelihood: -9.2377 (-4.6188)
- -vertex loglikelihood: -6.8313 (-3.4157)
- -normal dot loglikelihood: -3.5243 (-3.5243)
- -quad curv loglikelihood: -6.1633 (-3.0816)
- Total Loglikelihood : -25.7565
- CORRECTING DEFECT 0 (vertices=9543, convex hull=1959, v0=0)
- XL defect detected...
- After retessellation of defect 0 (v0=0), euler #=-172 (93668,270763,176923) : difference with theory (-168) = 4
- CORRECTING DEFECT 1 (vertices=32, convex hull=42, v0=546)
- After retessellation of defect 1 (v0=546), euler #=-171 (93672,270789,176946) : difference with theory (-167) = 4
- CORRECTING DEFECT 2 (vertices=49, convex hull=36, v0=611)
- After retessellation of defect 2 (v0=611), euler #=-170 (93673,270805,176962) : difference with theory (-166) = 4
- CORRECTING DEFECT 3 (vertices=6, convex hull=27, v0=625)
- After retessellation of defect 3 (v0=625), euler #=-169 (93674,270814,176971) : difference with theory (-165) = 4
- CORRECTING DEFECT 4 (vertices=10, convex hull=33, v0=776)
- After retessellation of defect 4 (v0=776), euler #=-168 (93675,270827,176984) : difference with theory (-164) = 4
- CORRECTING DEFECT 5 (vertices=5969, convex hull=1240, v0=2869)
- XL defect detected...
- After retessellation of defect 5 (v0=2869), euler #=-171 (94657,274505,179677) : difference with theory (-163) = 8
- CORRECTING DEFECT 6 (vertices=326, convex hull=106, v0=2954)
- After retessellation of defect 6 (v0=2954), euler #=-170 (94692,274670,179808) : difference with theory (-162) = 8
- CORRECTING DEFECT 7 (vertices=85, convex hull=95, v0=3008)
- After retessellation of defect 7 (v0=3008), euler #=-169 (94715,274786,179902) : difference with theory (-161) = 8
- CORRECTING DEFECT 8 (vertices=278, convex hull=171, v0=6053)
- After retessellation of defect 8 (v0=6053), euler #=-168 (94774,275040,180098) : difference with theory (-160) = 8
- CORRECTING DEFECT 9 (vertices=32, convex hull=82, v0=6654)
- After retessellation of defect 9 (v0=6654), euler #=-167 (94783,275099,180149) : difference with theory (-159) = 8
- CORRECTING DEFECT 10 (vertices=725, convex hull=201, v0=7048)
- After retessellation of defect 10 (v0=7048), euler #=-166 (94884,275506,180456) : difference with theory (-158) = 8
- CORRECTING DEFECT 11 (vertices=457, convex hull=368, v0=7470)
- After retessellation of defect 11 (v0=7470), euler #=-165 (95068,276269,181036) : difference with theory (-157) = 8
- CORRECTING DEFECT 12 (vertices=75, convex hull=35, v0=7980)
- After retessellation of defect 12 (v0=7980), euler #=-164 (95072,276295,181059) : difference with theory (-156) = 8
- CORRECTING DEFECT 13 (vertices=5, convex hull=17, v0=15738)
- After retessellation of defect 13 (v0=15738), euler #=-163 (95072,276299,181064) : difference with theory (-155) = 8
- CORRECTING DEFECT 14 (vertices=92, convex hull=50, v0=16501)
- After retessellation of defect 14 (v0=16501), euler #=-162 (95081,276343,181100) : difference with theory (-154) = 8
- CORRECTING DEFECT 15 (vertices=109, convex hull=50, v0=19093)
- After retessellation of defect 15 (v0=19093), euler #=-161 (95092,276394,181141) : difference with theory (-153) = 8
- CORRECTING DEFECT 16 (vertices=284, convex hull=172, v0=19599)
- After retessellation of defect 16 (v0=19599), euler #=-159 (95169,276712,181384) : difference with theory (-152) = 7
- CORRECTING DEFECT 17 (vertices=128, convex hull=72, v0=21735)
- After retessellation of defect 17 (v0=21735), euler #=-158 (95184,276785,181443) : difference with theory (-151) = 7
- CORRECTING DEFECT 18 (vertices=478, convex hull=130, v0=22579)
- After retessellation of defect 18 (v0=22579), euler #=-157 (95277,277123,181689) : difference with theory (-150) = 7
- CORRECTING DEFECT 19 (vertices=6, convex hull=26, v0=22760)
- After retessellation of defect 19 (v0=22760), euler #=-156 (95278,277133,181699) : difference with theory (-149) = 7
- CORRECTING DEFECT 20 (vertices=184, convex hull=47, v0=23966)
- After retessellation of defect 20 (v0=23966), euler #=-155 (95287,277177,181735) : difference with theory (-148) = 7
- CORRECTING DEFECT 21 (vertices=368, convex hull=178, v0=24853)
- After retessellation of defect 21 (v0=24853), euler #=-154 (95392,277586,182040) : difference with theory (-147) = 7
- CORRECTING DEFECT 22 (vertices=34, convex hull=67, v0=29433)
- After retessellation of defect 22 (v0=29433), euler #=-153 (95412,277673,182108) : difference with theory (-146) = 7
- CORRECTING DEFECT 23 (vertices=3662, convex hull=835, v0=30291)
- XL defect detected...
- After retessellation of defect 23 (v0=30291), euler #=-154 (95894,279564,183516) : difference with theory (-145) = 9
- CORRECTING DEFECT 24 (vertices=167, convex hull=72, v0=31625)
- After retessellation of defect 24 (v0=31625), euler #=-153 (95908,279638,183577) : difference with theory (-144) = 9
- CORRECTING DEFECT 25 (vertices=490, convex hull=182, v0=33963)
- After retessellation of defect 25 (v0=33963), euler #=-152 (96019,280054,183883) : difference with theory (-143) = 9
- CORRECTING DEFECT 26 (vertices=227, convex hull=133, v0=34350)
- After retessellation of defect 26 (v0=34350), euler #=-151 (96069,280269,184049) : difference with theory (-142) = 9
- CORRECTING DEFECT 27 (vertices=108, convex hull=62, v0=34711)
- After retessellation of defect 27 (v0=34711), euler #=-150 (96097,280377,184130) : difference with theory (-141) = 9
- CORRECTING DEFECT 28 (vertices=18, convex hull=66, v0=35342)
- After retessellation of defect 28 (v0=35342), euler #=-149 (96105,280422,184168) : difference with theory (-140) = 9
- CORRECTING DEFECT 29 (vertices=74, convex hull=104, v0=35649)
- After retessellation of defect 29 (v0=35649), euler #=-148 (96130,280542,184264) : difference with theory (-139) = 9
- CORRECTING DEFECT 30 (vertices=36, convex hull=83, v0=37379)
- After retessellation of defect 30 (v0=37379), euler #=-147 (96145,280621,184329) : difference with theory (-138) = 9
- CORRECTING DEFECT 31 (vertices=40, convex hull=70, v0=39464)
- After retessellation of defect 31 (v0=39464), euler #=-146 (96165,280707,184396) : difference with theory (-137) = 9
- CORRECTING DEFECT 32 (vertices=180, convex hull=64, v0=39788)
- After retessellation of defect 32 (v0=39788), euler #=-145 (96190,280810,184475) : difference with theory (-136) = 9
- CORRECTING DEFECT 33 (vertices=541, convex hull=472, v0=39820)
- L defect detected...
- After retessellation of defect 33 (v0=39820), euler #=-143 (96487,281963,185333) : difference with theory (-135) = 8
- CORRECTING DEFECT 34 (vertices=33, convex hull=70, v0=41272)
- After retessellation of defect 34 (v0=41272), euler #=-142 (96503,282035,185390) : difference with theory (-134) = 8
- CORRECTING DEFECT 35 (vertices=52, convex hull=38, v0=41639)
- After retessellation of defect 35 (v0=41639), euler #=-141 (96512,282074,185421) : difference with theory (-133) = 8
- CORRECTING DEFECT 36 (vertices=288, convex hull=244, v0=42892)
- After retessellation of defect 36 (v0=42892), euler #=-140 (96628,282532,185764) : difference with theory (-132) = 8
- CORRECTING DEFECT 37 (vertices=490, convex hull=215, v0=43344)
- After retessellation of defect 37 (v0=43344), euler #=-139 (96724,282913,186050) : difference with theory (-131) = 8
- CORRECTING DEFECT 38 (vertices=51, convex hull=38, v0=44842)
- After retessellation of defect 38 (v0=44842), euler #=-138 (96733,282953,186082) : difference with theory (-130) = 8
- CORRECTING DEFECT 39 (vertices=352, convex hull=201, v0=46114)
- After retessellation of defect 39 (v0=46114), euler #=-137 (96871,283460,186452) : difference with theory (-129) = 8
- CORRECTING DEFECT 40 (vertices=205, convex hull=140, v0=46206)
- After retessellation of defect 40 (v0=46206), euler #=-136 (96911,283640,186593) : difference with theory (-128) = 8
- CORRECTING DEFECT 41 (vertices=26, convex hull=30, v0=46732)
- After retessellation of defect 41 (v0=46732), euler #=-135 (96916,283667,186616) : difference with theory (-127) = 8
- CORRECTING DEFECT 42 (vertices=69, convex hull=86, v0=47439)
- After retessellation of defect 42 (v0=47439), euler #=-134 (96951,283812,186727) : difference with theory (-126) = 8
- CORRECTING DEFECT 43 (vertices=56, convex hull=97, v0=47636)
- After retessellation of defect 43 (v0=47636), euler #=-133 (96985,283954,186836) : difference with theory (-125) = 8
- CORRECTING DEFECT 44 (vertices=66, convex hull=51, v0=48875)
- After retessellation of defect 44 (v0=48875), euler #=-132 (97009,284048,186907) : difference with theory (-124) = 8
- CORRECTING DEFECT 45 (vertices=78, convex hull=102, v0=49150)
- After retessellation of defect 45 (v0=49150), euler #=-131 (97043,284191,187017) : difference with theory (-123) = 8
- CORRECTING DEFECT 46 (vertices=40, convex hull=59, v0=49582)
- After retessellation of defect 46 (v0=49582), euler #=-130 (97052,284244,187062) : difference with theory (-122) = 8
- CORRECTING DEFECT 47 (vertices=64, convex hull=125, v0=51883)
- After retessellation of defect 47 (v0=51883), euler #=-129 (97093,284422,187200) : difference with theory (-121) = 8
- CORRECTING DEFECT 48 (vertices=53, convex hull=29, v0=52078)
- After retessellation of defect 48 (v0=52078), euler #=-128 (97094,284434,187212) : difference with theory (-120) = 8
- CORRECTING DEFECT 49 (vertices=44, convex hull=75, v0=54500)
- After retessellation of defect 49 (v0=54500), euler #=-127 (97113,284521,187281) : difference with theory (-119) = 8
- CORRECTING DEFECT 50 (vertices=332, convex hull=371, v0=54647)
- After retessellation of defect 50 (v0=54647), euler #=-126 (97317,285343,187900) : difference with theory (-118) = 8
- CORRECTING DEFECT 51 (vertices=70, convex hull=101, v0=54902)
- After retessellation of defect 51 (v0=54902), euler #=-125 (97342,285464,187997) : difference with theory (-117) = 8
- CORRECTING DEFECT 52 (vertices=631, convex hull=336, v0=55999)
- After retessellation of defect 52 (v0=55999), euler #=-124 (97414,285836,188298) : difference with theory (-116) = 8
- CORRECTING DEFECT 53 (vertices=293, convex hull=261, v0=57683)
- After retessellation of defect 53 (v0=57683), euler #=-124 (97569,286447,188754) : difference with theory (-115) = 9
- CORRECTING DEFECT 54 (vertices=37, convex hull=70, v0=57773)
- After retessellation of defect 54 (v0=57773), euler #=-123 (97585,286522,188814) : difference with theory (-114) = 9
- CORRECTING DEFECT 55 (vertices=52, convex hull=72, v0=58306)
- After retessellation of defect 55 (v0=58306), euler #=-122 (97612,286632,188898) : difference with theory (-113) = 9
- CORRECTING DEFECT 56 (vertices=34, convex hull=28, v0=58590)
- After retessellation of defect 56 (v0=58590), euler #=-121 (97620,286664,188923) : difference with theory (-112) = 9
- CORRECTING DEFECT 57 (vertices=74, convex hull=41, v0=58725)
- After retessellation of defect 57 (v0=58725), euler #=-120 (97629,286711,188962) : difference with theory (-111) = 9
- CORRECTING DEFECT 58 (vertices=604, convex hull=556, v0=59045)
- L defect detected...
- After retessellation of defect 58 (v0=59045), euler #=-117 (97891,287819,189811) : difference with theory (-110) = 7
- CORRECTING DEFECT 59 (vertices=138, convex hull=126, v0=59883)
- After retessellation of defect 59 (v0=59883), euler #=-118 (97954,288076,190004) : difference with theory (-109) = 9
- CORRECTING DEFECT 60 (vertices=76, convex hull=79, v0=60959)
- After retessellation of defect 60 (v0=60959), euler #=-117 (97977,288180,190086) : difference with theory (-108) = 9
- CORRECTING DEFECT 61 (vertices=39, convex hull=38, v0=62027)
- After retessellation of defect 61 (v0=62027), euler #=-116 (97981,288204,190107) : difference with theory (-107) = 9
- CORRECTING DEFECT 62 (vertices=136, convex hull=50, v0=62558)
- After retessellation of defect 62 (v0=62558), euler #=-115 (97994,288264,190155) : difference with theory (-106) = 9
- CORRECTING DEFECT 63 (vertices=136, convex hull=159, v0=62639)
- After retessellation of defect 63 (v0=62639), euler #=-114 (98075,288583,190394) : difference with theory (-105) = 9
- CORRECTING DEFECT 64 (vertices=20, convex hull=22, v0=62904)
- After retessellation of defect 64 (v0=62904), euler #=-113 (98075,288591,190403) : difference with theory (-104) = 9
- CORRECTING DEFECT 65 (vertices=22, convex hull=59, v0=63236)
- After retessellation of defect 65 (v0=63236), euler #=-112 (98085,288643,190446) : difference with theory (-103) = 9
- CORRECTING DEFECT 66 (vertices=90, convex hull=111, v0=63246)
- After retessellation of defect 66 (v0=63246), euler #=-111 (98135,288840,190594) : difference with theory (-102) = 9
- CORRECTING DEFECT 67 (vertices=30, convex hull=67, v0=63436)
- After retessellation of defect 67 (v0=63436), euler #=-110 (98154,288922,190658) : difference with theory (-101) = 9
- CORRECTING DEFECT 68 (vertices=132, convex hull=167, v0=63826)
- After retessellation of defect 68 (v0=63826), euler #=-108 (98223,289208,190877) : difference with theory (-100) = 8
- CORRECTING DEFECT 69 (vertices=2657, convex hull=573, v0=65026)
- XL defect detected...
- After retessellation of defect 69 (v0=65026), euler #=-107 (98558,290512,191847) : difference with theory (-99) = 8
- CORRECTING DEFECT 70 (vertices=22, convex hull=33, v0=65272)
- After retessellation of defect 70 (v0=65272), euler #=-106 (98561,290532,191865) : difference with theory (-98) = 8
- CORRECTING DEFECT 71 (vertices=19, convex hull=13, v0=65374)
- After retessellation of defect 71 (v0=65374), euler #=-105 (98561,290536,191870) : difference with theory (-97) = 8
- CORRECTING DEFECT 72 (vertices=377, convex hull=195, v0=66664)
- After retessellation of defect 72 (v0=66664), euler #=-103 (98590,290714,192021) : difference with theory (-96) = 7
- CORRECTING DEFECT 73 (vertices=11, convex hull=27, v0=67756)
- After retessellation of defect 73 (v0=67756), euler #=-102 (98591,290724,192031) : difference with theory (-95) = 7
- CORRECTING DEFECT 74 (vertices=58, convex hull=36, v0=69592)
- After retessellation of defect 74 (v0=69592), euler #=-101 (98599,290758,192058) : difference with theory (-94) = 7
- CORRECTING DEFECT 75 (vertices=28, convex hull=29, v0=70294)
- After retessellation of defect 75 (v0=70294), euler #=-100 (98602,290776,192074) : difference with theory (-93) = 7
- CORRECTING DEFECT 76 (vertices=52, convex hull=60, v0=72610)
- After retessellation of defect 76 (v0=72610), euler #=-99 (98621,290859,192139) : difference with theory (-92) = 7
- CORRECTING DEFECT 77 (vertices=100, convex hull=117, v0=73113)
- After retessellation of defect 77 (v0=73113), euler #=-98 (98681,291092,192313) : difference with theory (-91) = 7
- CORRECTING DEFECT 78 (vertices=28, convex hull=52, v0=75021)
- After retessellation of defect 78 (v0=75021), euler #=-98 (98694,291159,192367) : difference with theory (-90) = 8
- CORRECTING DEFECT 79 (vertices=355, convex hull=184, v0=75998)
- After retessellation of defect 79 (v0=75998), euler #=-97 (98812,291610,192701) : difference with theory (-89) = 8
- CORRECTING DEFECT 80 (vertices=22, convex hull=28, v0=76009)
- After retessellation of defect 80 (v0=76009), euler #=-96 (98815,291626,192715) : difference with theory (-88) = 8
- CORRECTING DEFECT 81 (vertices=13, convex hull=32, v0=77040)
- After retessellation of defect 81 (v0=77040), euler #=-95 (98817,291641,192729) : difference with theory (-87) = 8
- CORRECTING DEFECT 82 (vertices=55, convex hull=93, v0=77662)
- After retessellation of defect 82 (v0=77662), euler #=-94 (98847,291773,192832) : difference with theory (-86) = 8
- CORRECTING DEFECT 83 (vertices=14, convex hull=24, v0=78080)
- After retessellation of defect 83 (v0=78080), euler #=-93 (98849,291785,192843) : difference with theory (-85) = 8
- CORRECTING DEFECT 84 (vertices=16, convex hull=30, v0=79290)
- After retessellation of defect 84 (v0=79290), euler #=-91 (98852,291807,192864) : difference with theory (-84) = 7
- CORRECTING DEFECT 85 (vertices=208, convex hull=197, v0=79364)
- After retessellation of defect 85 (v0=79364), euler #=-90 (98943,292169,193136) : difference with theory (-83) = 7
- CORRECTING DEFECT 86 (vertices=28, convex hull=39, v0=79599)
- After retessellation of defect 86 (v0=79599), euler #=-89 (98946,292197,193162) : difference with theory (-82) = 7
- CORRECTING DEFECT 87 (vertices=98, convex hull=62, v0=81156)
- After retessellation of defect 87 (v0=81156), euler #=-88 (98965,292281,193228) : difference with theory (-81) = 7
- CORRECTING DEFECT 88 (vertices=326, convex hull=297, v0=82097)
- After retessellation of defect 88 (v0=82097), euler #=-88 (99084,292801,193629) : difference with theory (-80) = 8
- CORRECTING DEFECT 89 (vertices=34, convex hull=70, v0=82476)
- After retessellation of defect 89 (v0=82476), euler #=-87 (99102,292882,193693) : difference with theory (-79) = 8
- CORRECTING DEFECT 90 (vertices=1128, convex hull=554, v0=82711)
- L defect detected...
- After retessellation of defect 90 (v0=82711), euler #=-83 (99323,293839,194433) : difference with theory (-78) = 5
- CORRECTING DEFECT 91 (vertices=260, convex hull=185, v0=83740)
- After retessellation of defect 91 (v0=83740), euler #=-82 (99390,294135,194663) : difference with theory (-77) = 5
- CORRECTING DEFECT 92 (vertices=45, convex hull=78, v0=84149)
- After retessellation of defect 92 (v0=84149), euler #=-81 (99417,294249,194751) : difference with theory (-76) = 5
- CORRECTING DEFECT 93 (vertices=84, convex hull=75, v0=86248)
- After retessellation of defect 93 (v0=86248), euler #=-80 (99437,294345,194828) : difference with theory (-75) = 5
- CORRECTING DEFECT 94 (vertices=252, convex hull=235, v0=86548)
- After retessellation of defect 94 (v0=86548), euler #=-78 (99535,294757,195144) : difference with theory (-74) = 4
- CORRECTING DEFECT 95 (vertices=59, convex hull=103, v0=87827)
- After retessellation of defect 95 (v0=87827), euler #=-77 (99566,294894,195251) : difference with theory (-73) = 4
- CORRECTING DEFECT 96 (vertices=9, convex hull=14, v0=89843)
- After retessellation of defect 96 (v0=89843), euler #=-76 (99567,294900,195257) : difference with theory (-72) = 4
- CORRECTING DEFECT 97 (vertices=15, convex hull=20, v0=90000)
- After retessellation of defect 97 (v0=90000), euler #=-75 (99568,294907,195264) : difference with theory (-71) = 4
- CORRECTING DEFECT 98 (vertices=64, convex hull=24, v0=90359)
- After retessellation of defect 98 (v0=90359), euler #=-74 (99572,294924,195278) : difference with theory (-70) = 4
- CORRECTING DEFECT 99 (vertices=123, convex hull=41, v0=91450)
- After retessellation of defect 99 (v0=91450), euler #=-73 (99579,294962,195310) : difference with theory (-69) = 4
- CORRECTING DEFECT 100 (vertices=77, convex hull=93, v0=92043)
- After retessellation of defect 100 (v0=92043), euler #=-72 (99613,295104,195419) : difference with theory (-68) = 4
- CORRECTING DEFECT 101 (vertices=39, convex hull=48, v0=92066)
- After retessellation of defect 101 (v0=92066), euler #=-71 (99620,295144,195453) : difference with theory (-67) = 4
- CORRECTING DEFECT 102 (vertices=79, convex hull=98, v0=92882)
- After retessellation of defect 102 (v0=92882), euler #=-69 (99642,295255,195544) : difference with theory (-66) = 3
- CORRECTING DEFECT 103 (vertices=165, convex hull=159, v0=93423)
- After retessellation of defect 103 (v0=93423), euler #=-68 (99714,295546,195764) : difference with theory (-65) = 3
- CORRECTING DEFECT 104 (vertices=106, convex hull=211, v0=93444)
- After retessellation of defect 104 (v0=93444), euler #=-66 (99784,295851,196001) : difference with theory (-64) = 2
- CORRECTING DEFECT 105 (vertices=535, convex hull=280, v0=94168)
- After retessellation of defect 105 (v0=94168), euler #=-65 (99919,296389,196405) : difference with theory (-63) = 2
- CORRECTING DEFECT 106 (vertices=92, convex hull=52, v0=95528)
- After retessellation of defect 106 (v0=95528), euler #=-64 (99936,296458,196458) : difference with theory (-62) = 2
- CORRECTING DEFECT 107 (vertices=122, convex hull=79, v0=95587)
- After retessellation of defect 107 (v0=95587), euler #=-63 (99945,296514,196506) : difference with theory (-61) = 2
- CORRECTING DEFECT 108 (vertices=201, convex hull=116, v0=96646)
- After retessellation of defect 108 (v0=96646), euler #=-62 (100014,296778,196702) : difference with theory (-60) = 2
- CORRECTING DEFECT 109 (vertices=726, convex hull=204, v0=97076)
- After retessellation of defect 109 (v0=97076), euler #=-60 (100118,297195,197017) : difference with theory (-59) = 1
- CORRECTING DEFECT 110 (vertices=88, convex hull=34, v0=97295)
- After retessellation of defect 110 (v0=97295), euler #=-59 (100132,297249,197058) : difference with theory (-58) = 1
- CORRECTING DEFECT 111 (vertices=52, convex hull=34, v0=97918)
- After retessellation of defect 111 (v0=97918), euler #=-58 (100141,297287,197088) : difference with theory (-57) = 1
- CORRECTING DEFECT 112 (vertices=446, convex hull=155, v0=100207)
- After retessellation of defect 112 (v0=100207), euler #=-57 (100177,297474,197240) : difference with theory (-56) = 1
- CORRECTING DEFECT 113 (vertices=21, convex hull=27, v0=100658)
- After retessellation of defect 113 (v0=100658), euler #=-56 (100180,297494,197258) : difference with theory (-55) = 1
- CORRECTING DEFECT 114 (vertices=33, convex hull=80, v0=100853)
- After retessellation of defect 114 (v0=100853), euler #=-55 (100193,297566,197318) : difference with theory (-54) = 1
- CORRECTING DEFECT 115 (vertices=425, convex hull=196, v0=100894)
- After retessellation of defect 115 (v0=100894), euler #=-54 (100261,297861,197546) : difference with theory (-53) = 1
- CORRECTING DEFECT 116 (vertices=588, convex hull=327, v0=100976)
- After retessellation of defect 116 (v0=100976), euler #=-53 (100405,298443,197985) : difference with theory (-52) = 1
- CORRECTING DEFECT 117 (vertices=13, convex hull=23, v0=102327)
- After retessellation of defect 117 (v0=102327), euler #=-52 (100408,298458,197998) : difference with theory (-51) = 1
- CORRECTING DEFECT 118 (vertices=128, convex hull=166, v0=103665)
- After retessellation of defect 118 (v0=103665), euler #=-51 (100486,298771,198234) : difference with theory (-50) = 1
- CORRECTING DEFECT 119 (vertices=32, convex hull=44, v0=104986)
- After retessellation of defect 119 (v0=104986), euler #=-50 (100491,298807,198266) : difference with theory (-49) = 1
- CORRECTING DEFECT 120 (vertices=51, convex hull=65, v0=105713)
- After retessellation of defect 120 (v0=105713), euler #=-49 (100519,298920,198352) : difference with theory (-48) = 1
- CORRECTING DEFECT 121 (vertices=763, convex hull=519, v0=105783)
- L defect detected...
- After retessellation of defect 121 (v0=105783), euler #=-49 (100730,299831,199052) : difference with theory (-47) = 2
- CORRECTING DEFECT 122 (vertices=43, convex hull=23, v0=106829)
- After retessellation of defect 122 (v0=106829), euler #=-48 (100733,299846,199065) : difference with theory (-46) = 2
- CORRECTING DEFECT 123 (vertices=11, convex hull=20, v0=107396)
- After retessellation of defect 123 (v0=107396), euler #=-47 (100736,299859,199076) : difference with theory (-45) = 2
- CORRECTING DEFECT 124 (vertices=25, convex hull=62, v0=107675)
- After retessellation of defect 124 (v0=107675), euler #=-46 (100750,299923,199127) : difference with theory (-44) = 2
- CORRECTING DEFECT 125 (vertices=41, convex hull=25, v0=109172)
- After retessellation of defect 125 (v0=109172), euler #=-45 (100755,299944,199144) : difference with theory (-43) = 2
- CORRECTING DEFECT 126 (vertices=182, convex hull=54, v0=113647)
- After retessellation of defect 126 (v0=113647), euler #=-44 (100763,299996,199189) : difference with theory (-42) = 2
- CORRECTING DEFECT 127 (vertices=98, convex hull=141, v0=113949)
- After retessellation of defect 127 (v0=113949), euler #=-42 (100798,300164,199324) : difference with theory (-41) = 1
- CORRECTING DEFECT 128 (vertices=184, convex hull=130, v0=114261)
- After retessellation of defect 128 (v0=114261), euler #=-42 (100883,300483,199558) : difference with theory (-40) = 2
- CORRECTING DEFECT 129 (vertices=605, convex hull=532, v0=115363)
- L defect detected...
- After retessellation of defect 129 (v0=115363), euler #=-42 (101157,301591,200392) : difference with theory (-39) = 3
- CORRECTING DEFECT 130 (vertices=1302, convex hull=310, v0=115834)
- After retessellation of defect 130 (v0=115834), euler #=-41 (101189,301841,200611) : difference with theory (-38) = 3
- CORRECTING DEFECT 131 (vertices=38, convex hull=72, v0=116414)
- After retessellation of defect 131 (v0=116414), euler #=-40 (101208,301923,200675) : difference with theory (-37) = 3
- CORRECTING DEFECT 132 (vertices=42, convex hull=30, v0=116845)
- After retessellation of defect 132 (v0=116845), euler #=-39 (101210,301938,200689) : difference with theory (-36) = 3
- CORRECTING DEFECT 133 (vertices=115, convex hull=118, v0=117355)
- After retessellation of defect 133 (v0=117355), euler #=-38 (101253,302116,200825) : difference with theory (-35) = 3
- CORRECTING DEFECT 134 (vertices=22, convex hull=20, v0=118801)
- After retessellation of defect 134 (v0=118801), euler #=-37 (101254,302127,200836) : difference with theory (-34) = 3
- CORRECTING DEFECT 135 (vertices=10, convex hull=18, v0=118848)
- After retessellation of defect 135 (v0=118848), euler #=-36 (101255,302135,200844) : difference with theory (-33) = 3
- CORRECTING DEFECT 136 (vertices=33, convex hull=55, v0=119032)
- After retessellation of defect 136 (v0=119032), euler #=-35 (101264,302188,200889) : difference with theory (-32) = 3
- CORRECTING DEFECT 137 (vertices=286, convex hull=119, v0=119471)
- After retessellation of defect 137 (v0=119471), euler #=-33 (101304,302375,201038) : difference with theory (-31) = 2
- CORRECTING DEFECT 138 (vertices=38, convex hull=32, v0=120443)
- After retessellation of defect 138 (v0=120443), euler #=-32 (101310,302401,201059) : difference with theory (-30) = 2
- CORRECTING DEFECT 139 (vertices=26, convex hull=33, v0=120592)
- After retessellation of defect 139 (v0=120592), euler #=-31 (101314,302424,201079) : difference with theory (-29) = 2
- CORRECTING DEFECT 140 (vertices=234, convex hull=242, v0=121625)
- After retessellation of defect 140 (v0=121625), euler #=-30 (101418,302854,201406) : difference with theory (-28) = 2
- CORRECTING DEFECT 141 (vertices=566, convex hull=131, v0=121911)
- After retessellation of defect 141 (v0=121911), euler #=-29 (101493,303156,201634) : difference with theory (-27) = 2
- CORRECTING DEFECT 142 (vertices=389, convex hull=127, v0=123810)
- After retessellation of defect 142 (v0=123810), euler #=-28 (101523,303307,201756) : difference with theory (-26) = 2
- CORRECTING DEFECT 143 (vertices=85, convex hull=36, v0=124145)
- After retessellation of defect 143 (v0=124145), euler #=-27 (101541,303373,201805) : difference with theory (-25) = 2
- CORRECTING DEFECT 144 (vertices=30, convex hull=61, v0=125317)
- After retessellation of defect 144 (v0=125317), euler #=-26 (101560,303453,201867) : difference with theory (-24) = 2
- CORRECTING DEFECT 145 (vertices=128, convex hull=120, v0=126170)
- After retessellation of defect 145 (v0=126170), euler #=-25 (101598,303620,201997) : difference with theory (-23) = 2
- CORRECTING DEFECT 146 (vertices=600, convex hull=524, v0=127015)
- L defect detected...
- After retessellation of defect 146 (v0=127015), euler #=-21 (101865,304699,202813) : difference with theory (-22) = -1
- CORRECTING DEFECT 147 (vertices=93, convex hull=123, v0=127514)
- After retessellation of defect 147 (v0=127514), euler #=-21 (101895,304854,202938) : difference with theory (-21) = 0
- CORRECTING DEFECT 148 (vertices=507, convex hull=205, v0=128837)
- After retessellation of defect 148 (v0=128837), euler #=-20 (101990,305254,203244) : difference with theory (-20) = 0
- CORRECTING DEFECT 149 (vertices=104, convex hull=76, v0=129504)
- After retessellation of defect 149 (v0=129504), euler #=-19 (102014,305359,203326) : difference with theory (-19) = 0
- CORRECTING DEFECT 150 (vertices=47, convex hull=66, v0=130055)
- After retessellation of defect 150 (v0=130055), euler #=-18 (102031,305438,203389) : difference with theory (-18) = 0
- CORRECTING DEFECT 151 (vertices=52, convex hull=32, v0=130485)
- After retessellation of defect 151 (v0=130485), euler #=-17 (102037,305469,203415) : difference with theory (-17) = 0
- CORRECTING DEFECT 152 (vertices=75, convex hull=52, v0=130861)
- After retessellation of defect 152 (v0=130861), euler #=-16 (102042,305506,203448) : difference with theory (-16) = 0
- CORRECTING DEFECT 153 (vertices=145, convex hull=165, v0=132086)
- After retessellation of defect 153 (v0=132086), euler #=-14 (102098,305756,203644) : difference with theory (-15) = -1
- CORRECTING DEFECT 154 (vertices=39, convex hull=85, v0=133958)
- After retessellation of defect 154 (v0=133958), euler #=-13 (102123,305862,203726) : difference with theory (-14) = -1
- CORRECTING DEFECT 155 (vertices=25, convex hull=25, v0=134377)
- After retessellation of defect 155 (v0=134377), euler #=-12 (102125,305877,203740) : difference with theory (-13) = -1
- CORRECTING DEFECT 156 (vertices=57, convex hull=51, v0=134887)
- After retessellation of defect 156 (v0=134887), euler #=-11 (102134,305925,203780) : difference with theory (-12) = -1
- CORRECTING DEFECT 157 (vertices=6, convex hull=13, v0=135488)
- After retessellation of defect 157 (v0=135488), euler #=-10 (102135,305931,203786) : difference with theory (-11) = -1
- CORRECTING DEFECT 158 (vertices=147, convex hull=138, v0=135701)
- After retessellation of defect 158 (v0=135701), euler #=-10 (102191,306167,203966) : difference with theory (-10) = 0
- CORRECTING DEFECT 159 (vertices=32, convex hull=33, v0=135902)
- After retessellation of defect 159 (v0=135902), euler #=-9 (102193,306186,203984) : difference with theory (-9) = 0
- CORRECTING DEFECT 160 (vertices=55, convex hull=45, v0=136257)
- After retessellation of defect 160 (v0=136257), euler #=-8 (102201,306228,204019) : difference with theory (-8) = 0
- CORRECTING DEFECT 161 (vertices=96, convex hull=56, v0=136764)
- After retessellation of defect 161 (v0=136764), euler #=-7 (102215,306296,204074) : difference with theory (-7) = 0
- CORRECTING DEFECT 162 (vertices=134, convex hull=220, v0=137117)
- After retessellation of defect 162 (v0=137117), euler #=-6 (102300,306655,204349) : difference with theory (-6) = 0
- CORRECTING DEFECT 163 (vertices=165, convex hull=108, v0=137252)
- After retessellation of defect 163 (v0=137252), euler #=-5 (102338,306818,204475) : difference with theory (-5) = 0
- CORRECTING DEFECT 164 (vertices=124, convex hull=134, v0=137334)
- After retessellation of defect 164 (v0=137334), euler #=-4 (102379,306997,204614) : difference with theory (-4) = 0
- CORRECTING DEFECT 165 (vertices=6, convex hull=26, v0=137767)
- After retessellation of defect 165 (v0=137767), euler #=-3 (102380,307006,204623) : difference with theory (-3) = 0
- CORRECTING DEFECT 166 (vertices=114, convex hull=109, v0=138535)
- After retessellation of defect 166 (v0=138535), euler #=-2 (102421,307181,204758) : difference with theory (-2) = 0
- CORRECTING DEFECT 167 (vertices=71, convex hull=74, v0=138571)
- After retessellation of defect 167 (v0=138571), euler #=-1 (102435,307254,204818) : difference with theory (-1) = 0
- CORRECTING DEFECT 168 (vertices=39, convex hull=23, v0=139716)
- After retessellation of defect 168 (v0=139716), euler #=0 (102438,307271,204833) : difference with theory (0) = 0
- CORRECTING DEFECT 169 (vertices=47, convex hull=51, v0=139923)
- After retessellation of defect 169 (v0=139923), euler #=1 (102449,307325,204877) : difference with theory (1) = 0
- CORRECTING DEFECT 170 (vertices=42, convex hull=46, v0=140391)
- After retessellation of defect 170 (v0=140391), euler #=2 (102455,307359,204906) : difference with theory (2) = 0
- computing original vertex metric properties...
- storing new metric properties...
- computing tessellation statistics...
- vertex spacing 0.93 +- 0.44 (0.03-->15.61) (max @ vno 6662 --> 8203)
- face area 0.00 +- 0.00 (0.00-->0.00)
- performing soap bubble on retessellated vertices for 0 iterations...
- vertex spacing 0.93 +- 0.44 (0.03-->15.61) (max @ vno 6662 --> 8203)
- face area 0.00 +- 0.00 (0.00-->0.00)
- tessellation finished, orienting corrected surface...
- 499 mutations (35.9%), 892 crossovers (64.1%), 2874 vertices were eliminated
- building final representation...
- 38227 vertices and 0 faces have been removed from triangulation
- after topology correction, eno=2 (nv=102455, nf=204906, ne=307359, g=0)
- writing corrected surface to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.orig...
- 0.000 % of the vertices (0 vertices) exhibit an orientation change
- topology fixing took 459.2 minutes
- 0 defective edges
- removing intersecting faces
- 000: 3169 intersecting
- 001: 250 intersecting
- 002: 110 intersecting
- 003: 61 intersecting
- 004: 39 intersecting
- expanding nbhd size to 2
- 005: 39 intersecting
- 006: 33 intersecting
- mris_fix_topology utimesec 27566.343278
- mris_fix_topology stimesec 1.140826
- mris_fix_topology ru_maxrss 805644
- mris_fix_topology ru_ixrss 0
- mris_fix_topology ru_idrss 0
- mris_fix_topology ru_isrss 0
- mris_fix_topology ru_minflt 147879
- mris_fix_topology ru_majflt 0
- mris_fix_topology ru_nswap 0
- mris_fix_topology ru_inblock 9928
- mris_fix_topology ru_oublock 11512
- mris_fix_topology ru_msgsnd 0
- mris_fix_topology ru_msgrcv 0
- mris_fix_topology ru_nsignals 0
- mris_fix_topology ru_nvcsw 664
- mris_fix_topology ru_nivcsw 32141
- FSRUNTIME@ mris_fix_topology rh 7.6531 hours 1 threads
- PIDs (25499 25502) completed and logs appended.
- mris_euler_number ../surf/lh.orig
- euler # = v-e+f = 2g-2: 105178 - 315528 + 210352 = 2 --> 0 holes
- F =2V-4: 210352 = 210356-4 (0)
- 2E=3F: 631056 = 631056 (0)
- total defect index = 0
- mris_euler_number ../surf/rh.orig
- euler # = v-e+f = 2g-2: 102455 - 307359 + 204906 = 2 --> 0 holes
- F =2V-4: 204906 = 204910-4 (0)
- 2E=3F: 614718 = 614718 (0)
- total defect index = 0
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_remove_intersection ../surf/lh.orig ../surf/lh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 989 intersecting
- 001: 110 intersecting
- 002: 55 intersecting
- 003: 44 intersecting
- 004: 33 intersecting
- 005: 29 intersecting
- 006: 11 intersecting
- 007: 5 intersecting
- writing corrected surface to ../surf/lh.orig
- rm ../surf/lh.inflated
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_remove_intersection ../surf/rh.orig ../surf/rh.orig
- intersection removal took 0.00 hours
- removing intersecting faces
- 000: 1194 intersecting
- 001: 192 intersecting
- 002: 104 intersecting
- 003: 63 intersecting
- 004: 40 intersecting
- 005: 39 intersecting
- 006: 3 intersecting
- expanding nbhd size to 2
- 007: 5 intersecting
- writing corrected surface to ../surf/rh.orig
- rm ../surf/rh.inflated
- #--------------------------------------------
- #@# Make White Surf lh Sun Oct 8 08:24:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050815 lh
- #--------------------------------------------
- #@# Make White Surf rh Sun Oct 8 08:24:04 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050815 rh
- Waiting for PID 23678 of (23678 23681) to complete...
- Waiting for PID 23681 of (23678 23681) to complete...
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050815 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-6.0.0/0050815/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- 19852 bright wm thresholded.
- 80 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.orig...
- computing class statistics...
- border white: 244265 voxels (1.46%)
- border gray 309669 voxels (1.85%)
- WM (91.0): 92.5 +- 9.0 [70.0 --> 110.0]
- GM (66.0) : 64.8 +- 12.2 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 49.8 (was 70)
- setting MAX_BORDER_WHITE to 103.0 (was 105)
- setting MIN_BORDER_WHITE to 62.0 (was 85)
- setting MAX_CSF to 37.6 (was 40)
- setting MAX_GRAY to 85.0 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 49.8 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 25.4 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.82 +- 0.30 (0.02-->8.50) (max @ vno 57900 --> 100501)
- face area 0.28 +- 0.19 (0.00-->10.09)
- mean absolute distance = 0.85 +- 1.14
- 3442 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=94+-9.6, GM=62+-10.4
- mean inside = 87.6, mean outside = 69.6
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=74.9, 611 (611) missing vertices, mean dist 0.3 [0.9 (%30.9)->0.8 (%69.1))]
- %56 local maxima, %37 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.93 +- 0.35 (0.05-->9.16) (max @ vno 57900 --> 100501)
- face area 0.28 +- 0.19 (0.00-->7.98)
- mean absolute distance = 0.47 +- 0.83
- 4108 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2881487.0, rms=11.002
- 001: dt: 0.5000, sse=1783206.1, rms=8.323 (24.351%)
- 002: dt: 0.5000, sse=1308046.2, rms=6.736 (19.069%)
- 003: dt: 0.5000, sse=1086346.5, rms=5.807 (13.787%)
- 004: dt: 0.5000, sse=971036.9, rms=5.291 (8.886%)
- 005: dt: 0.5000, sse=914673.8, rms=5.012 (5.274%)
- 006: dt: 0.5000, sse=893262.7, rms=4.840 (3.421%)
- 007: dt: 0.5000, sse=863954.9, rms=4.723 (2.419%)
- 008: dt: 0.5000, sse=846846.9, rms=4.645 (1.669%)
- 009: dt: 0.5000, sse=848819.1, rms=4.581 (1.371%)
- rms = 4.54, time step reduction 1 of 3 to 0.250...
- 010: dt: 0.5000, sse=830734.8, rms=4.538 (0.939%)
- 011: dt: 0.2500, sse=690083.1, rms=3.603 (20.597%)
- 012: dt: 0.2500, sse=655974.2, rms=3.349 (7.067%)
- 013: dt: 0.2500, sse=647141.2, rms=3.286 (1.867%)
- rms = 3.25, time step reduction 2 of 3 to 0.125...
- 014: dt: 0.2500, sse=648000.8, rms=3.250 (1.111%)
- 015: dt: 0.1250, sse=632699.0, rms=3.161 (2.710%)
- rms = 3.15, time step reduction 3 of 3 to 0.062...
- 016: dt: 0.1250, sse=630632.1, rms=3.148 (0.418%)
- positioning took 1.4 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=77.5, 797 (268) missing vertices, mean dist -0.2 [0.5 (%62.6)->0.3 (%37.4))]
- %61 local maxima, %31 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=1.0, host=tars-, nav=2, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- smoothing T1 volume with sigma = 0.500
- vertex spacing 0.92 +- 0.34 (0.08-->9.15) (max @ vno 57900 --> 100501)
- face area 0.35 +- 0.24 (0.00-->10.06)
- mean absolute distance = 0.39 +- 0.61
- 3665 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=954787.9, rms=4.547
- 017: dt: 0.5000, sse=862911.3, rms=3.907 (14.068%)
- rms = 4.01, time step reduction 1 of 3 to 0.250...
- 018: dt: 0.2500, sse=759871.4, rms=3.248 (16.877%)
- 019: dt: 0.2500, sse=719439.5, rms=2.922 (10.014%)
- 020: dt: 0.2500, sse=721324.3, rms=2.812 (3.776%)
- rms = 2.77, time step reduction 2 of 3 to 0.125...
- 021: dt: 0.2500, sse=715259.1, rms=2.768 (1.555%)
- 022: dt: 0.1250, sse=692856.5, rms=2.693 (2.716%)
- rms = 2.68, time step reduction 3 of 3 to 0.062...
- 023: dt: 0.1250, sse=690784.2, rms=2.677 (0.610%)
- positioning took 0.7 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 2 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 1 vertex label from ripped group
- mean border=79.0, 909 (234) missing vertices, mean dist -0.1 [0.5 (%55.7)->0.3 (%44.3))]
- %67 local maxima, %24 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 0.92 +- 0.34 (0.09-->9.15) (max @ vno 57900 --> 100501)
- face area 0.35 +- 0.24 (0.00-->10.13)
- mean absolute distance = 0.36 +- 0.51
- 3104 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=781754.2, rms=3.454
- rms = 3.45, time step reduction 1 of 3 to 0.250...
- 024: dt: 0.2500, sse=719762.1, rms=2.971 (13.981%)
- 025: dt: 0.2500, sse=696222.4, rms=2.636 (11.275%)
- 026: dt: 0.2500, sse=689879.2, rms=2.556 (3.008%)
- rms = 2.52, time step reduction 2 of 3 to 0.125...
- 027: dt: 0.2500, sse=680180.4, rms=2.517 (1.548%)
- 028: dt: 0.1250, sse=665185.8, rms=2.449 (2.691%)
- rms = 2.43, time step reduction 3 of 3 to 0.062...
- 029: dt: 0.1250, sse=662825.7, rms=2.433 (0.663%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=80.0, 1013 (223) missing vertices, mean dist -0.1 [0.4 (%52.3)->0.3 (%47.7))]
- %73 local maxima, %19 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-6.0.0/0050815/surf/lh.white.preaparc...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=694664.8, rms=2.757
- rms = 2.82, time step reduction 1 of 3 to 0.250...
- 030: dt: 0.2500, sse=655369.1, rms=2.343 (14.996%)
- 031: dt: 0.2500, sse=640572.3, rms=2.089 (10.862%)
- rms = 2.05, time step reduction 2 of 3 to 0.125...
- 032: dt: 0.2500, sse=630682.2, rms=2.048 (1.954%)
- rms = 2.01, time step reduction 3 of 3 to 0.062...
- 033: dt: 0.1250, sse=625531.8, rms=2.010 (1.847%)
- positioning took 0.4 minutes
- generating cortex label...
- 22 non-cortical segments detected
- only using segment with 7639 vertices
- erasing segment 0 (vno[0] = 27689)
- erasing segment 1 (vno[0] = 31590)
- erasing segment 2 (vno[0] = 34934)
- erasing segment 4 (vno[0] = 41104)
- erasing segment 5 (vno[0] = 42790)
- erasing segment 6 (vno[0] = 44360)
- erasing segment 7 (vno[0] = 45082)
- erasing segment 8 (vno[0] = 47493)
- erasing segment 9 (vno[0] = 52825)
- erasing segment 10 (vno[0] = 57070)
- erasing segment 11 (vno[0] = 58575)
- erasing segment 12 (vno[0] = 58851)
- erasing segment 13 (vno[0] = 59982)
- erasing segment 14 (vno[0] = 62580)
- erasing segment 15 (vno[0] = 72640)
- erasing segment 16 (vno[0] = 73289)
- erasing segment 17 (vno[0] = 76165)
- erasing segment 18 (vno[0] = 76476)
- erasing segment 19 (vno[0] = 79344)
- erasing segment 20 (vno[0] = 80198)
- erasing segment 21 (vno[0] = 81022)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.area
- vertex spacing 0.92 +- 0.34 (0.02-->9.12) (max @ vno 57900 --> 100501)
- face area 0.35 +- 0.24 (0.00-->10.42)
- refinement took 4.3 minutes
- mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs 0050815 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-6.0.0/0050815/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- 19852 bright wm thresholded.
- 80 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.orig...
- computing class statistics...
- border white: 244265 voxels (1.46%)
- border gray 309669 voxels (1.85%)
- WM (91.0): 92.5 +- 9.0 [70.0 --> 110.0]
- GM (66.0) : 64.8 +- 12.2 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 48.8 (was 70)
- setting MAX_BORDER_WHITE to 104.0 (was 105)
- setting MIN_BORDER_WHITE to 61.0 (was 85)
- setting MAX_CSF to 36.6 (was 40)
- setting MAX_GRAY to 86.0 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 48.8 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 24.4 (was 40)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.82 +- 0.31 (0.02-->6.95) (max @ vno 8042 --> 93095)
- face area 0.28 +- 0.19 (0.00-->8.05)
- mean absolute distance = 0.89 +- 1.15
- 3336 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=95+-8.7, GM=61+-12.2
- mean inside = 87.7, mean outside = 70.4
- smoothing surface for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- mean border=74.3, 789 (789) missing vertices, mean dist 0.3 [1.0 (%28.5)->0.8 (%71.5))]
- %62 local maxima, %30 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.93 +- 0.36 (0.04-->6.71) (max @ vno 31423 --> 95598)
- face area 0.28 +- 0.19 (0.00-->6.24)
- mean absolute distance = 0.48 +- 0.86
- 3893 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=2979444.5, rms=11.230
- 001: dt: 0.5000, sse=1854160.8, rms=8.613 (23.306%)
- 002: dt: 0.5000, sse=1357096.5, rms=6.999 (18.737%)
- 003: dt: 0.5000, sse=1119437.5, rms=6.045 (13.638%)
- 004: dt: 0.5000, sse=1000549.5, rms=5.502 (8.979%)
- 005: dt: 0.5000, sse=935369.8, rms=5.199 (5.504%)
- 006: dt: 0.5000, sse=908940.1, rms=5.032 (3.221%)
- 007: dt: 0.5000, sse=902222.4, rms=4.934 (1.935%)
- 008: dt: 0.5000, sse=870042.8, rms=4.852 (1.669%)
- 009: dt: 0.5000, sse=861255.6, rms=4.792 (1.240%)
- 010: dt: 0.5000, sse=854534.9, rms=4.725 (1.381%)
- rms = 4.69, time step reduction 1 of 3 to 0.250...
- 011: dt: 0.5000, sse=851052.6, rms=4.692 (0.717%)
- 012: dt: 0.2500, sse=708804.6, rms=3.820 (18.580%)
- 013: dt: 0.2500, sse=678181.7, rms=3.577 (6.357%)
- 014: dt: 0.2500, sse=671280.8, rms=3.513 (1.778%)
- rms = 3.48, time step reduction 2 of 3 to 0.125...
- 015: dt: 0.2500, sse=670412.4, rms=3.480 (0.942%)
- 016: dt: 0.1250, sse=652835.6, rms=3.404 (2.189%)
- rms = 3.39, time step reduction 3 of 3 to 0.062...
- 017: dt: 0.1250, sse=652825.4, rms=3.389 (0.447%)
- positioning took 1.5 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 4 vertex label from ripped group
- mean border=77.0, 922 (324) missing vertices, mean dist -0.2 [0.6 (%62.5)->0.4 (%37.5))]
- %66 local maxima, %26 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 0.93 +- 0.35 (0.07-->6.63) (max @ vno 31423 --> 95598)
- face area 0.36 +- 0.24 (0.00-->7.99)
- mean absolute distance = 0.40 +- 0.63
- 3286 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=985730.9, rms=4.770
- 018: dt: 0.5000, sse=895735.5, rms=4.057 (14.954%)
- rms = 4.17, time step reduction 1 of 3 to 0.250...
- 019: dt: 0.2500, sse=781482.6, rms=3.450 (14.964%)
- 020: dt: 0.2500, sse=777223.0, rms=3.156 (8.522%)
- 021: dt: 0.2500, sse=737962.9, rms=3.062 (2.975%)
- rms = 3.02, time step reduction 2 of 3 to 0.125...
- 022: dt: 0.2500, sse=741413.8, rms=3.020 (1.366%)
- 023: dt: 0.1250, sse=724835.6, rms=2.949 (2.358%)
- rms = 2.92, time step reduction 3 of 3 to 0.062...
- 024: dt: 0.1250, sse=714427.7, rms=2.925 (0.822%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 4 vertex label from ripped group
- removing 3 vertex label from ripped group
- removing 2 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=78.5, 1024 (254) missing vertices, mean dist -0.1 [0.5 (%55.6)->0.3 (%44.4))]
- %72 local maxima, %20 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 0.93 +- 0.35 (0.04-->6.47) (max @ vno 8042 --> 93095)
- face area 0.36 +- 0.24 (0.00-->8.25)
- mean absolute distance = 0.36 +- 0.52
- 2999 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=796480.4, rms=3.592
- rms = 3.58, time step reduction 1 of 3 to 0.250...
- 025: dt: 0.5000, sse=817199.9, rms=3.584 (0.220%)
- 026: dt: 0.2500, sse=709798.1, rms=2.890 (19.358%)
- 027: dt: 0.2500, sse=700685.1, rms=2.732 (5.490%)
- rms = 2.71, time step reduction 2 of 3 to 0.125...
- 028: dt: 0.2500, sse=693323.7, rms=2.710 (0.810%)
- 029: dt: 0.1250, sse=676909.4, rms=2.602 (3.956%)
- rms = 2.59, time step reduction 3 of 3 to 0.062...
- 030: dt: 0.1250, sse=674910.6, rms=2.586 (0.624%)
- positioning took 0.5 minutes
- inhibiting deformation at non-cortical midline structures...
- removing 1 vertex label from ripped group
- removing 4 vertex label from ripped group
- removing 1 vertex label from ripped group
- removing 2 vertex label from ripped group
- mean border=79.4, 1163 (219) missing vertices, mean dist -0.1 [0.4 (%52.1)->0.3 (%47.9))]
- %76 local maxima, %16 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-6.0.0/0050815/surf/rh.white.preaparc...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=701542.8, rms=2.854
- rms = 2.86, time step reduction 1 of 3 to 0.250...
- 031: dt: 0.2500, sse=659176.4, rms=2.466 (13.600%)
- 032: dt: 0.2500, sse=661410.1, rms=2.219 (10.005%)
- rms = 2.18, time step reduction 2 of 3 to 0.125...
- 033: dt: 0.2500, sse=637605.7, rms=2.185 (1.551%)
- rms = 2.14, time step reduction 3 of 3 to 0.062...
- 034: dt: 0.1250, sse=628701.1, rms=2.144 (1.887%)
- positioning took 0.4 minutes
- generating cortex label...
- 24 non-cortical segments detected
- only using segment with 7525 vertices
- erasing segment 0 (vno[0] = 14778)
- erasing segment 1 (vno[0] = 26161)
- erasing segment 3 (vno[0] = 34785)
- erasing segment 4 (vno[0] = 36319)
- erasing segment 5 (vno[0] = 39918)
- erasing segment 6 (vno[0] = 45197)
- erasing segment 7 (vno[0] = 49781)
- erasing segment 8 (vno[0] = 56845)
- erasing segment 9 (vno[0] = 58442)
- erasing segment 10 (vno[0] = 60299)
- erasing segment 11 (vno[0] = 60563)
- erasing segment 12 (vno[0] = 62217)
- erasing segment 13 (vno[0] = 62862)
- erasing segment 14 (vno[0] = 63729)
- erasing segment 15 (vno[0] = 66165)
- erasing segment 16 (vno[0] = 66935)
- erasing segment 17 (vno[0] = 67678)
- erasing segment 18 (vno[0] = 69002)
- erasing segment 19 (vno[0] = 70433)
- erasing segment 20 (vno[0] = 71354)
- erasing segment 21 (vno[0] = 72187)
- erasing segment 22 (vno[0] = 76224)
- erasing segment 23 (vno[0] = 79661)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.area
- vertex spacing 0.92 +- 0.35 (0.03-->6.48) (max @ vno 8042 --> 93095)
- face area 0.36 +- 0.24 (0.00-->8.25)
- refinement took 4.3 minutes
- PIDs (23678 23681) completed and logs appended.
- #--------------------------------------------
- #@# Smooth2 lh Sun Oct 8 08:28:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/lh.white.preaparc ../surf/lh.smoothwm
- #--------------------------------------------
- #@# Smooth2 rh Sun Oct 8 08:28:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_smooth -n 3 -nw -seed 1234 ../surf/rh.white.preaparc ../surf/rh.smoothwm
- Waiting for PID 23990 of (23990 23993) to complete...
- Waiting for PID 23993 of (23990 23993) 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 (23990 23993) completed and logs appended.
- #--------------------------------------------
- #@# Inflation2 lh Sun Oct 8 08:28:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- #--------------------------------------------
- #@# Inflation2 rh Sun Oct 8 08:28:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Waiting for PID 24035 of (24035 24038) to complete...
- Waiting for PID 24038 of (24035 24038) to complete...
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/touch/rusage.mris_inflate.lh.dat ../surf/lh.smoothwm ../surf/lh.inflated
- Reading ../surf/lh.smoothwm
- avg radius = 47.4 mm, total surface area = 64693 mm^2
- writing inflated surface to ../surf/lh.inflated
- writing sulcal depths to ../surf/lh.sulc
-
step 000: RMS=0.205 (target=0.015)
step 005: RMS=0.151 (target=0.015)
step 010: RMS=0.126 (target=0.015)
step 015: RMS=0.109 (target=0.015)
step 020: RMS=0.096 (target=0.015)
step 025: RMS=0.085 (target=0.015)
step 030: RMS=0.076 (target=0.015)
step 035: RMS=0.068 (target=0.015)
step 040: RMS=0.062 (target=0.015)
step 045: RMS=0.057 (target=0.015)
step 050: RMS=0.054 (target=0.015)
step 055: RMS=0.051 (target=0.015)
step 060: RMS=0.047 (target=0.015)
- inflation complete.
- inflation took 0.7 minutes
- mris_inflate utimesec 44.014308
- mris_inflate stimesec 0.066989
- mris_inflate ru_maxrss 157948
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 24208
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 8240
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 2067
- mris_inflate ru_nivcsw 2518
- mris_inflate -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/touch/rusage.mris_inflate.rh.dat ../surf/rh.smoothwm ../surf/rh.inflated
- Reading ../surf/rh.smoothwm
- avg radius = 45.4 mm, total surface area = 63431 mm^2
- writing inflated surface to ../surf/rh.inflated
- writing sulcal depths to ../surf/rh.sulc
-
step 000: RMS=0.207 (target=0.015)
step 005: RMS=0.151 (target=0.015)
step 010: RMS=0.127 (target=0.015)
step 015: RMS=0.108 (target=0.015)
step 020: RMS=0.094 (target=0.015)
step 025: RMS=0.085 (target=0.015)
step 030: RMS=0.074 (target=0.015)
step 035: RMS=0.066 (target=0.015)
step 040: RMS=0.059 (target=0.015)
step 045: RMS=0.052 (target=0.015)
step 050: RMS=0.049 (target=0.015)
step 055: RMS=0.046 (target=0.015)
step 060: RMS=0.042 (target=0.015)
- inflation complete.
- inflation took 0.5 minutes
- mris_inflate utimesec 32.013133
- mris_inflate stimesec 0.065989
- mris_inflate ru_maxrss 154580
- mris_inflate ru_ixrss 0
- mris_inflate ru_idrss 0
- mris_inflate ru_isrss 0
- mris_inflate ru_minflt 23362
- mris_inflate ru_majflt 0
- mris_inflate ru_nswap 0
- mris_inflate ru_inblock 0
- mris_inflate ru_oublock 8032
- mris_inflate ru_msgsnd 0
- mris_inflate ru_msgrcv 0
- mris_inflate ru_nsignals 0
- mris_inflate ru_nvcsw 1885
- mris_inflate ru_nivcsw 2605
- PIDs (24035 24038) completed and logs appended.
- #--------------------------------------------
- #@# Curv .H and .K lh Sun Oct 8 08:29:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 08:29:10 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/surf
- reconbatchjobs /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 24172 of (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) to complete...
- Waiting for PID 24175 of (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) to complete...
- Waiting for PID 24178 of (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) to complete...
- Waiting for PID 24181 of (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) to complete...
- Waiting for PID 24184 of (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) to complete...
- Waiting for PID 24187 of (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) to complete...
- Waiting for PID 24190 of (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) to complete...
- Waiting for PID 24193 of (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) to complete...
- Waiting for PID 24196 of (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) to complete...
- Waiting for PID 24200 of (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) to complete...
- Waiting for PID 24204 of (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) to complete...
- Waiting for PID 24207 of (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) to complete...
- mris_curvature -w lh.white.preaparc
- total integrated curvature = 37.656*4pi (473.203) --> -37 handles
- ICI = 248.1, FI = 1705.1, variation=29464.312
- 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
- 135 vertices thresholded to be in k1 ~ [-0.71 2.34], k2 ~ [-1.97 0.18]
- total integrated curvature = -0.301*4pi (-3.780) --> 1 handles
- ICI = 1.1, FI = 7.8, variation=142.354
- 97 vertices thresholded to be in [-0.44 0.06]
- writing Gaussian curvature to ./lh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = -0.000, std = 0.005
- 87 vertices thresholded to be in [-0.34 0.88]
- done.
- writing mean curvature to ./lh.inflated.H...curvature mean = -0.022, std = 0.028
- done.
- mris_curvature -w rh.white.preaparc
- total integrated curvature = 52.896*4pi (664.715) --> -52 handles
- ICI = 267.4, FI = 2061.2, variation=34277.255
- 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
- 111 vertices thresholded to be in k1 ~ [-0.78 3.62], k2 ~ [-0.28 0.17]
- total integrated curvature = -0.210*4pi (-2.636) --> 1 handles
- ICI = 1.2, FI = 8.7, variation=154.224
- 98 vertices thresholded to be in [-0.12 0.07]
- writing Gaussian curvature to ./rh.inflated.K...thresholding curvature at 99.90% level
- curvature mean = 0.000, std = 0.004
- 92 vertices thresholded to be in [-0.35 1.50]
- done.
- writing mean curvature to ./rh.inflated.H...curvature mean = -0.023, std = 0.030
- done.
- PIDs (24172 24175 24178 24181 24184 24187 24190 24193 24196 24200 24204 24207) completed and logs appended.
- #-----------------------------------------
- #@# Curvature Stats lh Sun Oct 8 08:30:20 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/lh.curv.stats -F smoothwm 0050815 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 [ 0050815/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 [ 269 ]
- Gb_filter = 0
- WARN: S lookup min: -0.673045
- WARN: S explicit min: 0.000000 vertex = 251
- #-----------------------------------------
- #@# Curvature Stats rh Sun Oct 8 08:30:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf
- mris_curvature_stats -m --writeCurvatureFiles -G -o ../stats/rh.curv.stats -F smoothwm 0050815 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 [ 0050815/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 [ 236 ]
- Gb_filter = 0
- WARN: S lookup min: -0.138407
- WARN: S explicit min: 0.000000 vertex = 107
- #--------------------------------------------
- #@# Sphere lh Sun Oct 8 08:30:27 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/touch/rusage.mris_sphere.lh.dat -seed 1234 ../surf/lh.inflated ../surf/lh.sphere
- #--------------------------------------------
- #@# Sphere rh Sun Oct 8 08:30:27 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/touch/rusage.mris_sphere.rh.dat -seed 1234 ../surf/rh.inflated ../surf/rh.sphere
- Waiting for PID 24501 of (24501 24504) to complete...
- Waiting for PID 24504 of (24501 24504) to complete...
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0.293...
- 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 %27.66
- pass 1: epoch 2 of 3 starting distance error %27.05
- unfolding complete - removing small folds...
- starting distance error %25.86
- removing remaining folds...
- final distance error %25.94
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 600 negative triangles
- 386: dt=0.9900, 600 negative triangles
- 387: dt=0.9900, 331 negative triangles
- 388: dt=0.9900, 327 negative triangles
- 389: dt=0.9900, 264 negative triangles
- 390: dt=0.9900, 281 negative triangles
- 391: dt=0.9900, 252 negative triangles
- 392: dt=0.9900, 211 negative triangles
- 393: dt=0.9900, 209 negative triangles
- 394: dt=0.9900, 191 negative triangles
- 395: dt=0.9900, 164 negative triangles
- 396: dt=0.9900, 157 negative triangles
- 397: dt=0.9900, 141 negative triangles
- 398: dt=0.9900, 121 negative triangles
- 399: dt=0.9900, 91 negative triangles
- 400: dt=0.9900, 92 negative triangles
- 401: dt=0.9900, 85 negative triangles
- 402: dt=0.9900, 82 negative triangles
- 403: dt=0.9900, 80 negative triangles
- 404: dt=0.9900, 69 negative triangles
- 405: dt=0.9900, 67 negative triangles
- 406: dt=0.9900, 70 negative triangles
- 407: dt=0.9900, 56 negative triangles
- 408: dt=0.9900, 57 negative triangles
- 409: dt=0.9900, 57 negative triangles
- 410: dt=0.9900, 55 negative triangles
- 411: dt=0.9900, 41 negative triangles
- 412: dt=0.9900, 49 negative triangles
- 413: dt=0.9900, 40 negative triangles
- 414: dt=0.9900, 34 negative triangles
- 415: dt=0.9900, 41 negative triangles
- 416: dt=0.9900, 35 negative triangles
- 417: dt=0.9900, 31 negative triangles
- 418: dt=0.9900, 32 negative triangles
- 419: dt=0.9900, 24 negative triangles
- 420: dt=0.9900, 28 negative triangles
- 421: dt=0.9900, 29 negative triangles
- 422: dt=0.9900, 17 negative triangles
- 423: dt=0.9900, 17 negative triangles
- 424: dt=0.9900, 13 negative triangles
- 425: dt=0.9900, 12 negative triangles
- 426: dt=0.9900, 12 negative triangles
- 427: dt=0.9900, 12 negative triangles
- 428: dt=0.9900, 11 negative triangles
- 429: dt=0.9900, 10 negative triangles
- 430: dt=0.9900, 11 negative triangles
- 431: dt=0.9900, 17 negative triangles
- 432: dt=0.9900, 13 negative triangles
- 433: dt=0.9900, 11 negative triangles
- 434: dt=0.9900, 10 negative triangles
- 435: dt=0.9900, 13 negative triangles
- 436: dt=0.9900, 12 negative triangles
- 437: dt=0.9900, 12 negative triangles
- 438: dt=0.9900, 12 negative triangles
- 439: dt=0.9405, 15 negative triangles
- 440: dt=0.9405, 16 negative triangles
- 441: dt=0.9405, 13 negative triangles
- 442: dt=0.9405, 9 negative triangles
- 443: dt=0.9405, 11 negative triangles
- 444: dt=0.9405, 10 negative triangles
- 445: dt=0.9405, 13 negative triangles
- 446: dt=0.9405, 12 negative triangles
- 447: dt=0.9405, 9 negative triangles
- 448: dt=0.9405, 10 negative triangles
- 449: dt=0.9405, 10 negative triangles
- 450: dt=0.9405, 9 negative triangles
- 451: dt=0.9405, 12 negative triangles
- 452: dt=0.9405, 7 negative triangles
- 453: dt=0.9405, 9 negative triangles
- 454: dt=0.9405, 9 negative triangles
- 455: dt=0.9405, 9 negative triangles
- 456: dt=0.9405, 5 negative triangles
- 457: dt=0.9405, 8 negative triangles
- 458: dt=0.9405, 6 negative triangles
- 459: dt=0.9405, 6 negative triangles
- 460: dt=0.9405, 5 negative triangles
- 461: dt=0.9405, 6 negative triangles
- 462: dt=0.9405, 4 negative triangles
- 463: dt=0.9405, 2 negative triangles
- 464: dt=0.9405, 7 negative triangles
- 465: dt=0.9405, 2 negative triangles
- 466: dt=0.9405, 2 negative triangles
- writing spherical brain to ../surf/lh.sphere
- spherical transformation took 1.22 hours
- mris_sphere utimesec 4604.793964
- mris_sphere stimesec 1.137827
- mris_sphere ru_maxrss 219040
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 39109
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 7464
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 156926
- mris_sphere ru_nivcsw 340000
- FSRUNTIME@ mris_sphere 1.2235 hours 1 threads
- mris_sphere -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0.311...
- 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 %26.00
- pass 1: epoch 2 of 3 starting distance error %25.67
- unfolding complete - removing small folds...
- starting distance error %24.46
- removing remaining folds...
- final distance error %24.55
- MRISunfold() return, current seed 1234
- -01: dt=0.0000, 438 negative triangles
- 368: dt=0.9900, 438 negative triangles
- 369: dt=0.9900, 184 negative triangles
- 370: dt=0.9900, 179 negative triangles
- 371: dt=0.9900, 154 negative triangles
- 372: dt=0.9900, 169 negative triangles
- 373: dt=0.9900, 149 negative triangles
- 374: dt=0.9900, 121 negative triangles
- 375: dt=0.9900, 117 negative triangles
- 376: dt=0.9900, 97 negative triangles
- 377: dt=0.9900, 96 negative triangles
- 378: dt=0.9900, 80 negative triangles
- 379: dt=0.9900, 93 negative triangles
- 380: dt=0.9900, 75 negative triangles
- 381: dt=0.9900, 73 negative triangles
- 382: dt=0.9900, 57 negative triangles
- 383: dt=0.9900, 56 negative triangles
- 384: dt=0.9900, 52 negative triangles
- 385: dt=0.9900, 41 negative triangles
- 386: dt=0.9900, 45 negative triangles
- 387: dt=0.9900, 42 negative triangles
- 388: dt=0.9900, 40 negative triangles
- 389: dt=0.9900, 28 negative triangles
- 390: dt=0.9900, 30 negative triangles
- 391: dt=0.9900, 22 negative triangles
- 392: dt=0.9900, 21 negative triangles
- 393: dt=0.9900, 22 negative triangles
- 394: dt=0.9900, 20 negative triangles
- 395: dt=0.9900, 13 negative triangles
- 396: dt=0.9900, 11 negative triangles
- 397: dt=0.9900, 13 negative triangles
- 398: dt=0.9900, 12 negative triangles
- 399: dt=0.9900, 15 negative triangles
- 400: dt=0.9900, 12 negative triangles
- 401: dt=0.9900, 11 negative triangles
- 402: dt=0.9900, 8 negative triangles
- 403: dt=0.9900, 5 negative triangles
- 404: dt=0.9900, 10 negative triangles
- 405: dt=0.9900, 15 negative triangles
- 406: dt=0.9900, 8 negative triangles
- 407: dt=0.9900, 4 negative triangles
- 408: dt=0.9900, 5 negative triangles
- 409: dt=0.9900, 5 negative triangles
- 410: dt=0.9900, 2 negative triangles
- 411: dt=0.9900, 2 negative triangles
- 412: dt=0.9900, 2 negative triangles
- 413: dt=0.9900, 2 negative triangles
- 414: dt=0.9900, 2 negative triangles
- 415: dt=0.9900, 2 negative triangles
- 416: dt=0.9900, 4 negative triangles
- 417: dt=0.9900, 3 negative triangles
- 418: dt=0.9900, 1 negative triangles
- writing spherical brain to ../surf/rh.sphere
- spherical transformation took 1.14 hours
- mris_sphere utimesec 4102.938258
- mris_sphere stimesec 1.560762
- mris_sphere ru_maxrss 211300
- mris_sphere ru_ixrss 0
- mris_sphere ru_idrss 0
- mris_sphere ru_isrss 0
- mris_sphere ru_minflt 38190
- mris_sphere ru_majflt 0
- mris_sphere ru_nswap 0
- mris_sphere ru_inblock 0
- mris_sphere ru_oublock 7264
- mris_sphere ru_msgsnd 0
- mris_sphere ru_msgrcv 0
- mris_sphere ru_nsignals 0
- mris_sphere ru_nvcsw 148670
- mris_sphere ru_nivcsw 342388
- FSRUNTIME@ mris_sphere 1.1394 hours 1 threads
- PIDs (24501 24504) completed and logs appended.
- #--------------------------------------------
- #@# Surf Reg lh Sun Oct 8 09:43:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 09:43:52 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 27305 of (27305 27308) to complete...
- Waiting for PID 27308 of (27305 27308) to complete...
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 = 5.353
- curvature mean = 0.015, std = 0.812
- curvature mean = 0.011, std = 0.877
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (16.00, 0.00, 0.00) sse = 225973.9, tmin=0.9559
- d=32.00 min @ (-8.00, -8.00, 8.00) sse = 215899.4, tmin=1.9295
- d=16.00 min @ (0.00, 4.00, -4.00) sse = 199716.1, tmin=2.9103
- d=4.00 min @ (1.00, 0.00, 1.00) sse = 198268.9, tmin=4.8902
- d=1.00 min @ (0.00, 0.25, -0.25) sse = 198176.1, tmin=6.8807
- d=0.50 min @ (-0.12, 0.00, 0.00) sse = 198171.1, tmin=7.8741
- 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 7.87 min
- curvature mean = -0.005, std = 0.835
- curvature mean = 0.006, std = 0.954
- curvature mean = -0.008, std = 0.845
- curvature mean = 0.002, std = 0.980
- curvature mean = -0.010, std = 0.847
- curvature mean = 0.001, std = 0.991
- 2 Reading smoothwm
- curvature mean = -0.049, std = 0.371
- curvature mean = 0.039, std = 0.247
- curvature mean = 0.060, std = 0.296
- curvature mean = 0.028, std = 0.311
- curvature mean = 0.056, std = 0.401
- curvature mean = 0.026, std = 0.339
- curvature mean = 0.034, std = 0.523
- curvature mean = 0.025, std = 0.350
- curvature mean = 0.012, std = 0.651
- MRISregister() return, current seed 0
- -01: dt=0.0000, 495 negative triangles
- 128: dt=0.9900, 495 negative triangles
- 129: dt=0.9900, 457 negative triangles
- 130: dt=0.9900, 413 negative triangles
- 131: dt=0.9900, 360 negative triangles
- 132: dt=0.9900, 339 negative triangles
- 133: dt=0.9900, 338 negative triangles
- 134: dt=0.9900, 295 negative triangles
- 135: dt=0.9900, 264 negative triangles
- 136: dt=0.9900, 273 negative triangles
- 137: dt=0.9900, 221 negative triangles
- 138: dt=0.9900, 206 negative triangles
- 139: dt=0.9900, 194 negative triangles
- 140: dt=0.9900, 175 negative triangles
- 141: dt=0.9900, 177 negative triangles
- 142: dt=0.9900, 174 negative triangles
- 143: dt=0.9900, 156 negative triangles
- 144: dt=0.9900, 133 negative triangles
- 145: dt=0.9900, 128 negative triangles
- 146: dt=0.9900, 127 negative triangles
- 147: dt=0.9900, 111 negative triangles
- 148: dt=0.9900, 99 negative triangles
- 149: dt=0.9900, 88 negative triangles
- 150: dt=0.9900, 73 negative triangles
- 151: dt=0.9900, 78 negative triangles
- 152: dt=0.9900, 75 negative triangles
- 153: dt=0.9900, 72 negative triangles
- 154: dt=0.9900, 69 negative triangles
- 155: dt=0.9900, 72 negative triangles
- 156: dt=0.9900, 70 negative triangles
- 157: dt=0.9900, 66 negative triangles
- 158: dt=0.9900, 55 negative triangles
- 159: dt=0.9900, 63 negative triangles
- 160: dt=0.9900, 45 negative triangles
- 161: dt=0.9900, 53 negative triangles
- 162: dt=0.9900, 42 negative triangles
- 163: dt=0.9900, 48 negative triangles
- 164: dt=0.9900, 38 negative triangles
- 165: dt=0.9900, 44 negative triangles
- 166: dt=0.9900, 39 negative triangles
- 167: dt=0.9900, 39 negative triangles
- 168: dt=0.9900, 44 negative triangles
- 169: dt=0.9900, 39 negative triangles
- 170: dt=0.9900, 38 negative triangles
- 171: dt=0.9900, 41 negative triangles
- 172: dt=0.9900, 39 negative triangles
- 173: dt=0.9900, 36 negative triangles
- 174: dt=0.9900, 36 negative triangles
- 175: dt=0.9900, 33 negative triangles
- 176: dt=0.9900, 39 negative triangles
- 177: dt=0.9900, 37 negative triangles
- 178: dt=0.9900, 34 negative triangles
- 179: dt=0.9900, 37 negative triangles
- 180: dt=0.9900, 44 negative triangles
- 181: dt=0.9900, 38 negative triangles
- 182: dt=0.9900, 36 negative triangles
- 183: dt=0.9900, 36 negative triangles
- 184: dt=0.9900, 30 negative triangles
- 185: dt=0.9900, 28 negative triangles
- 186: dt=0.9900, 33 negative triangles
- 187: dt=0.9900, 29 negative triangles
- 188: dt=0.9900, 28 negative triangles
- 189: dt=0.9900, 27 negative triangles
- 190: dt=0.9900, 24 negative triangles
- 191: dt=0.9900, 28 negative triangles
- 192: dt=0.9900, 27 negative triangles
- 193: dt=0.9900, 25 negative triangles
- 194: dt=0.9900, 27 negative triangles
- 195: dt=0.9900, 23 negative triangles
- 196: dt=0.9900, 27 negative triangles
- 197: dt=0.9900, 29 negative triangles
- 198: dt=0.9900, 30 negative triangles
- 199: dt=0.9900, 28 negative triangles
- 200: dt=0.9900, 27 negative triangles
- 201: dt=0.9900, 26 negative triangles
- 202: dt=0.9900, 28 negative triangles
- 203: dt=0.9900, 28 negative triangles
- 204: dt=0.9900, 24 negative triangles
- 205: dt=0.9405, 24 negative triangles
- 206: dt=0.9405, 25 negative triangles
- 207: dt=0.9405, 26 negative triangles
- 208: dt=0.9405, 24 negative triangles
- 209: dt=0.9405, 28 negative triangles
- 210: dt=0.9405, 30 negative triangles
- 211: dt=0.9405, 31 negative triangles
- 212: dt=0.9405, 28 negative triangles
- 213: dt=0.9405, 26 negative triangles
- 214: dt=0.9405, 26 negative triangles
- 215: dt=0.8935, 31 negative triangles
- 216: dt=0.8935, 28 negative triangles
- 217: dt=0.8935, 25 negative triangles
- 218: dt=0.8935, 27 negative triangles
- 219: dt=0.8935, 31 negative triangles
- 220: dt=0.8935, 24 negative triangles
- 221: dt=0.8935, 20 negative triangles
- 222: dt=0.8935, 25 negative triangles
- 223: dt=0.8935, 22 negative triangles
- 224: dt=0.8935, 20 negative triangles
- 225: dt=0.8935, 22 negative triangles
- 226: dt=0.8935, 23 negative triangles
- 227: dt=0.8935, 22 negative triangles
- 228: dt=0.8935, 16 negative triangles
- 229: dt=0.8935, 22 negative triangles
- 230: dt=0.8935, 21 negative triangles
- 231: dt=0.8935, 22 negative triangles
- 232: dt=0.8935, 20 negative triangles
- 233: dt=0.8935, 19 negative triangles
- 234: dt=0.8935, 21 negative triangles
- 235: dt=0.8935, 22 negative triangles
- 236: dt=0.8935, 24 negative triangles
- 237: dt=0.8935, 29 negative triangles
- 238: dt=0.8488, 18 negative triangles
- 239: dt=0.8488, 18 negative triangles
- 240: dt=0.8488, 20 negative triangles
- 241: dt=0.8488, 16 negative triangles
- 242: dt=0.8488, 26 negative triangles
- 243: dt=0.8488, 21 negative triangles
- 244: dt=0.8488, 22 negative triangles
- 245: dt=0.8488, 14 negative triangles
- 246: dt=0.8488, 21 negative triangles
- 247: dt=0.8488, 17 negative triangles
- 248: dt=0.8488, 20 negative triangles
- 249: dt=0.8488, 19 negative triangles
- 250: dt=0.8488, 23 negative triangles
- 251: dt=0.8488, 19 negative triangles
- 252: dt=0.8488, 20 negative triangles
- 253: dt=0.8488, 19 negative triangles
- 254: dt=0.8488, 20 negative triangles
- 255: dt=0.8064, 22 negative triangles
- 256: dt=0.8064, 22 negative triangles
- 257: dt=0.8064, 15 negative triangles
- 258: dt=0.8064, 14 negative triangles
- 259: dt=0.8064, 12 negative triangles
- 260: dt=0.8064, 16 negative triangles
- 261: dt=0.8064, 14 negative triangles
- 262: dt=0.8064, 14 negative triangles
- 263: dt=0.8064, 16 negative triangles
- 264: dt=0.8064, 17 negative triangles
- 265: dt=0.8064, 17 negative triangles
- 266: dt=0.8064, 13 negative triangles
- 267: dt=0.8064, 14 negative triangles
- 268: dt=0.8064, 13 negative triangles
- 269: dt=0.7660, 12 negative triangles
- 270: dt=0.7660, 14 negative triangles
- 271: dt=0.7660, 17 negative triangles
- 272: dt=0.7660, 15 negative triangles
- 273: dt=0.7660, 14 negative triangles
- 274: dt=0.7660, 13 negative triangles
- 275: dt=0.7660, 12 negative triangles
- 276: dt=0.7660, 12 negative triangles
- 277: dt=0.7660, 11 negative triangles
- 278: dt=0.7660, 16 negative triangles
- 279: dt=0.7660, 14 negative triangles
- 280: dt=0.7660, 14 negative triangles
- 281: dt=0.7660, 14 negative triangles
- 282: dt=0.7660, 14 negative triangles
- 283: dt=0.7660, 11 negative triangles
- 284: dt=0.7660, 12 negative triangles
- 285: dt=0.7660, 11 negative triangles
- 286: dt=0.7660, 12 negative triangles
- 287: dt=0.7277, 11 negative triangles
- 288: dt=0.7277, 16 negative triangles
- 289: dt=0.7277, 13 negative triangles
- 290: dt=0.7277, 11 negative triangles
- 291: dt=0.7277, 13 negative triangles
- 292: dt=0.7277, 12 negative triangles
- 293: dt=0.7277, 16 negative triangles
- 294: dt=0.7277, 13 negative triangles
- 295: dt=0.7277, 12 negative triangles
- 296: dt=0.7277, 9 negative triangles
- 297: dt=0.7277, 8 negative triangles
- 298: dt=0.7277, 9 negative triangles
- 299: dt=0.7277, 10 negative triangles
- 300: dt=0.7277, 11 negative triangles
- 301: dt=0.7277, 11 negative triangles
- 302: dt=0.7277, 10 negative triangles
- 303: dt=0.7277, 11 negative triangles
- 304: dt=0.7277, 11 negative triangles
- 305: dt=0.7277, 12 negative triangles
- 306: dt=0.7277, 12 negative triangles
- 307: dt=0.6914, 17 negative triangles
- 308: dt=0.6914, 11 negative triangles
- 309: dt=0.6914, 6 negative triangles
- 310: dt=0.6914, 9 negative triangles
- 311: dt=0.6914, 6 negative triangles
- 312: dt=0.6914, 6 negative triangles
- 313: dt=0.6914, 6 negative triangles
- 314: dt=0.6914, 7 negative triangles
- 315: dt=0.6914, 5 negative triangles
- 316: dt=0.6914, 8 negative triangles
- 317: dt=0.6914, 6 negative triangles
- 318: dt=0.6914, 3 negative triangles
- 319: dt=0.6914, 3 negative triangles
- 320: dt=0.6914, 2 negative triangles
- 321: dt=0.6914, 5 negative triangles
- 322: dt=0.6914, 2 negative triangles
- writing registered surface to ../surf/lh.sphere.reg...
- registration took 0.97 hours
- mris_register utimesec 3483.557418
- mris_register stimesec 1.839720
- mris_register ru_maxrss 211236
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 31747
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 0
- mris_register ru_oublock 7520
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 265706
- mris_register ru_nivcsw 187020
- FSRUNTIME@ mris_register 0.9677 hours 1 threads
- mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/scripts
- cmdline mris_register -curv -rusage /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 = 5.549
- curvature mean = 0.005, std = 0.795
- curvature mean = 0.010, std = 0.888
- Starting MRISrigidBodyAlignGlobal()
- d=64.00 min @ (0.00, -16.00, 0.00) sse = 275776.9, tmin=0.9268
- d=32.00 min @ (0.00, 8.00, 8.00) sse = 235049.7, tmin=1.8654
- d=16.00 min @ (4.00, 0.00, -4.00) sse = 233092.9, tmin=2.8154
- d=8.00 min @ (-2.00, 0.00, 0.00) sse = 229819.8, tmin=3.7816
- d=4.00 min @ (1.00, 1.00, 0.00) sse = 229611.0, tmin=4.7519
- d=2.00 min @ (-0.50, 0.00, 0.00) sse = 229415.2, tmin=5.7256
- d=1.00 min @ (-0.25, -0.25, 0.25) sse = 229364.6, tmin=6.6929
- d=0.50 min @ (0.12, 0.00, 0.00) sse = 229350.8, tmin=7.6591
- 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 7.66 min
- curvature mean = -0.015, std = 0.815
- curvature mean = 0.004, std = 0.957
- curvature mean = -0.017, std = 0.825
- curvature mean = 0.001, std = 0.982
- curvature mean = -0.018, std = 0.828
- curvature mean = -0.000, std = 0.992
- 2 Reading smoothwm
- curvature mean = -0.046, std = 0.396
- curvature mean = 0.036, std = 0.235
- curvature mean = 0.049, std = 0.272
- curvature mean = 0.022, std = 0.298
- curvature mean = 0.048, std = 0.373
- curvature mean = 0.020, std = 0.324
- curvature mean = 0.029, std = 0.489
- curvature mean = 0.020, std = 0.335
- curvature mean = 0.010, std = 0.603
- MRISregister() return, current seed 0
- -01: dt=0.0000, 362 negative triangles
- 131: dt=0.9900, 362 negative triangles
- expanding nbhd size to 1
- 132: dt=0.9900, 427 negative triangles
- 133: dt=0.9900, 345 negative triangles
- 134: dt=0.9900, 342 negative triangles
- 135: dt=0.9900, 334 negative triangles
- 136: dt=0.9900, 320 negative triangles
- 137: dt=0.9900, 293 negative triangles
- 138: dt=0.9900, 277 negative triangles
- 139: dt=0.9900, 255 negative triangles
- 140: dt=0.9900, 238 negative triangles
- 141: dt=0.9900, 214 negative triangles
- 142: dt=0.9900, 208 negative triangles
- 143: dt=0.9900, 182 negative triangles
- 144: dt=0.9900, 167 negative triangles
- 145: dt=0.9900, 156 negative triangles
- 146: dt=0.9900, 145 negative triangles
- 147: dt=0.9900, 145 negative triangles
- 148: dt=0.9900, 132 negative triangles
- 149: dt=0.9900, 128 negative triangles
- 150: dt=0.9900, 121 negative triangles
- 151: dt=0.9900, 111 negative triangles
- 152: dt=0.9900, 108 negative triangles
- 153: dt=0.9900, 104 negative triangles
- 154: dt=0.9900, 93 negative triangles
- 155: dt=0.9900, 85 negative triangles
- 156: dt=0.9900, 81 negative triangles
- 157: dt=0.9900, 72 negative triangles
- 158: dt=0.9900, 68 negative triangles
- 159: dt=0.9900, 73 negative triangles
- 160: dt=0.9900, 68 negative triangles
- 161: dt=0.9900, 65 negative triangles
- 162: dt=0.9900, 65 negative triangles
- 163: dt=0.9900, 59 negative triangles
- 164: dt=0.9900, 59 negative triangles
- 165: dt=0.9900, 54 negative triangles
- 166: dt=0.9900, 51 negative triangles
- 167: dt=0.9900, 52 negative triangles
- 168: dt=0.9900, 53 negative triangles
- 169: dt=0.9900, 48 negative triangles
- 170: dt=0.9900, 49 negative triangles
- 171: dt=0.9900, 49 negative triangles
- 172: dt=0.9900, 43 negative triangles
- 173: dt=0.9900, 37 negative triangles
- 174: dt=0.9900, 37 negative triangles
- 175: dt=0.9900, 31 negative triangles
- 176: dt=0.9900, 34 negative triangles
- 177: dt=0.9900, 32 negative triangles
- 178: dt=0.9900, 32 negative triangles
- 179: dt=0.9900, 29 negative triangles
- 180: dt=0.9900, 27 negative triangles
- 181: dt=0.9900, 27 negative triangles
- 182: dt=0.9900, 25 negative triangles
- 183: dt=0.9900, 31 negative triangles
- 184: dt=0.9900, 23 negative triangles
- 185: dt=0.9900, 25 negative triangles
- 186: dt=0.9900, 21 negative triangles
- 187: dt=0.9900, 23 negative triangles
- 188: dt=0.9900, 18 negative triangles
- 189: dt=0.9900, 18 negative triangles
- 190: dt=0.9900, 17 negative triangles
- 191: dt=0.9900, 16 negative triangles
- 192: dt=0.9900, 17 negative triangles
- 193: dt=0.9900, 16 negative triangles
- 194: dt=0.9900, 17 negative triangles
- 195: dt=0.9900, 17 negative triangles
- 196: dt=0.9900, 15 negative triangles
- 197: dt=0.9900, 16 negative triangles
- 198: dt=0.9900, 15 negative triangles
- 199: dt=0.9900, 17 negative triangles
- 200: dt=0.9900, 16 negative triangles
- 201: dt=0.9900, 14 negative triangles
- 202: dt=0.9900, 14 negative triangles
- 203: dt=0.9900, 15 negative triangles
- 204: dt=0.9900, 15 negative triangles
- 205: dt=0.9900, 13 negative triangles
- 206: dt=0.9900, 11 negative triangles
- 207: dt=0.9900, 11 negative triangles
- 208: dt=0.9900, 13 negative triangles
- 209: dt=0.9900, 12 negative triangles
- 210: dt=0.9900, 11 negative triangles
- 211: dt=0.9900, 12 negative triangles
- 212: dt=0.9900, 10 negative triangles
- 213: dt=0.9900, 12 negative triangles
- 214: dt=0.9900, 12 negative triangles
- 215: dt=0.9900, 11 negative triangles
- 216: dt=0.9900, 12 negative triangles
- 217: dt=0.9900, 12 negative triangles
- 218: dt=0.9900, 11 negative triangles
- 219: dt=0.9900, 12 negative triangles
- 220: dt=0.9900, 10 negative triangles
- 221: dt=0.9900, 9 negative triangles
- 222: dt=0.9900, 7 negative triangles
- 223: dt=0.9900, 8 negative triangles
- 224: dt=0.9900, 5 negative triangles
- 225: dt=0.9900, 3 negative triangles
- 226: dt=0.9900, 4 negative triangles
- 227: dt=0.9900, 3 negative triangles
- 228: dt=0.9900, 3 negative triangles
- 229: dt=0.9900, 2 negative triangles
- 230: dt=0.9900, 2 negative triangles
- 231: dt=0.9900, 3 negative triangles
- 232: dt=0.9900, 1 negative triangles
- writing registered surface to ../surf/rh.sphere.reg...
- registration took 1.07 hours
- mris_register utimesec 4103.963102
- mris_register stimesec 3.090530
- mris_register ru_maxrss 209556
- mris_register ru_ixrss 0
- mris_register ru_idrss 0
- mris_register ru_isrss 0
- mris_register ru_minflt 30395
- mris_register ru_majflt 0
- mris_register ru_nswap 0
- mris_register ru_inblock 0
- mris_register ru_oublock 7320
- mris_register ru_msgsnd 0
- mris_register ru_msgrcv 0
- mris_register ru_nsignals 0
- mris_register ru_nvcsw 269711
- mris_register ru_nivcsw 181004
- FSRUNTIME@ mris_register 1.0732 hours 1 threads
- PIDs (27305 27308) completed and logs appended.
- #--------------------------------------------
- #@# Jacobian white lh Sun Oct 8 10:48:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_jacobian ../surf/lh.white.preaparc ../surf/lh.sphere.reg ../surf/lh.jacobian_white
- #--------------------------------------------
- #@# Jacobian white rh Sun Oct 8 10:48:15 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_jacobian ../surf/rh.white.preaparc ../surf/rh.sphere.reg ../surf/rh.jacobian_white
- Waiting for PID 29491 of (29491 29494) to complete...
- Waiting for PID 29494 of (29491 29494) 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 (29491 29494) completed and logs appended.
- #--------------------------------------------
- #@# AvgCurv lh Sun Oct 8 10:48:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 10:48:17 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 29539 of (29539 29542) to complete...
- Waiting for PID 29542 of (29539 29542) 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 (29539 29542) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc lh Sun Oct 8 10:48:18 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050815 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 10:48:19 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050815 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 29589 of (29589 29592) to complete...
- Waiting for PID 29592 of (29589 29592) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050815 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...
- 1397 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2611 changed, 105178 examined...
- 001: 614 changed, 10949 examined...
- 002: 142 changed, 3498 examined...
- 003: 49 changed, 810 examined...
- 004: 11 changed, 284 examined...
- 005: 2 changed, 75 examined...
- 006: 1 changed, 13 examined...
- 007: 1 changed, 6 examined...
- 008: 0 changed, 7 examined...
- 337 labels changed using aseg
- 000: 128 total segments, 88 labels (426 vertices) changed
- 001: 43 total segments, 3 labels (23 vertices) changed
- 002: 40 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...
- 790 vertices marked for relabeling...
- 790 labels changed in reclassification.
- writing output to ../label/lh.aparc.annot...
- classification took 0 minutes and 11 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050815 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...
- 1237 labels changed using aseg
- relabeling using gibbs priors...
- 000: 2400 changed, 102455 examined...
- 001: 585 changed, 10328 examined...
- 002: 135 changed, 3168 examined...
- 003: 46 changed, 812 examined...
- 004: 20 changed, 260 examined...
- 005: 5 changed, 111 examined...
- 006: 4 changed, 29 examined...
- 007: 0 changed, 29 examined...
- 236 labels changed using aseg
- 000: 105 total segments, 67 labels (429 vertices) changed
- 001: 43 total segments, 5 labels (21 vertices) changed
- 002: 38 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 13 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 1003 vertices marked for relabeling...
- 1003 labels changed in reclassification.
- writing output to ../label/rh.aparc.annot...
- classification took 0 minutes and 11 seconds.
- PIDs (29589 29592) completed and logs appended.
- #--------------------------------------------
- #@# Make Pial Surf lh Sun Oct 8 10:48:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050815 lh
- #--------------------------------------------
- #@# Make Pial Surf rh Sun Oct 8 10:48:30 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050815 rh
- Waiting for PID 29637 of (29637 29640) to complete...
- Waiting for PID 29640 of (29637 29640) to complete...
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050815 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-6.0.0/0050815/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- 19852 bright wm thresholded.
- 80 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.orig...
- computing class statistics...
- border white: 244265 voxels (1.46%)
- border gray 309669 voxels (1.85%)
- WM (91.0): 92.5 +- 9.0 [70.0 --> 110.0]
- GM (66.0) : 64.8 +- 12.2 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 49.8 (was 70)
- setting MAX_BORDER_WHITE to 103.0 (was 105)
- setting MIN_BORDER_WHITE to 62.0 (was 85)
- setting MAX_CSF to 37.6 (was 40)
- setting MAX_GRAY to 85.0 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 49.8 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 25.4 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=94+-9.6, GM=62+-10.4
- mean inside = 87.6, mean outside = 69.6
- smoothing surface for 5 iterations...
- reading initial white vertex positions from white.preaparc...
- reading colortable from annotation file...
- colortable with 36 entries read (originally /autofs/space/tanha_002/users/greve/fsdev.build/average/colortable_desikan_killiany.txt)
- repositioning cortical surface to gray/white boundary
- smoothing T1 volume with sigma = 2.000
- vertex spacing 0.92 +- 0.34 (0.02-->9.12) (max @ vno 57900 --> 100501)
- face area 0.35 +- 0.24 (0.00-->10.43)
- mean absolute distance = 0.64 +- 1.06
- 3137 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 120 points - only 0.00% unknown
- deleting segment 1 with 146 points - only 0.00% unknown
- deleting segment 2 with 24 points - only 0.00% unknown
- deleting segment 3 with 17 points - only 0.00% unknown
- deleting segment 5 with 10 points - only 0.00% unknown
- deleting segment 6 with 6 points - only 0.00% unknown
- deleting segment 7 with 5 points - only 0.00% unknown
- deleting segment 8 with 6 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 9 with 3 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 10 with 1 points - only 0.00% unknown
- deleting segment 11 with 5 points - only 0.00% unknown
- deleting segment 12 with 5 points - only 0.00% unknown
- deleting segment 13 with 15 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 14 with 2 points - only 0.00% unknown
- deleting segment 15 with 5 points - only 0.00% unknown
- deleting segment 16 with 19 points - only 0.00% unknown
- deleting segment 17 with 13 points - only 0.00% unknown
- deleting segment 18 with 6 points - only 0.00% unknown
- mean border=75.0, 677 (677) missing vertices, mean dist 0.2 [1.1 (%20.6)->0.5 (%79.4))]
- %53 local maxima, %39 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 0
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.93 +- 0.35 (0.10-->9.33) (max @ vno 57900 --> 100501)
- face area 0.35 +- 0.24 (0.00-->10.79)
- mean absolute distance = 0.45 +- 0.81
- 3660 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1409811.0, rms=6.645
- 001: dt: 0.5000, sse=995504.9, rms=4.761 (28.342%)
- 002: dt: 0.5000, sse=915047.6, rms=4.358 (8.470%)
- rms = 4.38, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.2500, sse=805625.1, rms=3.638 (16.533%)
- 004: dt: 0.2500, sse=766402.6, rms=3.303 (9.194%)
- 005: dt: 0.2500, sse=750508.5, rms=3.189 (3.464%)
- rms = 3.15, time step reduction 2 of 3 to 0.125...
- 006: dt: 0.2500, sse=747464.7, rms=3.148 (1.278%)
- 007: dt: 0.1250, sse=735538.9, rms=3.075 (2.331%)
- rms = 3.06, time step reduction 3 of 3 to 0.062...
- 008: dt: 0.1250, sse=736256.2, rms=3.060 (0.468%)
- positioning took 0.8 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 105 points - only 0.00% unknown
- deleting segment 1 with 141 points - only 0.00% unknown
- deleting segment 2 with 46 points - only 0.00% unknown
- deleting segment 3 with 8 points - only 0.00% unknown
- deleting segment 4 with 12 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 6 with 18 points - only 0.00% unknown
- deleting segment 7 with 5 points - only 0.00% unknown
- deleting segment 8 with 6 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 9 with 3 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 10 with 1 points - only 0.00% unknown
- deleting segment 11 with 5 points - only 0.00% unknown
- deleting segment 12 with 18 points - only 0.00% unknown
- deleting segment 13 with 8 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 14 with 2 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 15 with 2 points - only 0.00% unknown
- deleting segment 16 with 26 points - only 0.00% unknown
- deleting segment 17 with 16 points - only 0.00% unknown
- deleting segment 18 with 6 points - only 0.00% unknown
- mean border=77.4, 743 (352) missing vertices, mean dist -0.2 [0.5 (%61.0)->0.3 (%39.0))]
- %61 local maxima, %31 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 0.93 +- 0.34 (0.10-->9.33) (max @ vno 57900 --> 100501)
- face area 0.36 +- 0.24 (0.00-->11.19)
- mean absolute distance = 0.38 +- 0.60
- 3539 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=898863.9, rms=4.162
- 009: dt: 0.5000, sse=833734.6, rms=3.677 (11.654%)
- rms = 3.87, time step reduction 1 of 3 to 0.250...
- 010: dt: 0.2500, sse=744049.6, rms=3.035 (17.456%)
- 011: dt: 0.2500, sse=721136.3, rms=2.750 (9.395%)
- 012: dt: 0.2500, sse=730713.1, rms=2.680 (2.545%)
- rms = 2.64, time step reduction 2 of 3 to 0.125...
- 013: dt: 0.2500, sse=703975.2, rms=2.641 (1.458%)
- 014: dt: 0.1250, sse=705966.8, rms=2.572 (2.615%)
- rms = 2.56, time step reduction 3 of 3 to 0.062...
- 015: dt: 0.1250, sse=690163.2, rms=2.558 (0.523%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 117 points - only 0.00% unknown
- deleting segment 1 with 142 points - only 0.00% unknown
- deleting segment 2 with 80 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 4 with 18 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 5 with 3 points - only 0.00% unknown
- deleting segment 6 with 6 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 7 with 3 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 8 with 2 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 9 with 1 points - only 0.00% unknown
- deleting segment 10 with 5 points - only 0.00% unknown
- deleting segment 11 with 19 points - only 0.00% unknown
- deleting segment 12 with 9 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 13 with 2 points - only 0.00% unknown
- deleting segment 14 with 6 points - only 16.67% unknown
- removing 4 vertex label from ripped group
- deleting segment 15 with 4 points - only 0.00% unknown
- deleting segment 16 with 27 points - only 0.00% unknown
- deleting segment 17 with 16 points - only 0.00% unknown
- deleting segment 18 with 6 points - only 0.00% unknown
- mean border=79.0, 914 (304) missing vertices, mean dist -0.1 [0.5 (%55.8)->0.3 (%44.2))]
- %68 local maxima, %24 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 0.92 +- 0.34 (0.06-->9.37) (max @ vno 57900 --> 100501)
- face area 0.36 +- 0.24 (0.00-->11.13)
- mean absolute distance = 0.36 +- 0.51
- 3030 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=777084.2, rms=3.341
- rms = 3.37, time step reduction 1 of 3 to 0.250...
- 016: dt: 0.2500, sse=712962.2, rms=2.842 (14.937%)
- 017: dt: 0.2500, sse=691558.6, rms=2.516 (11.486%)
- 018: dt: 0.2500, sse=679185.6, rms=2.443 (2.874%)
- rms = 2.40, time step reduction 2 of 3 to 0.125...
- 019: dt: 0.2500, sse=685165.2, rms=2.402 (1.708%)
- 020: dt: 0.1250, sse=662301.5, rms=2.335 (2.785%)
- rms = 2.32, time step reduction 3 of 3 to 0.062...
- 021: dt: 0.1250, sse=658947.5, rms=2.321 (0.580%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 126 points - only 0.00% unknown
- deleting segment 1 with 142 points - only 0.00% unknown
- deleting segment 2 with 75 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 3 with 1 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 5 with 21 points - only 0.00% unknown
- deleting segment 6 with 5 points - only 0.00% unknown
- deleting segment 7 with 7 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 8 with 3 points - only 0.00% unknown
- deleting segment 9 with 5 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 10 with 2 points - only 0.00% unknown
- deleting segment 11 with 5 points - only 0.00% unknown
- deleting segment 12 with 18 points - only 0.00% unknown
- deleting segment 13 with 9 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 14 with 4 points - only 0.00% unknown
- deleting segment 15 with 27 points - only 0.00% unknown
- deleting segment 16 with 16 points - only 0.00% unknown
- deleting segment 17 with 6 points - only 0.00% unknown
- mean border=80.0, 1069 (281) missing vertices, mean dist -0.1 [0.4 (%52.1)->0.3 (%47.9))]
- %73 local maxima, %19 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-6.0.0/0050815/surf/lh.white...
- writing smoothed curvature to lh.curv
- 000: dt: 0.0000, sse=688621.6, rms=2.644
- rms = 2.71, time step reduction 1 of 3 to 0.250...
- 022: dt: 0.2500, sse=657385.4, rms=2.220 (16.027%)
- 023: dt: 0.2500, sse=641599.4, rms=1.961 (11.690%)
- rms = 1.93, time step reduction 2 of 3 to 0.125...
- 024: dt: 0.2500, sse=639811.8, rms=1.932 (1.486%)
- rms = 1.89, time step reduction 3 of 3 to 0.062...
- 025: dt: 0.1250, sse=628665.4, rms=1.889 (2.222%)
- positioning took 0.4 minutes
- generating cortex label...
- 21 non-cortical segments detected
- only using segment with 7658 vertices
- erasing segment 0 (vno[0] = 26833)
- erasing segment 1 (vno[0] = 31582)
- erasing segment 3 (vno[0] = 40160)
- erasing segment 4 (vno[0] = 40202)
- erasing segment 5 (vno[0] = 41086)
- erasing segment 6 (vno[0] = 43567)
- erasing segment 7 (vno[0] = 44360)
- erasing segment 8 (vno[0] = 44364)
- erasing segment 9 (vno[0] = 46671)
- erasing segment 10 (vno[0] = 53471)
- erasing segment 11 (vno[0] = 56144)
- erasing segment 12 (vno[0] = 57070)
- erasing segment 13 (vno[0] = 58575)
- erasing segment 14 (vno[0] = 62580)
- erasing segment 15 (vno[0] = 72640)
- erasing segment 16 (vno[0] = 73289)
- erasing segment 17 (vno[0] = 76165)
- erasing segment 18 (vno[0] = 79344)
- erasing segment 19 (vno[0] = 80198)
- erasing segment 20 (vno[0] = 81022)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/label/lh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.curv
- writing smoothed area to lh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.area
- vertex spacing 0.92 +- 0.35 (0.02-->9.43) (max @ vno 57900 --> 100501)
- face area 0.35 +- 0.24 (0.00-->10.98)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 15 points - only 0.00% unknown
- deleting segment 1 with 87 points - only 0.00% unknown
- deleting segment 3 with 18 points - only 0.00% unknown
- deleting segment 4 with 5 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 5 with 1 points - only 0.00% unknown
- removing 4 vertex label from ripped group
- deleting segment 6 with 4 points - only 0.00% unknown
- deleting segment 8 with 37 points - only 0.00% unknown
- deleting segment 9 with 40 points - only 0.00% unknown
- deleting segment 12 with 14 points - only 0.00% unknown
- deleting segment 13 with 8 points - only 0.00% unknown
- deleting segment 14 with 33 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=48.0, 488 (488) missing vertices, mean dist 2.2 [1.7 (%0.1)->3.0 (%99.9))]
- %16 local maxima, %54 large gradients and %24 min vals, 480 gradients ignored
- perforing initial smooth deformation to move away from white surface
- tol=1.0e-04, sigma=2.0, host=tars-, nav=16, nbrs=2, l_surf_repulse=1.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.05
- 000: dt: 0.0000, sse=21358006.0, rms=32.473
- 001: dt: 0.0500, sse=19037720.0, rms=30.609 (5.743%)
- 002: dt: 0.0500, sse=17342060.0, rms=29.170 (4.699%)
- 003: dt: 0.0500, sse=16018334.0, rms=27.996 (4.026%)
- 004: dt: 0.0500, sse=14930625.0, rms=26.993 (3.584%)
- 005: dt: 0.0500, sse=14004351.0, rms=26.108 (3.278%)
- 006: dt: 0.0500, sse=13194458.0, rms=25.309 (3.061%)
- 007: dt: 0.0500, sse=12472999.0, rms=24.575 (2.899%)
- 008: dt: 0.0500, sse=11820989.0, rms=23.892 (2.777%)
- 009: dt: 0.0500, sse=11226455.0, rms=23.253 (2.678%)
- 010: dt: 0.0500, sse=10679011.0, rms=22.647 (2.603%)
- positioning took 0.8 minutes
- mean border=47.9, 372 (228) missing vertices, mean dist 1.9 [0.9 (%0.2)->2.5 (%99.8))]
- %17 local maxima, %54 large gradients and %24 min vals, 429 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=11438635.0, rms=23.464
- 011: dt: 0.0500, sse=10924911.0, rms=22.903 (2.390%)
- 012: dt: 0.0500, sse=10447501.0, rms=22.369 (2.331%)
- 013: dt: 0.0500, sse=10003930.0, rms=21.861 (2.270%)
- 014: dt: 0.0500, sse=9591207.0, rms=21.378 (2.211%)
- 015: dt: 0.0500, sse=9206844.0, rms=20.918 (2.153%)
- 016: dt: 0.0500, sse=8848977.0, rms=20.480 (2.093%)
- 017: dt: 0.0500, sse=8515137.0, rms=20.063 (2.037%)
- 018: dt: 0.0500, sse=8204153.0, rms=19.666 (1.977%)
- 019: dt: 0.0500, sse=7914475.5, rms=19.289 (1.916%)
- 020: dt: 0.0500, sse=7643852.5, rms=18.930 (1.861%)
- positioning took 0.8 minutes
- mean border=47.7, 405 (155) missing vertices, mean dist 1.6 [0.1 (%2.4)->2.2 (%97.6))]
- %17 local maxima, %54 large gradients and %24 min vals, 445 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=7752499.5, rms=19.074
- 021: dt: 0.0500, sse=7488101.0, rms=18.720 (1.858%)
- 022: dt: 0.0500, sse=7242915.5, rms=18.385 (1.788%)
- 023: dt: 0.0500, sse=7012005.5, rms=18.064 (1.746%)
- 024: dt: 0.0500, sse=6798514.5, rms=17.762 (1.672%)
- 025: dt: 0.0500, sse=6600465.0, rms=17.477 (1.604%)
- 026: dt: 0.0500, sse=6417150.5, rms=17.209 (1.533%)
- 027: dt: 0.0500, sse=6245653.5, rms=16.955 (1.480%)
- 028: dt: 0.0500, sse=6083227.5, rms=16.710 (1.444%)
- 029: dt: 0.0500, sse=5928435.0, rms=16.473 (1.417%)
- 030: dt: 0.0500, sse=5782635.5, rms=16.247 (1.373%)
- positioning took 0.8 minutes
- mean border=47.6, 490 (124) missing vertices, mean dist 1.4 [0.1 (%14.5)->2.2 (%85.5))]
- %17 local maxima, %54 large gradients and %23 min vals, 389 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=5867619.5, rms=16.373
- 031: dt: 0.5000, sse=4806306.5, rms=14.644 (10.558%)
- 032: dt: 0.5000, sse=4160263.0, rms=13.474 (7.991%)
- 033: dt: 0.5000, sse=3685129.2, rms=12.549 (6.862%)
- 034: dt: 0.5000, sse=3364588.8, rms=11.874 (5.380%)
- 035: dt: 0.5000, sse=3103170.2, rms=11.300 (4.838%)
- 036: dt: 0.5000, sse=2910298.2, rms=10.849 (3.984%)
- 037: dt: 0.5000, sse=2745049.8, rms=10.453 (3.657%)
- 038: dt: 0.5000, sse=2620209.8, rms=10.138 (3.012%)
- 039: dt: 0.5000, sse=2507041.2, rms=9.848 (2.860%)
- 040: dt: 0.5000, sse=2422764.2, rms=9.622 (2.292%)
- 041: dt: 0.5000, sse=2343954.2, rms=9.411 (2.197%)
- 042: dt: 0.5000, sse=2288840.8, rms=9.255 (1.651%)
- 043: dt: 0.5000, sse=2237218.0, rms=9.111 (1.560%)
- 044: dt: 0.5000, sse=2197947.5, rms=8.996 (1.266%)
- 045: dt: 0.5000, sse=2160561.5, rms=8.888 (1.193%)
- 046: dt: 0.5000, sse=2137276.5, rms=8.816 (0.808%)
- 047: dt: 0.5000, sse=2107662.0, rms=8.731 (0.970%)
- 048: dt: 0.5000, sse=2088130.9, rms=8.670 (0.693%)
- 049: dt: 0.5000, sse=2062563.0, rms=8.595 (0.870%)
- 050: dt: 0.5000, sse=2043623.4, rms=8.536 (0.691%)
- 051: dt: 0.5000, sse=2017922.2, rms=8.460 (0.881%)
- rms = 8.43, time step reduction 1 of 3 to 0.250...
- 052: dt: 0.5000, sse=2007690.2, rms=8.425 (0.419%)
- 053: dt: 0.2500, sse=1946554.2, rms=8.216 (2.484%)
- 054: dt: 0.2500, sse=1929390.4, rms=8.160 (0.675%)
- rms = 8.15, time step reduction 2 of 3 to 0.125...
- 055: dt: 0.2500, sse=1928220.8, rms=8.155 (0.068%)
- 056: dt: 0.1250, sse=1913268.1, rms=8.105 (0.614%)
- rms = 8.09, time step reduction 3 of 3 to 0.062...
- 057: dt: 0.1250, sse=1909911.5, rms=8.094 (0.137%)
- positioning took 2.7 minutes
- mean border=46.2, 1948 (54) missing vertices, mean dist 0.5 [0.2 (%42.9)->1.3 (%57.1))]
- %31 local maxima, %40 large gradients and %21 min vals, 290 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=2093022.8, rms=8.045
- 058: dt: 0.5000, sse=1957293.4, rms=7.616 (5.338%)
- 059: dt: 0.5000, sse=1871210.9, rms=7.347 (3.521%)
- 060: dt: 0.5000, sse=1839755.8, rms=7.247 (1.365%)
- 061: dt: 0.5000, sse=1790172.9, rms=7.080 (2.303%)
- 062: dt: 0.5000, sse=1774245.9, rms=7.026 (0.769%)
- 063: dt: 0.5000, sse=1738868.1, rms=6.901 (1.771%)
- rms = 6.88, time step reduction 1 of 3 to 0.250...
- 064: dt: 0.5000, sse=1733914.2, rms=6.883 (0.267%)
- 065: dt: 0.2500, sse=1659795.4, rms=6.563 (4.649%)
- 066: dt: 0.2500, sse=1641185.6, rms=6.490 (1.112%)
- rms = 6.49, time step reduction 2 of 3 to 0.125...
- 067: dt: 0.2500, sse=1641471.8, rms=6.490 (0.001%)
- 068: dt: 0.1250, sse=1620309.1, rms=6.401 (1.372%)
- rms = 6.38, time step reduction 3 of 3 to 0.062...
- 069: dt: 0.1250, sse=1613983.2, rms=6.376 (0.384%)
- positioning took 1.3 minutes
- mean border=45.1, 2467 (33) missing vertices, mean dist 0.3 [0.2 (%46.4)->1.0 (%53.6))]
- %41 local maxima, %29 large gradients and %21 min vals, 326 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=1763777.8, rms=6.783
- rms = 6.75, time step reduction 1 of 3 to 0.250...
- 070: dt: 0.5000, sse=1749957.9, rms=6.754 (0.431%)
- 071: dt: 0.2500, sse=1673859.1, rms=6.458 (4.374%)
- 072: dt: 0.2500, sse=1652203.0, rms=6.377 (1.256%)
- rms = 6.35, time step reduction 2 of 3 to 0.125...
- 073: dt: 0.2500, sse=1645536.9, rms=6.354 (0.357%)
- 074: dt: 0.1250, sse=1617866.6, rms=6.238 (1.827%)
- rms = 6.20, time step reduction 3 of 3 to 0.062...
- 075: dt: 0.1250, sse=1607936.6, rms=6.199 (0.620%)
- positioning took 0.7 minutes
- mean border=44.3, 4014 (26) missing vertices, mean dist 0.3 [0.2 (%45.2)->0.8 (%54.8))]
- %48 local maxima, %22 large gradients and %21 min vals, 348 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-6.0.0/0050815/surf/lh.pial...
- writing smoothed curvature to lh.curv.pial
- 000: dt: 0.0000, sse=1660951.2, rms=6.344
- rms = 6.37, time step reduction 1 of 3 to 0.250...
- 076: dt: 0.2500, sse=1629650.9, rms=6.218 (1.984%)
- 077: dt: 0.2500, sse=1600364.6, rms=6.111 (1.718%)
- 078: dt: 0.2500, sse=1585998.5, rms=6.061 (0.819%)
- 079: dt: 0.2500, sse=1562716.9, rms=5.973 (1.453%)
- rms = 5.94, time step reduction 2 of 3 to 0.125...
- 080: dt: 0.2500, sse=1552947.9, rms=5.938 (0.584%)
- 081: dt: 0.1250, sse=1523969.1, rms=5.810 (2.163%)
- rms = 5.77, time step reduction 3 of 3 to 0.062...
- 082: dt: 0.1250, sse=1513993.8, rms=5.769 (0.697%)
- positioning took 0.9 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.curv.pial
- writing smoothed area to lh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.area.pial
- vertex spacing 1.11 +- 0.57 (0.03-->13.31) (max @ vno 58870 --> 59579)
- face area 0.49 +- 0.49 (0.00-->12.55)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 105178 vertices processed
- 25000 of 105178 vertices processed
- 50000 of 105178 vertices processed
- 75000 of 105178 vertices processed
- 100000 of 105178 vertices processed
- 0 of 105178 vertices processed
- 25000 of 105178 vertices processed
- 50000 of 105178 vertices processed
- 75000 of 105178 vertices processed
- 100000 of 105178 vertices processed
- thickness calculation complete, 913:3597 truncations.
- 15682 vertices at 0 distance
- 55699 vertices at 1 distance
- 64207 vertices at 2 distance
- 37877 vertices at 3 distance
- 15474 vertices at 4 distance
- 5427 vertices at 5 distance
- 1946 vertices at 6 distance
- 753 vertices at 7 distance
- 384 vertices at 8 distance
- 221 vertices at 9 distance
- 150 vertices at 10 distance
- 97 vertices at 11 distance
- 74 vertices at 12 distance
- 71 vertices at 13 distance
- 67 vertices at 14 distance
- 57 vertices at 15 distance
- 28 vertices at 16 distance
- 19 vertices at 17 distance
- 13 vertices at 18 distance
- 9 vertices at 19 distance
- 17 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.thickness
- positioning took 13.8 minutes
- mris_make_surfaces -orig_white white.preaparc -orig_pial white.preaparc -aseg ../mri/aseg.presurf -mgz -T1 brain.finalsurfs 0050815 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-6.0.0/0050815/mri/filled.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/brain.finalsurfs.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/../mri/aseg.presurf.mgz...
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- 19852 bright wm thresholded.
- 80 bright non-wm voxels segmented.
- reading original surface position from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.orig...
- computing class statistics...
- border white: 244265 voxels (1.46%)
- border gray 309669 voxels (1.85%)
- WM (91.0): 92.5 +- 9.0 [70.0 --> 110.0]
- GM (66.0) : 64.8 +- 12.2 [30.0 --> 110.0]
- setting MIN_GRAY_AT_WHITE_BORDER to 48.8 (was 70)
- setting MAX_BORDER_WHITE to 104.0 (was 105)
- setting MIN_BORDER_WHITE to 61.0 (was 85)
- setting MAX_CSF to 36.6 (was 40)
- setting MAX_GRAY to 86.0 (was 95)
- setting MAX_GRAY_AT_CSF_BORDER to 48.8 (was 75)
- setting MIN_GRAY_AT_CSF_BORDER to 24.4 (was 40)
- using class modes intead of means, discounting robust sigmas....
- intensity peaks found at WM=95+-8.7, GM=61+-12.2
- mean inside = 87.7, mean outside = 70.4
- 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 0.92 +- 0.35 (0.03-->6.48) (max @ vno 8042 --> 93095)
- face area 0.36 +- 0.24 (0.00-->8.25)
- mean absolute distance = 0.66 +- 1.08
- 3181 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 117 points - only 0.00% unknown
- deleting segment 1 with 15 points - only 0.00% unknown
- deleting segment 2 with 13 points - only 0.00% unknown
- deleting segment 3 with 8 points - only 0.00% unknown
- deleting segment 5 with 19 points - only 0.00% unknown
- deleting segment 7 with 5 points - only 0.00% unknown
- deleting segment 8 with 13 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 9 with 1 points - only 0.00% unknown
- deleting segment 10 with 32 points - only 0.00% unknown
- deleting segment 11 with 27 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 12 with 3 points - only 0.00% unknown
- deleting segment 13 with 7 points - only 0.00% unknown
- mean border=74.4, 696 (683) missing vertices, mean dist 0.2 [1.1 (%20.7)->0.5 (%79.3))]
- %60 local maxima, %33 large gradients and % 0 min vals, 0 gradients ignored
- tol=1.0e-04, sigma=2.0, host=tars-, nav=4, nbrs=2, l_repulse=5.000, l_tspring=1.000, l_nspring=0.500, l_intensity=0.200, l_curv=1.000
- mom=0.00, dt=0.50
- complete_dist_mat 0
- rms 0
- smooth_averages 0
- remove_neg 0
- ico_order 0
- which_surface 0
- target_radius 0.000000
- nfields 0
- scale 0.000000
- desired_rms_height 0.000000
- momentum 0.000000
- nbhd_size 0
- max_nbrs 0
- niterations 25
- nsurfaces 0
- SURFACES 3
- flags 0 (0)
- use curv 0
- no sulc 0
- no rigid align 0
- mris->nsize 2
- mris->hemisphere 1
- randomSeed 0
- smoothing T1 volume with sigma = 1.000
- vertex spacing 0.93 +- 0.36 (0.07-->6.40) (max @ vno 8042 --> 93095)
- face area 0.36 +- 0.25 (0.00-->8.15)
- mean absolute distance = 0.47 +- 0.85
- 3643 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=1435124.4, rms=6.845
- 001: dt: 0.5000, sse=1027571.1, rms=5.007 (26.853%)
- 002: dt: 0.5000, sse=947375.4, rms=4.568 (8.761%)
- rms = 4.58, time step reduction 1 of 3 to 0.250...
- 003: dt: 0.2500, sse=839309.1, rms=3.913 (14.348%)
- 004: dt: 0.2500, sse=799334.9, rms=3.606 (7.828%)
- 005: dt: 0.2500, sse=782203.0, rms=3.481 (3.481%)
- rms = 3.44, time step reduction 2 of 3 to 0.125...
- 006: dt: 0.2500, sse=793909.2, rms=3.435 (1.307%)
- 007: dt: 0.1250, sse=779552.4, rms=3.360 (2.189%)
- rms = 3.34, time step reduction 3 of 3 to 0.062...
- 008: dt: 0.1250, sse=761530.2, rms=3.342 (0.543%)
- positioning took 0.7 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 89 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 1 with 1 points - only 0.00% unknown
- deleting segment 2 with 12 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 3 with 1 points - only 0.00% unknown
- deleting segment 4 with 8 points - only 0.00% unknown
- deleting segment 5 with 8 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 6 with 1 points - only 0.00% unknown
- deleting segment 7 with 20 points - only 0.00% unknown
- deleting segment 8 with 21 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 9 with 3 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 10 with 1 points - only 0.00% unknown
- mean border=77.0, 830 (343) missing vertices, mean dist -0.2 [0.5 (%61.9)->0.4 (%38.1))]
- %66 local maxima, %26 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 0.93 +- 0.36 (0.06-->6.33) (max @ vno 8042 --> 93095)
- face area 0.36 +- 0.25 (0.00-->8.20)
- mean absolute distance = 0.39 +- 0.62
- 3537 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=930591.2, rms=4.425
- 009: dt: 0.5000, sse=852285.6, rms=3.793 (14.282%)
- rms = 3.98, time step reduction 1 of 3 to 0.250...
- 010: dt: 0.2500, sse=755834.8, rms=3.192 (15.850%)
- 011: dt: 0.2500, sse=731899.6, rms=2.927 (8.304%)
- 012: dt: 0.2500, sse=715394.6, rms=2.847 (2.713%)
- rms = 2.83, time step reduction 2 of 3 to 0.125...
- 013: dt: 0.2500, sse=716323.1, rms=2.828 (0.678%)
- 014: dt: 0.1250, sse=703269.4, rms=2.764 (2.250%)
- rms = 2.76, time step reduction 3 of 3 to 0.062...
- 015: dt: 0.1250, sse=704509.8, rms=2.758 (0.231%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 90 points - only 0.00% unknown
- deleting segment 1 with 8 points - only 0.00% unknown
- deleting segment 2 with 11 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 3 with 1 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 7 with 6 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 8 with 1 points - only 0.00% unknown
- deleting segment 9 with 22 points - only 0.00% unknown
- deleting segment 10 with 21 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 11 with 3 points - only 0.00% unknown
- mean border=78.4, 990 (283) missing vertices, mean dist -0.1 [0.5 (%55.6)->0.3 (%44.4))]
- %72 local maxima, %20 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 0.93 +- 0.35 (0.07-->6.33) (max @ vno 8042 --> 93095)
- face area 0.36 +- 0.25 (0.00-->8.48)
- mean absolute distance = 0.36 +- 0.52
- 2987 vertices more than 2 sigmas from mean.
- averaging target values for 5 iterations...
- 000: dt: 0.0000, sse=781093.7, rms=3.426
- rms = 3.46, time step reduction 1 of 3 to 0.250...
- 016: dt: 0.2500, sse=721767.8, rms=2.968 (13.366%)
- 017: dt: 0.2500, sse=718658.6, rms=2.684 (9.588%)
- 018: dt: 0.2500, sse=691644.1, rms=2.628 (2.075%)
- rms = 2.60, time step reduction 2 of 3 to 0.125...
- 019: dt: 0.2500, sse=689858.8, rms=2.605 (0.879%)
- 020: dt: 0.1250, sse=686712.9, rms=2.548 (2.164%)
- rms = 2.54, time step reduction 3 of 3 to 0.062...
- 021: dt: 0.1250, sse=676708.6, rms=2.540 (0.327%)
- positioning took 0.6 minutes
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 86 points - only 0.00% unknown
- deleting segment 1 with 9 points - only 0.00% unknown
- deleting segment 2 with 11 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 3 with 1 points - only 0.00% unknown
- deleting segment 4 with 31 points - only 0.00% unknown
- deleting segment 5 with 9 points - only 0.00% unknown
- deleting segment 6 with 7 points - only 0.00% unknown
- deleting segment 7 with 7 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 8 with 2 points - only 0.00% unknown
- deleting segment 9 with 32 points - only 0.00% unknown
- deleting segment 10 with 26 points - only 0.00% unknown
- removing 3 vertex label from ripped group
- deleting segment 11 with 3 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- deleting segment 12 with 1 points - only 0.00% unknown
- mean border=79.3, 1144 (255) missing vertices, mean dist -0.1 [0.4 (%52.0)->0.3 (%48.0))]
- %77 local maxima, %16 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-6.0.0/0050815/surf/rh.white...
- writing smoothed curvature to rh.curv
- 000: dt: 0.0000, sse=701096.6, rms=2.794
- rms = 2.79, time step reduction 1 of 3 to 0.250...
- 022: dt: 0.5000, sse=728989.4, rms=2.791 (0.112%)
- 023: dt: 0.2500, sse=659659.9, rms=2.382 (14.666%)
- 024: dt: 0.2500, sse=653685.0, rms=2.228 (6.461%)
- rms = 2.28, time step reduction 2 of 3 to 0.125...
- 025: dt: 0.1250, sse=634453.4, rms=2.150 (3.498%)
- 026: dt: 0.1250, sse=623466.3, rms=2.053 (4.497%)
- rms = 2.05, time step reduction 3 of 3 to 0.062...
- 027: dt: 0.1250, sse=627555.4, rms=2.046 (0.328%)
- positioning took 0.6 minutes
- generating cortex label...
- 26 non-cortical segments detected
- only using segment with 7421 vertices
- erasing segment 0 (vno[0] = 14778)
- erasing segment 1 (vno[0] = 15489)
- erasing segment 2 (vno[0] = 25466)
- erasing segment 4 (vno[0] = 33969)
- erasing segment 5 (vno[0] = 34808)
- erasing segment 6 (vno[0] = 36319)
- erasing segment 7 (vno[0] = 39942)
- erasing segment 8 (vno[0] = 42877)
- erasing segment 9 (vno[0] = 45197)
- erasing segment 10 (vno[0] = 49781)
- erasing segment 11 (vno[0] = 58442)
- erasing segment 12 (vno[0] = 59698)
- erasing segment 13 (vno[0] = 60299)
- erasing segment 14 (vno[0] = 60320)
- erasing segment 15 (vno[0] = 62217)
- erasing segment 16 (vno[0] = 63729)
- erasing segment 17 (vno[0] = 66165)
- erasing segment 18 (vno[0] = 66935)
- erasing segment 19 (vno[0] = 67678)
- erasing segment 20 (vno[0] = 69002)
- erasing segment 21 (vno[0] = 70433)
- erasing segment 22 (vno[0] = 71354)
- erasing segment 23 (vno[0] = 72187)
- erasing segment 24 (vno[0] = 76224)
- erasing segment 25 (vno[0] = 79661)
- writing cortex label to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/label/rh.cortex.label...
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.curv
- writing smoothed area to rh.area
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.area
- vertex spacing 0.93 +- 0.35 (0.03-->6.33) (max @ vno 8042 --> 93095)
- face area 0.36 +- 0.25 (0.00-->8.38)
- repositioning cortical surface to gray/csf boundary.
- smoothing T1 volume with sigma = 2.000
- averaging target values for 5 iterations...
- inhibiting deformation at non-cortical midline structures...
- deleting segment 0 with 56 points - only 0.00% unknown
- deleting segment 1 with 21 points - only 0.00% unknown
- deleting segment 3 with 9 points - only 0.00% unknown
- deleting segment 4 with 15 points - only 0.00% unknown
- removing 2 vertex label from ripped group
- deleting segment 6 with 2 points - only 0.00% unknown
- removing 1 vertex label from ripped group
- removing 2 vertex label from ripped group
- deleting segment 8 with 2 points - only 0.00% unknown
- deleting segment 9 with 6 points - only 0.00% unknown
- deleting segment 10 with 17 points - only 0.00% unknown
- smoothing surface for 5 iterations...
- reading initial pial vertex positions from white.preaparc...
- mean border=47.7, 544 (544) missing vertices, mean dist 2.2 [2.0 (%0.2)->3.2 (%99.8))]
- %15 local maxima, %50 large gradients and %28 min vals, 543 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=20642994.0, rms=32.395
- 001: dt: 0.0500, sse=18425610.0, rms=30.555 (5.680%)
- 002: dt: 0.0500, sse=16805856.0, rms=29.138 (4.640%)
- 003: dt: 0.0500, sse=15542279.0, rms=27.982 (3.967%)
- 004: dt: 0.0500, sse=14507678.0, rms=26.998 (3.515%)
- 005: dt: 0.0500, sse=13628149.0, rms=26.133 (3.205%)
- 006: dt: 0.0500, sse=12860993.0, rms=25.354 (2.980%)
- 007: dt: 0.0500, sse=12178038.0, rms=24.640 (2.817%)
- 008: dt: 0.0500, sse=11562438.0, rms=23.978 (2.687%)
- 009: dt: 0.0500, sse=11000434.0, rms=23.357 (2.589%)
- 010: dt: 0.0500, sse=10484508.0, rms=22.772 (2.504%)
- positioning took 0.8 minutes
- mean border=47.5, 472 (288) missing vertices, mean dist 1.9 [1.3 (%0.2)->2.7 (%99.8))]
- %16 local maxima, %50 large gradients and %27 min vals, 549 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=11224067.0, rms=23.588
- 011: dt: 0.0500, sse=10739652.0, rms=23.047 (2.297%)
- 012: dt: 0.0500, sse=10289740.0, rms=22.532 (2.234%)
- 013: dt: 0.0500, sse=9872329.0, rms=22.043 (2.168%)
- 014: dt: 0.0500, sse=9483367.0, rms=21.578 (2.111%)
- 015: dt: 0.0500, sse=9122432.0, rms=21.137 (2.044%)
- 016: dt: 0.0500, sse=8786406.0, rms=20.718 (1.983%)
- 017: dt: 0.0500, sse=8472888.0, rms=20.319 (1.925%)
- 018: dt: 0.0500, sse=8180250.0, rms=19.939 (1.868%)
- 019: dt: 0.0500, sse=7908023.5, rms=19.580 (1.804%)
- 020: dt: 0.0500, sse=7654060.5, rms=19.238 (1.746%)
- positioning took 0.8 minutes
- mean border=47.3, 509 (222) missing vertices, mean dist 1.7 [0.2 (%2.3)->2.4 (%97.7))]
- %16 local maxima, %50 large gradients and %27 min vals, 558 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=7751205.5, rms=19.369
- 021: dt: 0.0500, sse=7505159.5, rms=19.035 (1.727%)
- 022: dt: 0.0500, sse=7276913.5, rms=18.719 (1.659%)
- 023: dt: 0.0500, sse=7062102.5, rms=18.417 (1.614%)
- 024: dt: 0.0500, sse=6863334.0, rms=18.133 (1.543%)
- 025: dt: 0.0500, sse=6678552.5, rms=17.864 (1.480%)
- 026: dt: 0.0500, sse=6506994.0, rms=17.611 (1.415%)
- 027: dt: 0.0500, sse=6346352.5, rms=17.371 (1.364%)
- 028: dt: 0.0500, sse=6193666.0, rms=17.140 (1.332%)
- 029: dt: 0.0500, sse=6049486.0, rms=16.918 (1.293%)
- 030: dt: 0.0500, sse=5912709.0, rms=16.705 (1.259%)
- positioning took 0.8 minutes
- mean border=47.2, 595 (188) missing vertices, mean dist 1.5 [0.1 (%13.3)->2.4 (%86.7))]
- %17 local maxima, %50 large gradients and %26 min vals, 494 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=5993684.0, rms=16.826
- 031: dt: 0.5000, sse=5029649.5, rms=15.260 (9.307%)
- 032: dt: 0.5000, sse=4407902.5, rms=14.150 (7.275%)
- 033: dt: 0.5000, sse=3951461.5, rms=13.278 (6.158%)
- 034: dt: 0.5000, sse=3624428.8, rms=12.609 (5.037%)
- 035: dt: 0.5000, sse=3354428.5, rms=12.032 (4.581%)
- 036: dt: 0.5000, sse=3145197.8, rms=11.561 (3.915%)
- 037: dt: 0.5000, sse=2968761.8, rms=11.150 (3.555%)
- 038: dt: 0.5000, sse=2828743.5, rms=10.811 (3.041%)
- 039: dt: 0.5000, sse=2704078.5, rms=10.501 (2.863%)
- 040: dt: 0.5000, sse=2603221.5, rms=10.241 (2.479%)
- 041: dt: 0.5000, sse=2511717.5, rms=10.002 (2.329%)
- 042: dt: 0.5000, sse=2438141.0, rms=9.803 (1.988%)
- 043: dt: 0.5000, sse=2376557.2, rms=9.636 (1.705%)
- 044: dt: 0.5000, sse=2328666.8, rms=9.502 (1.394%)
- 045: dt: 0.5000, sse=2288117.0, rms=9.388 (1.202%)
- 046: dt: 0.5000, sse=2259743.5, rms=9.305 (0.881%)
- 047: dt: 0.5000, sse=2230046.0, rms=9.220 (0.918%)
- 048: dt: 0.5000, sse=2208348.2, rms=9.155 (0.702%)
- 049: dt: 0.5000, sse=2188623.5, rms=9.097 (0.630%)
- 050: dt: 0.5000, sse=2168157.0, rms=9.035 (0.682%)
- 051: dt: 0.5000, sse=2147494.2, rms=8.975 (0.670%)
- 052: dt: 0.5000, sse=2131124.2, rms=8.924 (0.563%)
- 053: dt: 0.5000, sse=2110328.0, rms=8.862 (0.694%)
- rms = 8.82, time step reduction 1 of 3 to 0.250...
- 054: dt: 0.5000, sse=2097743.5, rms=8.822 (0.452%)
- 055: dt: 0.2500, sse=2051032.6, rms=8.661 (1.824%)
- rms = 8.62, time step reduction 2 of 3 to 0.125...
- 056: dt: 0.2500, sse=2037178.6, rms=8.618 (0.499%)
- rms = 8.59, time step reduction 3 of 3 to 0.062...
- 057: dt: 0.1250, sse=2028593.9, rms=8.588 (0.353%)
- positioning took 2.8 minutes
- mean border=45.9, 2170 (78) missing vertices, mean dist 0.5 [0.3 (%42.8)->1.4 (%57.2))]
- %29 local maxima, %39 large gradients and %24 min vals, 347 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=2181040.2, rms=8.385
- 058: dt: 0.5000, sse=2049738.9, rms=7.974 (4.912%)
- 059: dt: 0.5000, sse=1977017.8, rms=7.758 (2.707%)
- 060: dt: 0.5000, sse=1935452.5, rms=7.626 (1.703%)
- 061: dt: 0.5000, sse=1893975.6, rms=7.493 (1.734%)
- 062: dt: 0.5000, sse=1864669.2, rms=7.396 (1.306%)
- 063: dt: 0.5000, sse=1832039.6, rms=7.283 (1.523%)
- 064: dt: 0.5000, sse=1814537.6, rms=7.219 (0.879%)
- 065: dt: 0.5000, sse=1790519.5, rms=7.135 (1.159%)
- rms = 7.10, time step reduction 1 of 3 to 0.250...
- 066: dt: 0.5000, sse=1782580.8, rms=7.105 (0.425%)
- 067: dt: 0.2500, sse=1729368.8, rms=6.869 (3.323%)
- 068: dt: 0.2500, sse=1713154.1, rms=6.806 (0.918%)
- rms = 6.80, time step reduction 2 of 3 to 0.125...
- 069: dt: 0.2500, sse=1712528.0, rms=6.802 (0.052%)
- rms = 6.76, time step reduction 3 of 3 to 0.062...
- 070: dt: 0.1250, sse=1702783.2, rms=6.759 (0.628%)
- positioning took 1.5 minutes
- mean border=44.9, 2991 (60) missing vertices, mean dist 0.3 [0.2 (%45.0)->1.0 (%55.0))]
- %39 local maxima, %28 large gradients and %24 min vals, 408 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=1840074.8, rms=7.097
- 071: dt: 0.5000, sse=1816687.1, rms=7.035 (0.875%)
- 072: dt: 0.5000, sse=1785595.2, rms=6.961 (1.058%)
- 073: dt: 0.5000, sse=1769733.0, rms=6.903 (0.830%)
- 074: dt: 0.5000, sse=1751266.4, rms=6.850 (0.776%)
- 075: dt: 0.5000, sse=1738347.5, rms=6.798 (0.758%)
- rms = 6.76, time step reduction 1 of 3 to 0.250...
- 076: dt: 0.5000, sse=1726588.1, rms=6.763 (0.505%)
- 077: dt: 0.2500, sse=1672544.1, rms=6.509 (3.758%)
- 078: dt: 0.2500, sse=1658735.2, rms=6.456 (0.822%)
- rms = 6.44, time step reduction 2 of 3 to 0.125...
- 079: dt: 0.2500, sse=1654944.0, rms=6.440 (0.242%)
- 080: dt: 0.1250, sse=1643638.0, rms=6.388 (0.813%)
- rms = 6.38, time step reduction 3 of 3 to 0.062...
- 081: dt: 0.1250, sse=1641039.6, rms=6.377 (0.159%)
- positioning took 1.4 minutes
- mean border=44.1, 4864 (49) missing vertices, mean dist 0.2 [0.2 (%44.8)->0.7 (%55.2))]
- %45 local maxima, %21 large gradients and %23 min vals, 391 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-6.0.0/0050815/surf/rh.pial...
- writing smoothed curvature to rh.curv.pial
- 000: dt: 0.0000, sse=1691537.1, rms=6.478
- rms = 6.47, time step reduction 1 of 3 to 0.250...
- 082: dt: 0.5000, sse=1682496.8, rms=6.474 (0.061%)
- 083: dt: 0.2500, sse=1632616.2, rms=6.264 (3.247%)
- 084: dt: 0.2500, sse=1611763.8, rms=6.183 (1.279%)
- rms = 6.15, time step reduction 2 of 3 to 0.125...
- 085: dt: 0.2500, sse=1603810.5, rms=6.154 (0.482%)
- 086: dt: 0.1250, sse=1587272.9, rms=6.078 (1.229%)
- rms = 6.06, time step reduction 3 of 3 to 0.062...
- 087: dt: 0.1250, sse=1581539.4, rms=6.056 (0.363%)
- positioning took 0.8 minutes
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.curv.pial
- writing smoothed area to rh.area.pial
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.area.pial
- vertex spacing 1.13 +- 0.59 (0.04-->8.26) (max @ vno 8203 --> 93887)
- face area 0.51 +- 0.52 (0.00-->22.32)
- measuring cortical thickness...
- writing cortical thickness estimate to 'thickness' file.
- 0 of 102455 vertices processed
- 25000 of 102455 vertices processed
- 50000 of 102455 vertices processed
- 75000 of 102455 vertices processed
- 100000 of 102455 vertices processed
- 0 of 102455 vertices processed
- 25000 of 102455 vertices processed
- 50000 of 102455 vertices processed
- 75000 of 102455 vertices processed
- 100000 of 102455 vertices processed
- thickness calculation complete, 1383:4788 truncations.
- 11978 vertices at 0 distance
- 44513 vertices at 1 distance
- 59315 vertices at 2 distance
- 42410 vertices at 3 distance
- 19958 vertices at 4 distance
- 7912 vertices at 5 distance
- 3134 vertices at 6 distance
- 1391 vertices at 7 distance
- 708 vertices at 8 distance
- 391 vertices at 9 distance
- 244 vertices at 10 distance
- 180 vertices at 11 distance
- 111 vertices at 12 distance
- 76 vertices at 13 distance
- 66 vertices at 14 distance
- 65 vertices at 15 distance
- 43 vertices at 16 distance
- 28 vertices at 17 distance
- 22 vertices at 18 distance
- 26 vertices at 19 distance
- 35 vertices at 20 distance
- writing curvature file /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.thickness
- positioning took 14.8 minutes
- PIDs (29637 29640) completed and logs appended.
- #--------------------------------------------
- #@# Surf Volume lh Sun Oct 8 11:03:18 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0050815 lh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/label/lh.cortex.label
- Total face volume 214254
- Total vertex volume 209700 (mask=0)
- #@# 0050815 lh 209700
-
- vertexvol Done
- #--------------------------------------------
- #@# Surf Volume rh Sun Oct 8 11:03:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0050815 rh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.volume
- masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/label/rh.cortex.label
- Total face volume 227482
- Total vertex volume 223909 (mask=0)
- #@# 0050815 rh 223909
-
- vertexvol Done
- #--------------------------------------------
- #@# Cortical ribbon mask Sun Oct 8 11:03:24 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0050815
- 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 = 2
- writing volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/ribbon.mgz
- mris_volmask took 8.42 minutes
- writing ribbon files
- #-----------------------------------------
- #@# Parcellation Stats lh Sun Oct 8 11:11:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0050815 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 0050815 lh pial
- #-----------------------------------------
- #@# Parcellation Stats rh Sun Oct 8 11:11:49 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0050815 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 0050815 rh pial
- Waiting for PID 30635 of (30635 30638 30641 30644) to complete...
- Waiting for PID 30638 of (30635 30638 30641 30644) to complete...
- Waiting for PID 30641 of (30635 30638 30641 30644) to complete...
- Waiting for PID 30644 of (30635 30638 30641 30644) 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 0050815 lh white
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 214254
- Total vertex volume 209700 (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) = 1600775 mm^3 (det: 1.216976 )
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 1090 752 1703 2.276 0.642 0.118 0.036 10 1.6 bankssts
- 654 434 1507 2.929 0.798 0.092 0.018 3 0.4 caudalanteriorcingulate
- 2348 1716 4018 2.088 0.585 0.160 0.063 47 6.3 caudalmiddlefrontal
- 2050 1446 4492 2.405 0.755 0.153 0.050 30 4.5 cuneus
- 553 409 1254 2.241 0.732 0.188 0.082 12 2.1 entorhinal
- 3436 2655 7892 2.473 0.745 0.170 0.063 69 9.8 fusiform
- 6060 4221 12070 2.331 0.725 0.144 0.048 84 12.4 inferiorparietal
- 3884 2739 8544 2.388 0.750 0.156 0.061 73 10.6 inferiortemporal
- 1326 869 2737 2.462 0.835 0.135 0.041 17 2.3 isthmuscingulate
- 7760 5249 13112 2.241 0.692 0.146 0.046 115 14.1 lateraloccipital
- 1950 1333 4638 3.027 0.902 0.124 0.044 22 3.5 lateralorbitofrontal
- 3597 2700 8015 2.316 0.750 0.163 0.055 79 9.2 lingual
- 2106 1565 6409 3.069 0.993 0.146 0.051 39 4.4 medialorbitofrontal
- 3705 2780 11179 2.752 0.890 0.161 0.058 72 8.9 middletemporal
- 893 702 1786 2.289 0.633 0.169 0.057 12 2.4 parahippocampal
- 1313 971 3058 2.487 0.853 0.158 0.063 21 3.5 paracentral
- 1725 1147 3735 2.582 0.724 0.145 0.062 29 4.6 parsopercularis
- 555 338 1037 2.409 0.635 0.162 0.088 14 2.1 parsorbitalis
- 1676 1277 4904 2.910 0.747 0.167 0.065 30 5.2 parstriangularis
- 1621 1209 2628 2.129 0.732 0.167 0.060 22 4.3 pericalcarine
- 3718 2814 7314 2.193 0.641 0.170 0.068 77 11.0 postcentral
- 1512 993 3018 2.541 1.018 0.150 0.063 34 4.0 posteriorcingulate
- 5719 4091 10777 2.247 0.704 0.158 0.062 88 16.2 precentral
- 4382 3089 9286 2.408 0.779 0.151 0.059 71 12.4 precuneus
- 831 527 2076 3.053 0.910 0.115 0.040 9 1.3 rostralanteriorcingulate
- 6028 4286 13253 2.473 0.845 0.148 0.056 99 14.2 rostralmiddlefrontal
- 8341 6016 20473 2.727 0.943 0.151 0.060 157 21.9 superiorfrontal
- 5614 4015 10611 2.232 0.637 0.139 0.046 78 11.3 superiorparietal
- 3807 3057 9573 2.598 0.780 0.144 0.045 54 7.6 superiortemporal
- 4399 3049 8955 2.326 0.677 0.148 0.055 72 10.4 supramarginal
- 487 307 1121 2.609 1.171 0.169 0.070 15 1.7 frontalpole
- 428 384 1040 2.143 0.852 0.232 0.118 13 2.1 temporalpole
- 521 376 1072 2.555 0.774 0.162 0.064 8 1.4 transversetemporal
- 2398 1670 6397 3.213 1.026 0.112 0.036 35 3.9 insula
- mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label -f ../stats/lh.aparc.pial.stats -b -a ../label/lh.aparc.annot -c ../label/aparc.annot.ctab 0050815 lh pial
- computing statistics for each annotation in ../label/lh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 214254
- Total vertex volume 209700 (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) = 1600775 mm^3 (det: 1.216976 )
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 1090 712 1703 2.276 0.642 0.144 0.066 20 3.5 bankssts
- 654 637 1507 2.929 0.798 0.182 0.054 13 1.6 caudalanteriorcingulate
- 2348 2340 4018 2.088 0.585 0.190 0.055 29 6.4 caudalmiddlefrontal
- 2050 2269 4492 2.405 0.755 0.217 0.056 33 5.7 cuneus
- 553 727 1254 2.241 0.732 0.245 0.077 12 2.3 entorhinal
- 3436 3550 7892 2.473 0.745 0.212 0.093 83 17.6 fusiform
- 6060 5991 12070 2.331 0.725 0.191 0.065 119 20.6 inferiorparietal
- 3884 4379 8544 2.388 0.750 0.221 0.061 75 11.0 inferiortemporal
- 1326 1297 2737 2.462 0.835 0.195 0.055 27 3.2 isthmuscingulate
- 7760 6540 13112 2.241 0.692 0.159 0.046 123 16.5 lateraloccipital
- 1950 1629 4638 3.027 0.902 0.182 0.061 36 5.4 lateralorbitofrontal
- 3597 3938 8015 2.316 0.750 0.210 0.125 90 29.0 lingual
- 2106 2408 6409 3.069 0.993 0.229 0.065 43 6.4 medialorbitofrontal
- 3705 5173 11179 2.752 0.890 0.237 0.057 58 10.1 middletemporal
- 893 962 1786 2.289 0.633 0.197 0.048 12 2.2 parahippocampal
- 1313 1395 3058 2.487 0.853 0.202 0.062 24 3.8 paracentral
- 1725 1832 3735 2.582 0.724 0.200 0.053 25 4.3 parsopercularis
- 555 503 1037 2.409 0.635 0.200 0.074 12 2.1 parsorbitalis
- 1676 2013 4904 2.910 0.747 0.222 0.060 24 4.7 parstriangularis
- 1621 1234 2628 2.129 0.732 0.153 0.044 24 3.2 pericalcarine
- 3718 3838 7314 2.193 0.641 0.202 0.064 98 11.4 postcentral
- 1512 1227 3018 2.541 1.018 0.180 0.081 55 6.2 posteriorcingulate
- 5719 5537 10777 2.247 0.704 0.181 0.097 233 33.1 precentral
- 4382 4384 9286 2.408 0.779 0.201 0.062 76 13.8 precuneus
- 831 814 2076 3.053 0.910 0.216 0.069 32 2.4 rostralanteriorcingulate
- 6028 5978 13253 2.473 0.845 0.196 0.059 104 17.2 rostralmiddlefrontal
- 8341 8728 20473 2.727 0.943 0.199 0.057 143 22.1 superiorfrontal
- 5614 5733 10611 2.232 0.637 0.201 0.056 98 15.2 superiorparietal
- 3807 4080 9573 2.598 0.780 0.185 0.052 64 9.0 superiortemporal
- 4399 4710 8955 2.326 0.677 0.209 0.067 76 14.5 supramarginal
- 487 519 1121 2.609 1.171 0.188 0.044 7 1.1 frontalpole
- 428 604 1040 2.143 0.852 0.244 0.061 8 1.1 temporalpole
- 521 512 1072 2.555 0.774 0.180 0.051 8 1.3 transversetemporal
- 2398 2001 6397 3.213 1.026 0.187 0.057 57 6.1 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 0050815 rh white
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 227482
- Total vertex volume 223909 (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) = 1600775 mm^3 (det: 1.216976 )
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 887 670 1650 2.106 0.741 0.136 0.053 10 2.1 bankssts
- 704 460 1413 3.351 0.750 0.127 0.043 8 0.9 caudalanteriorcingulate
- 3028 2009 5129 2.196 0.705 0.168 0.081 84 10.6 caudalmiddlefrontal
- 1420 1246 3791 2.404 1.039 0.183 0.065 30 4.4 cuneus
- 417 290 1042 2.676 0.749 0.177 0.074 11 1.2 entorhinal
- 2548 2039 6511 2.758 0.745 0.178 0.060 49 7.2 fusiform
- 6153 4450 13981 2.492 0.747 0.152 0.051 105 14.4 inferiorparietal
- 3124 2273 8627 2.671 0.861 0.166 0.061 66 7.7 inferiortemporal
- 1272 839 2644 2.410 0.990 0.145 0.055 21 2.8 isthmuscingulate
- 5457 4285 13380 2.464 0.744 0.170 0.053 95 14.3 lateraloccipital
- 2684 1885 6477 2.729 1.078 0.144 0.055 51 6.1 lateralorbitofrontal
- 1405 1119 3515 2.676 0.904 0.172 0.060 23 4.5 lingual
- 2360 1673 7054 3.424 1.011 0.141 0.046 37 4.9 medialorbitofrontal
- 3753 2896 11624 2.898 0.903 0.157 0.059 64 10.1 middletemporal
- 825 567 1951 2.893 0.816 0.178 0.077 16 2.9 parahippocampal
- 1718 1204 3737 2.706 0.800 0.153 0.061 26 4.5 paracentral
- 1346 977 3435 2.735 0.846 0.135 0.056 17 3.0 parsopercularis
- 1067 848 3156 2.613 0.768 0.178 0.082 26 3.8 parsorbitalis
- 1864 1364 4703 2.761 0.756 0.150 0.058 37 4.6 parstriangularis
- 983 722 2071 2.402 0.789 0.140 0.042 13 1.7 pericalcarine
- 4068 2867 7294 2.172 0.736 0.150 0.061 66 11.8 postcentral
- 1590 1068 3144 2.679 1.012 0.162 0.060 30 4.3 posteriorcingulate
- 6884 4794 13684 2.457 0.778 0.156 0.064 117 19.4 precentral
- 3328 2444 8304 2.647 0.891 0.158 0.057 56 8.5 precuneus
- 611 395 1646 3.552 0.764 0.138 0.054 8 1.4 rostralanteriorcingulate
- 7734 5515 18580 2.625 0.783 0.158 0.061 151 20.8 rostralmiddlefrontal
- 9668 6729 25133 2.820 1.007 0.154 0.064 194 27.6 superiorfrontal
- 6275 4630 12939 2.299 0.716 0.157 0.054 97 15.2 superiorparietal
- 3420 2640 8314 2.720 0.858 0.162 0.051 63 7.7 superiortemporal
- 4247 2975 9915 2.552 0.769 0.147 0.051 65 9.2 supramarginal
- 462 312 1412 2.656 1.023 0.171 0.067 12 1.5 frontalpole
- 401 311 1865 3.544 0.798 0.190 0.093 9 1.4 temporalpole
- 281 194 553 3.469 0.985 0.131 0.045 3 0.5 transversetemporal
- 2391 1666 5108 2.833 1.065 0.125 0.055 39 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 0050815 rh pial
- computing statistics for each annotation in ../label/rh.aparc.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.pial...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 227482
- Total vertex volume 223909 (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) = 1600775 mm^3 (det: 1.216976 )
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 887 874 1650 2.106 0.741 0.184 0.051 17 1.9 bankssts
- 704 493 1413 3.351 0.750 0.146 0.046 13 1.2 caudalanteriorcingulate
- 3028 2651 5129 2.196 0.705 0.198 0.068 83 9.6 caudalmiddlefrontal
- 1420 2029 3791 2.404 1.039 0.249 0.071 39 5.3 cuneus
- 417 496 1042 2.676 0.749 0.218 0.056 6 1.1 entorhinal
- 2548 2621 6511 2.758 0.745 0.217 0.073 65 7.8 fusiform
- 6153 6650 13981 2.492 0.747 0.193 0.052 101 14.7 inferiorparietal
- 3124 3844 8627 2.671 0.861 0.218 0.060 51 8.7 inferiortemporal
- 1272 1284 2644 2.410 0.990 0.197 0.061 63 3.3 isthmuscingulate
- 5457 6410 13380 2.464 0.744 0.213 0.053 95 13.4 lateraloccipital
- 2684 2643 6477 2.729 1.078 0.231 0.105 113 14.7 lateralorbitofrontal
- 1405 1459 3515 2.676 0.904 0.230 0.062 33 4.4 lingual
- 2360 2450 7054 3.424 1.011 0.236 0.126 92 18.0 medialorbitofrontal
- 3753 4909 11624 2.898 0.903 0.241 0.059 60 11.4 middletemporal
- 825 836 1951 2.893 0.816 0.212 0.072 17 2.6 parahippocampal
- 1718 1566 3737 2.706 0.800 0.193 0.063 32 5.3 paracentral
- 1346 1576 3435 2.735 0.846 0.227 0.060 24 3.8 parsopercularis
- 1067 1478 3156 2.613 0.768 0.242 0.062 41 3.6 parsorbitalis
- 1864 2040 4703 2.761 0.756 0.199 0.056 29 4.8 parstriangularis
- 983 997 2071 2.402 0.789 0.193 0.060 21 2.9 pericalcarine
- 4068 3906 7294 2.172 0.736 0.189 0.059 74 11.8 postcentral
- 1590 1284 3144 2.679 1.012 0.173 0.052 38 3.7 posteriorcingulate
- 6884 6315 13684 2.457 0.778 0.179 0.059 126 18.7 precentral
- 3328 3634 8304 2.647 0.891 0.223 0.076 66 10.5 precuneus
- 611 565 1646 3.552 0.764 0.182 0.055 9 1.5 rostralanteriorcingulate
- 7734 8256 18580 2.625 0.783 0.208 0.061 150 22.6 rostralmiddlefrontal
- 9668 10285 25133 2.820 1.007 0.203 0.060 211 28.1 superiorfrontal
- 6275 6640 12939 2.299 0.716 0.204 0.060 107 18.1 superiorparietal
- 3420 3421 8314 2.720 0.858 0.188 0.064 95 10.2 superiortemporal
- 4247 4532 9915 2.552 0.769 0.197 0.053 56 10.8 supramarginal
- 462 678 1412 2.656 1.023 0.257 0.065 8 1.4 frontalpole
- 401 704 1865 3.544 0.798 0.298 0.085 10 1.6 temporalpole
- 281 160 553 3.469 0.985 0.145 0.057 7 0.7 transversetemporal
- 2391 1828 5108 2.833 1.065 0.190 0.070 85 7.6 insula
- PIDs (30635 30638 30641 30644) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 2 lh Sun Oct 8 11:12:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050815 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 11:12:51 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050815 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 30721 of (30721 30724) to complete...
- Waiting for PID 30724 of (30721 30724) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050815 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...
- 75 labels changed using aseg
- relabeling using gibbs priors...
- 000: 6993 changed, 105178 examined...
- 001: 1578 changed, 27457 examined...
- 002: 446 changed, 8360 examined...
- 003: 193 changed, 2520 examined...
- 004: 82 changed, 1091 examined...
- 005: 40 changed, 488 examined...
- 006: 20 changed, 252 examined...
- 007: 12 changed, 114 examined...
- 008: 3 changed, 67 examined...
- 009: 0 changed, 18 examined...
- 29 labels changed using aseg
- 000: 270 total segments, 186 labels (1645 vertices) changed
- 001: 92 total segments, 8 labels (69 vertices) changed
- 002: 84 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 17 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 542 vertices marked for relabeling...
- 542 labels changed in reclassification.
- writing output to ../label/lh.aparc.a2009s.annot...
- classification took 0 minutes and 16 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050815 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...
- 163 labels changed using aseg
- relabeling using gibbs priors...
- 000: 6941 changed, 102455 examined...
- 001: 1611 changed, 27384 examined...
- 002: 468 changed, 8430 examined...
- 003: 188 changed, 2652 examined...
- 004: 90 changed, 1083 examined...
- 005: 45 changed, 535 examined...
- 006: 24 changed, 245 examined...
- 007: 6 changed, 134 examined...
- 008: 7 changed, 39 examined...
- 009: 4 changed, 36 examined...
- 010: 3 changed, 19 examined...
- 011: 3 changed, 23 examined...
- 012: 1 changed, 20 examined...
- 013: 2 changed, 7 examined...
- 014: 0 changed, 10 examined...
- 98 labels changed using aseg
- 000: 264 total segments, 183 labels (1904 vertices) changed
- 001: 94 total segments, 13 labels (23 vertices) changed
- 002: 81 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 32 changed)
- rationalizing unknown annotations with cortex label
- relabeling Medial_wall label...
- 843 vertices marked for relabeling...
- 843 labels changed in reclassification.
- writing output to ../label/rh.aparc.a2009s.annot...
- classification took 0 minutes and 16 seconds.
- PIDs (30721 30724) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 2 lh Sun Oct 8 11:13:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0050815 lh white
- #-----------------------------------------
- #@# Parcellation Stats 2 rh Sun Oct 8 11:13:08 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0050815 rh white
- Waiting for PID 30781 of (30781 30784) to complete...
- Waiting for PID 30784 of (30781 30784) 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 0050815 lh white
- computing statistics for each annotation in ../label/lh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 214254
- Total vertex volume 209700 (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) = 1600775 mm^3 (det: 1.216976 )
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 1030 658 2374 2.765 1.293 0.141 0.056 15 2.4 G&S_frontomargin
- 1375 935 3520 2.819 0.754 0.136 0.044 18 2.3 G&S_occipital_inf
- 1099 813 2779 2.361 0.803 0.175 0.067 19 3.0 G&S_paracentral
- 1532 1133 3373 2.458 0.722 0.177 0.072 30 4.8 G&S_subcentral
- 717 435 1321 2.223 0.979 0.152 0.067 17 2.0 G&S_transv_frontopol
- 1869 1285 4216 2.741 0.951 0.115 0.045 22 3.2 G&S_cingul-Ant
- 928 658 2088 2.724 0.953 0.104 0.029 6 1.0 G&S_cingul-Mid-Ant
- 1060 738 2468 3.011 0.765 0.142 0.053 15 2.1 G&S_cingul-Mid-Post
- 507 342 1276 2.692 0.791 0.155 0.050 10 1.2 G_cingul-Post-dorsal
- 355 261 1348 3.160 0.960 0.179 0.063 7 1.0 G_cingul-Post-ventral
- 1916 1390 4476 2.372 0.847 0.167 0.061 31 5.5 G_cuneus
- 1056 708 2528 2.471 0.729 0.176 0.083 25 4.1 G_front_inf-Opercular
- 381 302 1446 2.729 0.947 0.180 0.071 7 1.3 G_front_inf-Orbital
- 1094 817 3430 2.995 0.733 0.183 0.078 26 4.1 G_front_inf-Triangul
- 3301 2540 8278 2.399 0.702 0.178 0.073 82 10.0 G_front_middle
- 5892 4280 16596 2.859 0.955 0.168 0.069 129 18.5 G_front_sup
- 493 364 1517 3.220 0.929 0.141 0.063 8 1.6 G_Ins_lg&S_cent_ins
- 494 348 1786 3.695 0.853 0.168 0.051 19 1.2 G_insular_short
- 2218 1508 5240 2.467 0.680 0.163 0.055 46 4.7 G_occipital_middle
- 1343 964 2417 2.068 0.600 0.183 0.067 27 3.7 G_occipital_sup
- 1605 1236 4324 2.481 0.775 0.185 0.073 42 5.4 G_oc-temp_lat-fusifor
- 2512 1875 6052 2.308 0.768 0.174 0.062 61 6.8 G_oc-temp_med-Lingual
- 1031 742 2298 2.299 0.645 0.158 0.060 17 2.6 G_oc-temp_med-Parahip
- 1399 926 3424 2.876 0.895 0.146 0.061 28 3.4 G_orbital
- 2672 1839 6396 2.284 0.738 0.171 0.073 54 8.2 G_pariet_inf-Angular
- 2101 1491 4990 2.448 0.713 0.159 0.058 42 5.5 G_pariet_inf-Supramar
- 1942 1415 4704 2.359 0.668 0.161 0.063 42 5.1 G_parietal_sup
- 1273 1042 3320 2.239 0.646 0.188 0.075 36 4.2 G_postcentral
- 2560 1781 5320 2.272 0.757 0.173 0.074 51 9.0 G_precentral
- 2228 1601 5730 2.466 0.829 0.174 0.077 51 8.6 G_precuneus
- 962 770 3029 2.884 0.914 0.183 0.064 24 2.9 G_rectus
- 59 41 157 2.746 0.588 0.057 0.007 0 0.0 G_subcallosal
- 394 308 1032 2.479 0.828 0.189 0.076 8 1.4 G_temp_sup-G_T_transv
- 1260 1070 4265 2.710 0.884 0.189 0.069 31 3.9 G_temp_sup-Lateral
- 300 260 739 2.541 0.750 0.148 0.054 4 0.7 G_temp_sup-Plan_polar
- 773 558 1672 2.544 0.646 0.105 0.026 6 0.9 G_temp_sup-Plan_tempo
- 1919 1376 4867 2.437 0.744 0.162 0.062 43 5.4 G_temporal_inf
- 2363 1801 8402 2.833 0.890 0.183 0.071 59 7.3 G_temporal_middle
- 139 102 215 2.794 0.582 0.126 0.063 1 0.3 Lat_Fis-ant-Horizont
- 156 117 229 2.036 0.502 0.104 0.027 1 0.2 Lat_Fis-ant-Vertical
- 954 635 1211 2.274 0.552 0.126 0.046 10 1.8 Lat_Fis-post
- 2355 1653 3244 1.906 0.557 0.158 0.051 39 4.9 Pole_occipital
- 1271 999 3000 2.379 0.808 0.208 0.099 34 5.2 Pole_temporal
- 1869 1426 2825 2.073 0.636 0.153 0.052 30 4.2 S_calcarine
- 1831 1305 2380 2.027 0.580 0.137 0.052 22 4.2 S_central
- 662 456 1131 2.461 0.587 0.125 0.042 7 1.3 S_cingul-Marginalis
- 337 219 1175 3.514 1.203 0.073 0.021 1 0.3 S_circular_insula_ant
- 951 843 2709 3.401 0.967 0.109 0.027 8 0.9 S_circular_insula_inf
- 1245 850 1847 2.642 0.659 0.100 0.031 7 1.3 S_circular_insula_sup
- 687 549 1478 2.472 0.946 0.175 0.068 13 2.4 S_collat_transv_ant
- 607 401 656 1.815 0.430 0.120 0.033 4 0.8 S_collat_transv_post
- 1583 1146 3096 2.307 0.699 0.137 0.047 18 3.2 S_front_inf
- 1059 755 1726 2.312 0.616 0.121 0.035 11 1.5 S_front_middle
- 2122 1492 3253 2.304 0.732 0.123 0.044 28 3.9 S_front_sup
- 20 11 33 2.009 0.274 0.133 0.051 0 0.0 S_interm_prim-Jensen
- 2414 1637 3256 2.274 0.541 0.103 0.024 13 2.5 S_intrapariet&P_trans
- 1413 974 1788 2.086 0.460 0.123 0.026 11 1.6 S_oc_middle&Lunatus
- 1044 688 1409 2.309 0.536 0.099 0.022 5 1.0 S_oc_sup&transversal
- 614 419 978 2.548 0.730 0.124 0.040 6 1.0 S_occipital_ant
- 764 526 1087 2.147 0.741 0.130 0.048 8 1.6 S_oc-temp_lat
- 1727 1339 3302 2.508 0.666 0.162 0.051 23 4.7 S_oc-temp_med&Lingual
- 189 121 339 2.838 0.501 0.145 0.042 2 0.3 S_orbital_lateral
- 323 218 819 2.772 0.633 0.183 0.075 9 0.7 S_orbital_med-olfact
- 673 459 1385 3.086 0.867 0.122 0.047 6 1.5 S_orbital-H_Shaped
- 1542 1123 3126 2.611 0.699 0.121 0.031 12 2.0 S_parieto_occipital
- 1225 704 1153 2.002 0.882 0.121 0.046 22 2.3 S_pericallosal
- 1723 1173 2403 1.948 0.550 0.126 0.042 19 2.8 S_postcentral
- 930 618 1251 2.185 0.621 0.119 0.040 7 1.6 S_precentral-inf-part
- 815 571 1060 2.216 0.594 0.136 0.045 8 1.7 S_precentral-sup-part
- 548 398 1807 3.514 1.025 0.120 0.038 5 0.8 S_suborbital
- 874 587 1149 2.043 0.552 0.134 0.048 10 1.9 S_subparietal
- 1226 823 1983 2.325 0.751 0.123 0.034 11 1.9 S_temporal_inf
- 4372 3086 7651 2.403 0.717 0.119 0.031 34 5.8 S_temporal_sup
- 214 155 346 2.586 0.648 0.106 0.026 1 0.2 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 0050815 rh white
- computing statistics for each annotation in ../label/rh.aparc.a2009s.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 227482
- Total vertex volume 223909 (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) = 1600775 mm^3 (det: 1.216976 )
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 711 517 2078 2.713 0.927 0.147 0.052 12 1.7 G&S_frontomargin
- 722 553 2054 2.929 0.670 0.163 0.044 12 1.5 G&S_occipital_inf
- 1233 860 2759 2.466 0.760 0.169 0.073 22 3.8 G&S_paracentral
- 1521 1042 4030 2.676 0.773 0.154 0.067 29 4.7 G&S_subcentral
- 1132 829 3491 2.861 0.854 0.176 0.068 23 3.7 G&S_transv_frontopol
- 2592 1787 7463 3.366 0.979 0.121 0.042 27 4.4 G&S_cingul-Ant
- 1136 805 2279 2.669 0.879 0.131 0.044 13 1.8 G&S_cingul-Mid-Ant
- 1232 843 2699 2.722 0.912 0.135 0.047 14 2.4 G&S_cingul-Mid-Post
- 496 343 1165 2.517 0.948 0.183 0.069 12 1.6 G_cingul-Post-dorsal
- 373 273 1259 2.906 1.067 0.196 0.074 8 1.3 G_cingul-Post-ventral
- 1353 1210 3748 2.411 1.029 0.185 0.059 26 3.9 G_cuneus
- 1124 848 3434 2.693 0.808 0.163 0.066 20 3.1 G_front_inf-Opercular
- 271 184 567 2.310 0.804 0.146 0.055 7 0.5 G_front_inf-Orbital
- 914 701 2957 2.972 0.779 0.179 0.073 24 3.1 G_front_inf-Triangul
- 4493 3207 11934 2.490 0.799 0.188 0.084 135 17.2 G_front_middle
- 6535 4500 18996 2.993 1.026 0.170 0.073 160 21.3 G_front_sup
- 403 307 924 2.797 0.966 0.141 0.080 8 0.7 G_Ins_lg&S_cent_ins
- 673 451 1400 2.400 1.254 0.161 0.071 14 2.1 G_insular_short
- 1843 1397 5281 2.520 0.831 0.184 0.064 43 5.7 G_occipital_middle
- 1836 1444 3672 1.981 0.683 0.189 0.072 39 7.1 G_occipital_sup
- 959 779 3117 2.995 0.629 0.185 0.059 25 2.6 G_oc-temp_lat-fusifor
- 794 645 2339 2.881 0.926 0.187 0.069 17 3.1 G_oc-temp_med-Lingual
- 1041 712 2748 2.822 0.770 0.178 0.079 23 3.5 G_oc-temp_med-Parahip
- 2224 1667 6152 2.696 0.962 0.173 0.074 64 7.3 G_orbital
- 2621 1924 7802 2.610 0.838 0.185 0.069 74 8.7 G_pariet_inf-Angular
- 2162 1544 5721 2.587 0.840 0.163 0.059 43 5.5 G_pariet_inf-Supramar
- 1815 1340 4785 2.424 0.739 0.177 0.072 38 5.8 G_parietal_sup
- 1407 1061 2549 1.956 0.714 0.172 0.073 29 5.2 G_postcentral
- 2675 1790 5979 2.456 0.813 0.168 0.076 58 8.9 G_precentral
- 2010 1548 5456 2.528 0.846 0.189 0.074 46 6.7 G_precuneus
- 717 522 1991 2.789 0.811 0.186 0.060 19 2.1 G_rectus
- 365 206 814 3.223 1.386 0.104 0.049 6 0.6 G_subcallosal
- 180 149 504 3.364 1.159 0.161 0.043 3 0.3 G_temp_sup-G_T_transv
- 971 829 3174 2.694 0.770 0.181 0.057 20 2.4 G_temp_sup-Lateral
- 502 331 1024 2.903 0.859 0.204 0.085 14 2.0 G_temp_sup-Plan_polar
- 669 528 1868 2.710 0.707 0.125 0.033 6 0.8 G_temp_sup-Plan_tempo
- 1691 1278 5522 2.684 0.892 0.187 0.076 48 5.3 G_temporal_inf
- 2468 1885 8264 2.928 0.829 0.173 0.065 51 7.0 G_temporal_middle
- 256 196 400 2.202 0.538 0.102 0.025 1 0.3 Lat_Fis-ant-Horizont
- 105 90 216 1.992 0.619 0.104 0.024 0 0.1 Lat_Fis-ant-Vertical
- 1076 726 1649 2.644 0.788 0.115 0.038 8 1.6 Lat_Fis-post
- 2339 1880 6036 2.395 0.732 0.174 0.050 43 5.3 Pole_occipital
- 1127 892 4252 3.309 1.037 0.190 0.091 25 4.7 Pole_temporal
- 838 641 1653 2.455 0.845 0.149 0.052 10 1.7 S_calcarine
- 2041 1396 2589 2.234 0.693 0.144 0.060 27 5.1 S_central
- 731 519 1186 2.642 0.736 0.116 0.033 5 1.0 S_cingul-Marginalis
- 353 255 1101 3.183 1.304 0.113 0.034 4 0.3 S_circular_insula_ant
- 901 585 1822 3.321 0.953 0.113 0.033 8 1.4 S_circular_insula_inf
- 912 633 1745 2.889 0.834 0.095 0.038 13 0.8 S_circular_insula_sup
- 813 592 1361 2.377 0.689 0.163 0.059 13 2.1 S_collat_transv_ant
- 77 51 200 2.797 0.504 0.122 0.025 1 0.1 S_collat_transv_post
- 1701 1199 3103 2.446 0.836 0.145 0.054 23 4.0 S_front_inf
- 1672 1098 2548 2.548 0.642 0.129 0.044 20 3.0 S_front_middle
- 2317 1571 3666 2.343 0.688 0.131 0.055 31 5.6 S_front_sup
- 250 170 449 2.682 0.504 0.132 0.039 2 0.4 S_interm_prim-Jensen
- 2583 1830 4291 2.473 0.590 0.123 0.032 19 3.6 S_intrapariet&P_trans
- 652 455 944 2.177 0.583 0.119 0.026 5 0.8 S_oc_middle&Lunatus
- 926 645 1436 2.231 0.556 0.115 0.029 10 1.1 S_oc_sup&transversal
- 630 431 1026 2.263 0.646 0.132 0.051 7 1.4 S_occipital_ant
- 751 571 1228 2.450 0.485 0.123 0.030 4 1.0 S_oc-temp_lat
- 986 783 2583 2.998 0.822 0.165 0.056 12 2.8 S_oc-temp_med&Lingual
- 331 225 659 2.752 0.539 0.110 0.034 2 0.4 S_orbital_lateral
- 545 387 1279 2.811 1.110 0.135 0.052 6 1.2 S_orbital_med-olfact
- 946 682 2194 2.764 0.804 0.142 0.060 16 2.4 S_orbital-H_Shaped
- 1052 764 2699 2.927 0.871 0.135 0.052 12 2.4 S_parieto_occipital
- 1308 784 1391 2.423 1.074 0.132 0.052 22 2.6 S_pericallosal
- 1597 1151 2338 2.077 0.548 0.130 0.039 15 2.7 S_postcentral
- 1347 986 2376 2.441 0.768 0.151 0.060 28 3.8 S_precentral-inf-part
- 1299 881 1821 2.398 0.772 0.130 0.061 16 3.1 S_precentral-sup-part
- 221 161 575 3.911 1.060 0.097 0.019 1 0.2 S_suborbital
- 660 467 1590 2.724 0.874 0.121 0.035 8 0.9 S_subparietal
- 776 602 2007 2.775 0.886 0.143 0.031 8 1.0 S_temporal_inf
- 4371 3179 7212 2.326 0.734 0.126 0.039 40 7.4 S_temporal_sup
- 102 99 284 3.527 0.508 0.155 0.023 1 0.1 S_temporal_transverse
- PIDs (30781 30784) completed and logs appended.
- #-----------------------------------------
- #@# Cortical Parc 3 lh Sun Oct 8 11:13:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050815 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 11:13:40 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050815 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 30832 of (30832 30835) to complete...
- Waiting for PID 30835 of (30832 30835) to complete...
- mris_ca_label -l ../label/lh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050815 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...
- 1177 labels changed using aseg
- relabeling using gibbs priors...
- 000: 1644 changed, 105178 examined...
- 001: 372 changed, 7858 examined...
- 002: 87 changed, 2170 examined...
- 003: 44 changed, 555 examined...
- 004: 30 changed, 242 examined...
- 005: 15 changed, 163 examined...
- 006: 11 changed, 96 examined...
- 007: 18 changed, 74 examined...
- 008: 13 changed, 81 examined...
- 009: 9 changed, 58 examined...
- 010: 8 changed, 60 examined...
- 011: 8 changed, 55 examined...
- 012: 8 changed, 50 examined...
- 013: 5 changed, 38 examined...
- 014: 7 changed, 25 examined...
- 015: 5 changed, 34 examined...
- 016: 5 changed, 24 examined...
- 017: 2 changed, 29 examined...
- 018: 0 changed, 15 examined...
- 282 labels changed using aseg
- 000: 74 total segments, 40 labels (307 vertices) changed
- 001: 36 total segments, 2 labels (11 vertices) changed
- 002: 34 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 11 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 505 vertices marked for relabeling...
- 505 labels changed in reclassification.
- writing output to ../label/lh.aparc.DKTatlas.annot...
- classification took 0 minutes and 13 seconds.
- mris_ca_label -l ../label/rh.cortex.label -aseg ../mri/aseg.presurf.mgz -seed 1234 0050815 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...
- 1398 labels changed using aseg
- relabeling using gibbs priors...
- 000: 1726 changed, 102455 examined...
- 001: 449 changed, 8075 examined...
- 002: 133 changed, 2465 examined...
- 003: 46 changed, 749 examined...
- 004: 24 changed, 276 examined...
- 005: 15 changed, 130 examined...
- 006: 9 changed, 88 examined...
- 007: 4 changed, 61 examined...
- 008: 2 changed, 21 examined...
- 009: 2 changed, 15 examined...
- 010: 3 changed, 16 examined...
- 011: 2 changed, 19 examined...
- 012: 2 changed, 10 examined...
- 013: 2 changed, 10 examined...
- 014: 1 changed, 14 examined...
- 015: 2 changed, 6 examined...
- 016: 3 changed, 8 examined...
- 017: 3 changed, 16 examined...
- 018: 2 changed, 19 examined...
- 019: 4 changed, 13 examined...
- 020: 5 changed, 17 examined...
- 021: 4 changed, 26 examined...
- 022: 4 changed, 20 examined...
- 023: 5 changed, 26 examined...
- 024: 4 changed, 24 examined...
- 025: 4 changed, 24 examined...
- 026: 3 changed, 22 examined...
- 027: 4 changed, 17 examined...
- 028: 1 changed, 18 examined...
- 029: 2 changed, 7 examined...
- 030: 1 changed, 12 examined...
- 031: 3 changed, 7 examined...
- 032: 0 changed, 12 examined...
- 280 labels changed using aseg
- 000: 74 total segments, 41 labels (616 vertices) changed
- 001: 33 total segments, 0 labels (0 vertices) changed
- 10 filter iterations complete (10 requested, 10 changed)
- rationalizing unknown annotations with cortex label
- relabeling unknown label...
- relabeling corpuscallosum label...
- 476 vertices marked for relabeling...
- 476 labels changed in reclassification.
- writing output to ../label/rh.aparc.DKTatlas.annot...
- classification took 0 minutes and 12 seconds.
- PIDs (30832 30835) completed and logs appended.
- #-----------------------------------------
- #@# Parcellation Stats 3 lh Sun Oct 8 11:13:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0050815 lh white
- #-----------------------------------------
- #@# Parcellation Stats 3 rh Sun Oct 8 11:13:53 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0050815 rh white
- Waiting for PID 30895 of (30895 30898) to complete...
- Waiting for PID 30898 of (30895 30898) 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 0050815 lh white
- computing statistics for each annotation in ../label/lh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 214254
- Total vertex volume 209700 (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) = 1600775 mm^3 (det: 1.216976 )
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 1162 789 2743 2.923 0.937 0.107 0.031 8 1.6 caudalanteriorcingulate
- 2473 1798 4231 2.075 0.605 0.159 0.064 59 6.7 caudalmiddlefrontal
- 2581 1905 5741 2.401 0.766 0.153 0.047 35 5.4 cuneus
- 391 293 937 2.223 0.740 0.179 0.080 8 1.4 entorhinal
- 3312 2505 7616 2.479 0.766 0.169 0.063 67 9.8 fusiform
- 6141 4253 12148 2.313 0.705 0.143 0.048 85 12.4 inferiorparietal
- 3925 2838 8595 2.383 0.742 0.158 0.062 74 10.8 inferiortemporal
- 1320 863 2742 2.477 0.839 0.137 0.043 18 2.5 isthmuscingulate
- 7672 5187 13103 2.249 0.694 0.147 0.047 115 14.4 lateraloccipital
- 2163 1467 5866 3.184 0.963 0.133 0.050 33 4.3 lateralorbitofrontal
- 3718 2787 8155 2.293 0.747 0.162 0.054 80 9.4 lingual
- 1832 1378 5829 3.088 0.953 0.160 0.055 38 4.4 medialorbitofrontal
- 4851 3572 12990 2.652 0.852 0.154 0.055 85 10.9 middletemporal
- 908 711 1849 2.283 0.632 0.166 0.056 12 2.4 parahippocampal
- 1590 1219 3745 2.476 0.815 0.164 0.067 28 4.9 paracentral
- 1663 1091 3458 2.584 0.703 0.147 0.065 29 4.6 parsopercularis
- 570 409 1413 2.640 0.709 0.145 0.059 8 1.4 parsorbitalis
- 2044 1531 5995 2.886 0.778 0.164 0.064 36 6.3 parstriangularis
- 1638 1226 2624 2.096 0.710 0.169 0.061 23 4.5 pericalcarine
- 4228 3139 7928 2.175 0.645 0.165 0.065 83 11.7 postcentral
- 1621 1058 3124 2.530 1.001 0.144 0.060 34 3.9 posteriorcingulate
- 5614 4010 10431 2.239 0.700 0.157 0.061 85 15.8 precentral
- 4274 3011 9291 2.420 0.781 0.153 0.062 73 12.5 precuneus
- 1190 784 2561 2.758 0.958 0.125 0.051 15 2.6 rostralanteriorcingulate
- 4182 2997 8739 2.364 0.742 0.157 0.061 74 10.9 rostralmiddlefrontal
- 9186 6498 21946 2.702 0.942 0.146 0.057 161 21.9 superiorfrontal
- 4474 3162 8315 2.236 0.607 0.134 0.044 61 8.4 superiorparietal
- 4960 3897 11678 2.523 0.815 0.147 0.052 74 11.3 superiortemporal
- 4163 2901 8565 2.332 0.672 0.148 0.054 68 9.9 supramarginal
- 589 449 1421 2.634 0.788 0.171 0.063 10 1.7 transversetemporal
- 2056 1464 5922 3.338 1.012 0.110 0.032 30 2.8 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 0050815 rh white
- computing statistics for each annotation in ../label/rh.aparc.DKTatlas.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 227482
- Total vertex volume 223909 (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) = 1600775 mm^3 (det: 1.216976 )
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 771 498 1564 3.390 0.784 0.126 0.041 9 1.0 caudalanteriorcingulate
- 3166 2102 5332 2.211 0.711 0.170 0.081 89 11.3 caudalmiddlefrontal
- 1688 1392 4747 2.508 1.045 0.164 0.055 26 4.1 cuneus
- 394 280 991 2.650 0.742 0.168 0.072 9 1.1 entorhinal
- 2371 1881 6182 2.778 0.726 0.172 0.058 44 6.5 fusiform
- 6062 4367 13751 2.489 0.757 0.153 0.051 105 14.2 inferiorparietal
- 3298 2429 8690 2.645 0.830 0.167 0.062 67 8.3 inferiortemporal
- 1231 798 2602 2.468 0.975 0.142 0.054 19 2.6 isthmuscingulate
- 5688 4491 13785 2.410 0.746 0.177 0.055 103 16.0 lateraloccipital
- 2968 2080 7337 2.690 1.040 0.148 0.058 62 7.3 lateralorbitofrontal
- 1345 1075 3394 2.668 0.918 0.171 0.058 21 4.2 lingual
- 1662 1182 4981 3.335 1.044 0.148 0.049 28 3.6 medialorbitofrontal
- 4626 3557 13776 2.826 0.914 0.158 0.059 79 12.4 middletemporal
- 826 583 1986 2.914 0.821 0.181 0.075 16 2.9 parahippocampal
- 1785 1247 3914 2.721 0.797 0.149 0.058 25 4.4 paracentral
- 1601 1165 4070 2.731 0.851 0.142 0.060 23 4.1 parsopercularis
- 690 560 1701 2.534 0.746 0.150 0.050 8 1.7 parsorbitalis
- 1810 1342 4711 2.760 0.738 0.149 0.059 35 4.2 parstriangularis
- 1046 770 2159 2.328 0.816 0.146 0.048 18 2.1 pericalcarine
- 4485 3180 7996 2.169 0.728 0.152 0.062 73 13.0 postcentral
- 1725 1182 3510 2.659 1.030 0.164 0.061 34 4.7 posteriorcingulate
- 6456 4476 12903 2.465 0.782 0.155 0.064 108 18.1 precentral
- 3473 2555 8498 2.628 0.876 0.159 0.058 60 9.0 precuneus
- 798 519 2066 3.504 0.982 0.123 0.046 9 1.5 rostralanteriorcingulate
- 6070 4363 15057 2.594 0.784 0.165 0.067 131 18.0 rostralmiddlefrontal
- 12284 8557 31421 2.825 0.974 0.152 0.062 235 33.7 superiorfrontal
- 5113 3780 10505 2.323 0.699 0.154 0.054 77 12.1 superiorparietal
- 4430 3401 11166 2.698 0.910 0.159 0.054 77 10.2 superiortemporal
- 4033 2820 9381 2.566 0.760 0.146 0.051 61 8.8 supramarginal
- 277 193 550 3.458 0.994 0.138 0.044 3 0.5 transversetemporal
- 2284 1587 5180 2.890 1.096 0.125 0.056 40 4.0 insula
- PIDs (30895 30898) completed and logs appended.
- #-----------------------------------------
- #@# WM/GM Contrast lh Sun Oct 8 11:14:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- pctsurfcon --s 0050815 --lh-only
- #-----------------------------------------
- #@# WM/GM Contrast rh Sun Oct 8 11:14:25 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts
- pctsurfcon --s 0050815 --rh-only
- Waiting for PID 30955 of (30955 30967) to complete...
- Waiting for PID 30967 of (30955 30967) to complete...
- pctsurfcon --s 0050815 --lh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts/pctsurfcon.log
- Sun Oct 8 11:14:25 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-6.0.0/0050815/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-551 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-6.0.0/0050815/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/tmp.pctsurfcon.30955/lh.wm.mgh --regheader 0050815 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 -0.00001;
- 0.00000 0.00000 1.00000 -0.00002;
- 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-6.0.0/0050815/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 = 56547
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/tmp.pctsurfcon.30955/lh.wm.mgh
- Dim: 105178 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/rawavg.mgz --hemi lh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/tmp.pctsurfcon.30955/lh.gm.mgh --projfrac 0.3 --regheader 0050815 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 -0.00001;
- 0.00000 0.00000 1.00000 -0.00002;
- 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-6.0.0/0050815/label/lh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 = 68242
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/label/lh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/tmp.pctsurfcon.30955/lh.gm.mgh
- Dim: 105178 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/tmp.pctsurfcon.30955/lh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/tmp.pctsurfcon.30955/lh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/surf/lh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.w-g.pct.mgh --annot 0050815 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/surf/lh.w-g.pct.mgh --annot 0050815 lh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/stats/lh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-551
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/surf/lh.w-g.pct.mgh
- Vertex Area is 0.708728 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 0050815 --rh-only
- Log file is /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/scripts/pctsurfcon.log
- Sun Oct 8 11:14:25 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-6.0.0/0050815/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-551 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-6.0.0/0050815/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --projdist -1 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/tmp.pctsurfcon.30967/rh.wm.mgh --regheader 0050815 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 -0.00001;
- 0.00000 0.00000 1.00000 -0.00002;
- 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-6.0.0/0050815/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 = 55901
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/tmp.pctsurfcon.30967/rh.wm.mgh
- Dim: 102455 1 1
- mri_vol2surf --mov /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/rawavg.mgz --hemi rh --noreshape --interp trilinear --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/tmp.pctsurfcon.30967/rh.gm.mgh --projfrac 0.3 --regheader 0050815 --cortex
- srcvol = /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/mri/orig.mgz as target reference.
- -------- original matrix -----------
- 1.00000 0.00000 0.00000 -0.00001;
- 0.00000 0.00000 1.00000 -0.00002;
- 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-6.0.0/0050815/label/rh.cortex.label
- Reading surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.white
- Done reading source surface
- Reading thickness /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 = 65782
- Masking with /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/label/rh.cortex.label
- Writing to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/tmp.pctsurfcon.30967/rh.gm.mgh
- Dim: 102455 1 1
- mri_concat /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/tmp.pctsurfcon.30967/rh.wm.mgh /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/tmp.pctsurfcon.30967/rh.gm.mgh --paired-diff-norm --mul 100 --o /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/surf/rh.w-g.pct.mgh
- mri_segstats --in /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.w-g.pct.mgh --annot 0050815 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/surf/rh.w-g.pct.mgh --annot 0050815 rh aparc --sum /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/stats/rh.w-g.pct.stats --snr
- sysname Linux
- hostname tars-551
- machine x86_64
- user ntraut
- UseRobust 0
- Constructing seg from annotation
- Reading annotation /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/surf/rh.w-g.pct.mgh
- Vertex Area is 0.718579 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 (30955 30967) completed and logs appended.
- #-----------------------------------------
- #@# Relabel Hypointensities Sun Oct 8 11:14:33 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri
- mri_relabel_hypointensities aseg.presurf.mgz ../surf aseg.presurf.hypos.mgz
- reading input surface ../surf/lh.white...
- relabeling lh hypointensities...
- 890 voxels changed to hypointensity...
- reading input surface ../surf/rh.white...
- relabeling rh hypointensities...
- 1307 voxels changed to hypointensity...
- 2375 hypointense voxels neighboring cortex changed
- #-----------------------------------------
- #@# AParc-to-ASeg aparc Sun Oct 8 11:14:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815
- mri_aparc2aseg --s 0050815 --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 11:14:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815
- mri_aparc2aseg --s 0050815 --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 11:14:54 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815
- mri_aparc2aseg --s 0050815 --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 31129 of (31129 31132 31135) to complete...
- Waiting for PID 31132 of (31129 31132 31135) to complete...
- Waiting for PID 31135 of (31129 31132 31135) to complete...
- mri_aparc2aseg --s 0050815 --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 0050815
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/aparc+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/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-6.0.0/0050815/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 6.96
- 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 --> 3
- rescaling Left_Inf_Lat_Vent from 34 --> 32
- rescaling Left_Cerebellum_White_Matter from 86 --> 82
- rescaling Left_Cerebellum_Cortex from 60 --> 50
- rescaling Left_Thalamus from 94 --> 88
- rescaling Left_Thalamus_Proper from 84 --> 79
- rescaling Left_Caudate from 75 --> 58
- rescaling Left_Putamen from 80 --> 70
- rescaling Left_Pallidum from 98 --> 81
- rescaling Third_Ventricle from 25 --> 10
- rescaling Fourth_Ventricle from 22 --> 6
- rescaling Brain_Stem from 81 --> 85
- rescaling Left_Hippocampus from 57 --> 56
- rescaling Left_Amygdala from 56 --> 53
- rescaling CSF from 32 --> 13
- rescaling Left_Accumbens_area from 62 --> 52
- rescaling Left_VentralDC from 87 --> 85
- rescaling Right_Cerebral_White_Matter from 105 --> 103
- rescaling Right_Cerebral_Cortex from 58 --> 51
- rescaling Right_Lateral_Ventricle from 13 --> 8
- rescaling Right_Inf_Lat_Vent from 25 --> 23
- rescaling Right_Cerebellum_White_Matter from 87 --> 87
- rescaling Right_Cerebellum_Cortex from 59 --> 52
- rescaling Right_Thalamus_Proper from 85 --> 78
- rescaling Right_Caudate from 62 --> 57
- rescaling Right_Putamen from 80 --> 68
- rescaling Right_Pallidum from 97 --> 80
- rescaling Right_Hippocampus from 53 --> 55
- rescaling Right_Amygdala from 55 --> 52
- rescaling Right_Accumbens_area from 65 --> 56
- rescaling Right_VentralDC from 86 --> 85
- rescaling Fifth_Ventricle from 40 --> 13
- rescaling WM_hypointensities from 78 --> 77
- rescaling non_WM_hypointensities from 40 --> 55
- 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 = 422829
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 183 changed.
- pass 2: 19 changed.
- pass 3: 6 changed.
- pass 4: 5 changed.
- pass 5: 2 changed.
- pass 6: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/aparc+aseg.mgz
- mri_aparc2aseg --s 0050815 --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 0050815
- outvol /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/aparc.a2009s+aseg.mgz
- useribbon 0
- baseoffset 10100
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/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-6.0.0/0050815/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 6.96
- 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 --> 3
- rescaling Left_Inf_Lat_Vent from 34 --> 32
- rescaling Left_Cerebellum_White_Matter from 86 --> 82
- rescaling Left_Cerebellum_Cortex from 60 --> 50
- rescaling Left_Thalamus from 94 --> 88
- rescaling Left_Thalamus_Proper from 84 --> 79
- rescaling Left_Caudate from 75 --> 58
- rescaling Left_Putamen from 80 --> 70
- rescaling Left_Pallidum from 98 --> 81
- rescaling Third_Ventricle from 25 --> 10
- rescaling Fourth_Ventricle from 22 --> 6
- rescaling Brain_Stem from 81 --> 85
- rescaling Left_Hippocampus from 57 --> 56
- rescaling Left_Amygdala from 56 --> 53
- rescaling CSF from 32 --> 13
- rescaling Left_Accumbens_area from 62 --> 52
- rescaling Left_VentralDC from 87 --> 85
- rescaling Right_Cerebral_White_Matter from 105 --> 103
- rescaling Right_Cerebral_Cortex from 58 --> 51
- rescaling Right_Lateral_Ventricle from 13 --> 8
- rescaling Right_Inf_Lat_Vent from 25 --> 23
- rescaling Right_Cerebellum_White_Matter from 87 --> 87
- rescaling Right_Cerebellum_Cortex from 59 --> 52
- rescaling Right_Thalamus_Proper from 85 --> 78
- rescaling Right_Caudate from 62 --> 57
- rescaling Right_Putamen from 80 --> 68
- rescaling Right_Pallidum from 97 --> 80
- rescaling Right_Hippocampus from 53 --> 55
- rescaling Right_Amygdala from 55 --> 52
- rescaling Right_Accumbens_area from 65 --> 56
- rescaling Right_VentralDC from 86 --> 85
- rescaling Fifth_Ventricle from 40 --> 13
- rescaling WM_hypointensities from 78 --> 77
- rescaling non_WM_hypointensities from 40 --> 55
- 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 = 422908
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 183 changed.
- pass 2: 19 changed.
- pass 3: 6 changed.
- pass 4: 5 changed.
- pass 5: 2 changed.
- pass 6: 0 changed.
- nchanged = 0
- Writing output aseg to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/aparc.a2009s+aseg.mgz
- mri_aparc2aseg --s 0050815 --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 0050815
- outvol mri/aparc.DKTatlas+aseg.mgz
- useribbon 0
- baseoffset 0
- RipUnknown 0
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/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-6.0.0/0050815/mri/aseg.presurf.hypos.mgz
- ASeg Vox2RAS: -----------
- -1.00000 0.00000 0.00000 128.00000;
- 0.00000 0.00000 1.00000 -128.00000;
- 0.00000 -1.00000 0.00000 128.00000;
- 0.00000 0.00000 0.00000 1.00000;
- -------------------------
- Labeling Slice
- relabeling unlikely voxels in interior of white matter
- setting orig areas to linear transform determinant scaled 6.96
- 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 --> 3
- rescaling Left_Inf_Lat_Vent from 34 --> 32
- rescaling Left_Cerebellum_White_Matter from 86 --> 82
- rescaling Left_Cerebellum_Cortex from 60 --> 50
- rescaling Left_Thalamus from 94 --> 88
- rescaling Left_Thalamus_Proper from 84 --> 79
- rescaling Left_Caudate from 75 --> 58
- rescaling Left_Putamen from 80 --> 70
- rescaling Left_Pallidum from 98 --> 81
- rescaling Third_Ventricle from 25 --> 10
- rescaling Fourth_Ventricle from 22 --> 6
- rescaling Brain_Stem from 81 --> 85
- rescaling Left_Hippocampus from 57 --> 56
- rescaling Left_Amygdala from 56 --> 53
- rescaling CSF from 32 --> 13
- rescaling Left_Accumbens_area from 62 --> 52
- rescaling Left_VentralDC from 87 --> 85
- rescaling Right_Cerebral_White_Matter from 105 --> 103
- rescaling Right_Cerebral_Cortex from 58 --> 51
- rescaling Right_Lateral_Ventricle from 13 --> 8
- rescaling Right_Inf_Lat_Vent from 25 --> 23
- rescaling Right_Cerebellum_White_Matter from 87 --> 87
- rescaling Right_Cerebellum_Cortex from 59 --> 52
- rescaling Right_Thalamus_Proper from 85 --> 78
- rescaling Right_Caudate from 62 --> 57
- rescaling Right_Putamen from 80 --> 68
- rescaling Right_Pallidum from 97 --> 80
- rescaling Right_Hippocampus from 53 --> 55
- rescaling Right_Amygdala from 55 --> 52
- rescaling Right_Accumbens_area from 65 --> 56
- rescaling Right_VentralDC from 86 --> 85
- rescaling Fifth_Ventricle from 40 --> 13
- rescaling WM_hypointensities from 78 --> 77
- rescaling non_WM_hypointensities from 40 --> 55
- 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 = 422908
- Used brute-force search on 0 voxels
- relabeling unlikely voxels in interior of white matter
- average std[0] = 7.3
- pass 1: 183 changed.
- pass 2: 19 changed.
- pass 3: 6 changed.
- pass 4: 5 changed.
- pass 5: 2 changed.
- pass 6: 0 changed.
- nchanged = 0
- Writing output aseg to mri/aparc.DKTatlas+aseg.mgz
- PIDs (31129 31132 31135) completed and logs appended.
- #-----------------------------------------
- #@# APas-to-ASeg Sun Oct 8 11:21:28 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri
- apas2aseg --i aparc+aseg.mgz --o aseg.mgz
- Sun Oct 8 11:21:28 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-6.0.0/0050815/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-551 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-6.0.0/0050815/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-551
- 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 11:21:28 CEST 2017
- Ended at Sun Oct 8 11:21:35 CEST 2017
- Apas2aseg-Run-Time-Sec 7
-
- apas2aseg Done
- #--------------------------------------------
- #@# ASeg Stats Sun Oct 8 11:21:35 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815
- 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 0050815
- $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 0050815
- sysname Linux
- hostname tars-551
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1600775 mm^3 (det: 1.216976 )
- Computing euler number
- orig.nofix lheno = -556, rheno = -646
- orig.nofix lhholes = 279, rhholes = 324
- Loading mri/aseg.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 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 11:23:21 CEST 2017
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815
- mri_aparc2aseg --s 0050815 --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 0050815
- 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-6.0.0/0050815/mri/aparc+aseg.mgz
- Reading lh white surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.white
- Reading lh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.pial
- Loading lh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/surf/rh.white
- Reading rh pial surface
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.pial
- Loading rh annotations from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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-6.0.0/0050815/mri/ribbon.mgz
- Loading filled from /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/ribbon.mgz
- Ripping vertices labeled as unkown
- Ripped 8691 vertices from left hemi
- Ripped 8080 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-6.0.0/0050815/mri/aseg.mgz
- Loading Ctx Seg File /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 = 757111
- Used brute-force search on 133 voxels
- Fixing Parahip LH WM
- Found 20 clusters
- 0 k 179.000000
- 1 k 4.000000
- 2 k 4.000000
- 3 k 9.000000
- 4 k 1.000000
- 5 k 34.000000
- 6 k 1.000000
- 7 k 1.000000
- 8 k 1.000000
- 9 k 1.000000
- 10 k 1.000000
- 11 k 1.000000
- 12 k 2.000000
- 13 k 666.000000
- 14 k 1.000000
- 15 k 1.000000
- 16 k 2.000000
- 17 k 1.000000
- 18 k 1.000000
- 19 k 1.000000
- Fixing Parahip RH WM
- Found 8 clusters
- 0 k 1.000000
- 1 k 695.000000
- 2 k 33.000000
- 3 k 3.000000
- 4 k 1.000000
- 5 k 1.000000
- 6 k 1.000000
- 7 k 2.000000
- 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 0050815 --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 0050815 --surf-wm-vol --ctab /pasteur/homes/ntraut/bin/freesurfer-6.0.0/WMParcStatsLUT.txt --etiv
- sysname Linux
- hostname tars-551
- machine x86_64
- user ntraut
- UseRobust 0
- atlas_icv (eTIV) = 1600775 mm^3 (det: 1.216976 )
- Loading mri/wmparc.mgz
- Getting Brain Volume Statistics
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 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-6.0.0/0050815/label
- #--------------------------------------------
- #@# BA_exvivo Labels lh Sun Oct 8 11:30:34 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 0050815 --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 0050815 --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 0050815 --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 0050815 --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 0050815 --trglabel ./lh.BA4a_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 31791 of (31791 31797 31803 31809 31814) to complete...
- Waiting for PID 31797 of (31791 31797 31803 31809 31814) to complete...
- Waiting for PID 31803 of (31791 31797 31803 31809 31814) to complete...
- Waiting for PID 31809 of (31791 31797 31803 31809 31814) to complete...
- Waiting for PID 31814 of (31791 31797 31803 31809 31814) 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 175
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.label 4304
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 311
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.label 8220
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 222
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.label 4299
- mri_label2label: Done
- mri_label2label --srcsubject fsaverage --srclabel /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/fsaverage/label/lh.BA3b_exvivo.label --trgsubject 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 353
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.label 6336
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 413
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.label 6197
- mri_label2label: Done
- PIDs (31791 31797 31803 31809 31814) 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 0050815 --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 0050815 --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 0050815 --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 0050815 --trglabel ./lh.BA45_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 31878 of (31878 31884 31890 31896) to complete...
- Waiting for PID 31884 of (31878 31884 31890 31896) to complete...
- Waiting for PID 31890 of (31878 31884 31890 31896) to complete...
- Waiting for PID 31896 of (31878 31884 31890 31896) 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 144
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.label 4214
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 1104
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.label 14693
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 401
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.label 4582
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 693
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.label 4115
- mri_label2label: Done
- PIDs (31878 31884 31890 31896) 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 0050815 --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 0050815 --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 0050815 --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 0050815 --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 0050815 --trglabel ./lh.perirhinal_exvivo.label --hemi lh --regmethod surface
- Waiting for PID 31940 of (31940 31946 31952 31958 31964) to complete...
- Waiting for PID 31946 of (31940 31946 31952 31958 31964) to complete...
- Waiting for PID 31952 of (31940 31946 31952 31958 31964) to complete...
- Waiting for PID 31958 of (31940 31946 31952 31958 31964) to complete...
- Waiting for PID 31964 of (31940 31946 31952 31958 31964) 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 1305
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.label 5946
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 2711
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.label 10825
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 317
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.label 2335
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 185
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.label 1475
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 106
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.label 1305
- mri_label2label: Done
- PIDs (31940 31946 31952 31958 31964) 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 0050815 --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 0050815 --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 0050815 --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 0050815 --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 0050815 --trglabel ./lh.BA4a_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 32008 of (32008 32014 32020 32025 32030) to complete...
- Waiting for PID 32014 of (32008 32014 32020 32025 32030) to complete...
- Waiting for PID 32020 of (32008 32014 32020 32025 32030) to complete...
- Waiting for PID 32025 of (32008 32014 32020 32025 32030) to complete...
- Waiting for PID 32030 of (32008 32014 32020 32025 32030) 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 42
- Checking for and removing duplicates
- Writing label file ./lh.BA1_exvivo.thresh.label 1056
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 112
- Checking for and removing duplicates
- Writing label file ./lh.BA2_exvivo.thresh.label 2204
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 63
- Checking for and removing duplicates
- Writing label file ./lh.BA3a_exvivo.thresh.label 1567
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 87
- Checking for and removing duplicates
- Writing label file ./lh.BA3b_exvivo.thresh.label 2083
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 159
- Checking for and removing duplicates
- Writing label file ./lh.BA4a_exvivo.thresh.label 2478
- mri_label2label: Done
- PIDs (32008 32014 32020 32025 32030) 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 0050815 --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 0050815 --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 0050815 --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 0050815 --trglabel ./lh.BA45_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 32081 of (32081 32087 32093 32098) to complete...
- Waiting for PID 32087 of (32081 32087 32093 32098) to complete...
- Waiting for PID 32093 of (32081 32087 32093 32098) to complete...
- Waiting for PID 32098 of (32081 32087 32093 32098) 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 68
- Checking for and removing duplicates
- Writing label file ./lh.BA4p_exvivo.thresh.label 1617
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 491
- Checking for and removing duplicates
- Writing label file ./lh.BA6_exvivo.thresh.label 7526
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 172
- Checking for and removing duplicates
- Writing label file ./lh.BA44_exvivo.thresh.label 2084
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 240
- Checking for and removing duplicates
- Writing label file ./lh.BA45_exvivo.thresh.label 1391
- mri_label2label: Done
- PIDs (32081 32087 32093 32098) 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 0050815 --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 0050815 --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 0050815 --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 0050815 --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 0050815 --trglabel ./lh.perirhinal_exvivo.thresh.label --hemi lh --regmethod surface
- Waiting for PID 32151 of (32151 32157 32163 32169 32174) to complete...
- Waiting for PID 32157 of (32151 32157 32163 32169 32174) to complete...
- Waiting for PID 32163 of (32151 32157 32163 32169 32174) to complete...
- Waiting for PID 32169 of (32151 32157 32163 32169 32174) to complete...
- Waiting for PID 32174 of (32151 32157 32163 32169 32174) 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 864
- Checking for and removing duplicates
- Writing label file ./lh.V1_exvivo.thresh.label 4269
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 1220
- Checking for and removing duplicates
- Writing label file ./lh.V2_exvivo.thresh.label 4554
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 81
- Checking for and removing duplicates
- Writing label file ./lh.MT_exvivo.thresh.label 594
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 90
- Checking for and removing duplicates
- Writing label file ./lh.entorhinal_exvivo.thresh.label 560
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/lh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.sphere.reg
- Rescaling ... original radius = 99.9999
- 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 105178
- Number of reverse mapping hits = 29
- Checking for and removing duplicates
- Writing label file ./lh.perirhinal_exvivo.thresh.label 479
- mri_label2label: Done
- PIDs (32151 32157 32163 32169 32174) completed and logs appended.
- mris_label2annot --s 0050815 --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-6.0.0/0050815/label
- cmdline mris_label2annot --s 0050815 --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-551
- machine x86_64
- user ntraut
- subject 0050815
- 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-6.0.0/0050815/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 73146 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/label/lh.BA_exvivo.annot
- mris_label2annot --s 0050815 --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-6.0.0/0050815/label
- cmdline mris_label2annot --s 0050815 --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-551
- machine x86_64
- user ntraut
- subject 0050815
- 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-6.0.0/0050815/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 86730 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0050815 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 214254
- Total vertex volume 209700 (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) = 1600775 mm^3 (det: 1.216976 )
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 548 472 1579 2.356 0.711 0.224 0.084 15 2.2 BA1_exvivo
- 2423 1732 4045 2.047 0.575 0.136 0.045 29 4.8 BA2_exvivo
- 703 479 824 1.915 0.466 0.146 0.070 14 1.9 BA3a_exvivo
- 1370 1044 2717 2.138 0.574 0.160 0.058 30 2.8 BA3b_exvivo
- 1222 874 3054 2.521 0.863 0.171 0.068 20 3.6 BA4a_exvivo
- 853 648 1326 2.058 0.591 0.147 0.051 8 2.1 BA4p_exvivo
- 7011 5054 15611 2.449 0.843 0.164 0.065 133 21.1 BA6_exvivo
- 1656 1134 3169 2.368 0.667 0.153 0.062 28 4.4 BA44_exvivo
- 2467 1830 7055 2.789 0.753 0.168 0.069 48 8.0 BA45_exvivo
- 3006 2306 5746 2.203 0.782 0.174 0.063 57 8.1 V1_exvivo
- 7856 5483 14269 2.147 0.681 0.157 0.052 131 17.2 V2_exvivo
- 1780 1213 3881 2.714 0.675 0.139 0.045 23 3.1 MT_exvivo
- 638 438 1072 2.281 0.733 0.193 0.095 19 3.1 perirhinal_exvivo
- 499 420 975 2.229 0.676 0.194 0.074 9 1.7 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 0050815 lh white
- computing statistics for each annotation in ./lh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/lh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 214254
- Total vertex volume 209700 (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) = 1600775 mm^3 (det: 1.216976 )
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 337 287 1080 2.461 0.712 0.218 0.083 10 1.3 BA1_exvivo
- 970 761 1891 2.118 0.531 0.148 0.045 13 2.1 BA2_exvivo
- 541 360 580 1.889 0.471 0.142 0.060 9 1.1 BA3a_exvivo
- 812 608 1514 2.063 0.544 0.152 0.069 21 2.1 BA3b_exvivo
- 1130 796 2723 2.376 0.854 0.157 0.063 15 3.0 BA4a_exvivo
- 771 600 1279 2.112 0.668 0.157 0.053 8 2.0 BA4p_exvivo
- 3627 2760 8296 2.420 0.884 0.176 0.073 69 12.5 BA6_exvivo
- 1058 711 2044 2.365 0.698 0.155 0.068 21 3.0 BA44_exvivo
- 1018 758 3171 2.844 0.737 0.165 0.064 20 2.8 BA45_exvivo
- 3193 2417 6232 2.209 0.779 0.172 0.062 60 8.5 V1_exvivo
- 3901 2817 7073 2.047 0.665 0.166 0.054 69 9.3 V2_exvivo
- 483 316 1112 2.936 0.594 0.140 0.039 8 0.7 MT_exvivo
- 327 220 615 2.328 0.762 0.192 0.093 8 1.6 perirhinal_exvivo
- 280 238 602 2.408 0.674 0.204 0.077 5 1.0 entorhinal_exvivo
- #--------------------------------------------
- #@# BA_exvivo Labels rh Sun Oct 8 11:33:07 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 0050815 --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 0050815 --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 0050815 --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 0050815 --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 0050815 --trglabel ./rh.BA4a_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 32303 of (32303 32309 32315 32320 32327) to complete...
- Waiting for PID 32309 of (32303 32309 32315 32320 32327) to complete...
- Waiting for PID 32315 of (32303 32309 32315 32320 32327) to complete...
- Waiting for PID 32320 of (32303 32309 32315 32320 32327) to complete...
- Waiting for PID 32327 of (32303 32309 32315 32320 32327) 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 294
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.label 4256
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 275
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.label 6962
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 187
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.label 4167
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 286
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.label 4808
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 632
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.label 6379
- mri_label2label: Done
- PIDs (32303 32309 32315 32320 32327) 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 0050815 --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 0050815 --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 0050815 --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 0050815 --trglabel ./rh.BA45_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 32368 of (32368 32374 32380 32386) to complete...
- Waiting for PID 32374 of (32368 32374 32380 32386) to complete...
- Waiting for PID 32380 of (32368 32374 32380 32386) to complete...
- Waiting for PID 32386 of (32368 32374 32380 32386) 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 297
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.label 4770
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 1477
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.label 13733
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 910
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.label 7822
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 920
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.label 6275
- mri_label2label: Done
- PIDs (32368 32374 32380 32386) 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 0050815 --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 0050815 --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 0050815 --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 0050815 --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 0050815 --trglabel ./rh.perirhinal_exvivo.label --hemi rh --regmethod surface
- Waiting for PID 32434 of (32434 32440 32446 32452 32456) to complete...
- Waiting for PID 32440 of (32434 32440 32446 32452 32456) to complete...
- Waiting for PID 32446 of (32434 32440 32446 32452 32456) to complete...
- Waiting for PID 32452 of (32434 32440 32446 32452 32456) to complete...
- Waiting for PID 32456 of (32434 32440 32446 32452 32456) 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 422
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.label 5149
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 1230
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.label 9246
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 237
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.label 1275
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 158
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.label 910
- mri_label2label: Done
- PIDs (32434 32440 32446 32452 32456) 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 0050815 --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 0050815 --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 0050815 --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 0050815 --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 0050815 --trglabel ./rh.BA4a_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 32511 of (32511 32517 32523 32529 32534) to complete...
- Waiting for PID 32517 of (32511 32517 32523 32529 32534) to complete...
- Waiting for PID 32523 of (32511 32517 32523 32529 32534) to complete...
- Waiting for PID 32529 of (32511 32517 32523 32529 32534) to complete...
- Waiting for PID 32534 of (32511 32517 32523 32529 32534) 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 64
- Checking for and removing duplicates
- Writing label file ./rh.BA1_exvivo.thresh.label 940
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 74
- Checking for and removing duplicates
- Writing label file ./rh.BA2_exvivo.thresh.label 2762
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 101
- Checking for and removing duplicates
- Writing label file ./rh.BA3a_exvivo.thresh.label 1799
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 65
- Checking for and removing duplicates
- Writing label file ./rh.BA3b_exvivo.thresh.label 2248
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 82
- Checking for and removing duplicates
- Writing label file ./rh.BA4a_exvivo.thresh.label 1470
- mri_label2label: Done
- PIDs (32511 32517 32523 32529 32534) 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 0050815 --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 0050815 --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 0050815 --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 0050815 --trglabel ./rh.BA45_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 32576 of (32576 32582 32588 32594) to complete...
- Waiting for PID 32582 of (32576 32582 32588 32594) to complete...
- Waiting for PID 32588 of (32576 32582 32588 32594) to complete...
- Waiting for PID 32594 of (32576 32582 32588 32594) 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 57
- Checking for and removing duplicates
- Writing label file ./rh.BA4p_exvivo.thresh.label 1546
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 842
- Checking for and removing duplicates
- Writing label file ./rh.BA6_exvivo.thresh.label 7801
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 131
- Checking for and removing duplicates
- Writing label file ./rh.BA44_exvivo.thresh.label 1143
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 245
- Checking for and removing duplicates
- Writing label file ./rh.BA45_exvivo.thresh.label 1423
- mri_label2label: Done
- PIDs (32576 32582 32588 32594) 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 0050815 --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 0050815 --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 0050815 --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 0050815 --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 0050815 --trglabel ./rh.perirhinal_exvivo.thresh.label --hemi rh --regmethod surface
- Waiting for PID 32636 of (32636 32642 32648 32654 32660) to complete...
- Waiting for PID 32642 of (32636 32642 32648 32654 32660) to complete...
- Waiting for PID 32648 of (32636 32642 32648 32654 32660) to complete...
- Waiting for PID 32654 of (32636 32642 32648 32654 32660) to complete...
- Waiting for PID 32660 of (32636 32642 32648 32654 32660) 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 328
- Checking for and removing duplicates
- Writing label file ./rh.V1_exvivo.thresh.label 3560
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 338
- Checking for and removing duplicates
- Writing label file ./rh.V2_exvivo.thresh.label 3775
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 185
- Checking for and removing duplicates
- Writing label file ./rh.MT_exvivo.thresh.label 453
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 157
- Checking for and removing duplicates
- Writing label file ./rh.entorhinal_exvivo.thresh.label 851
- 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 0050815 --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 = 0050815
- 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-6.0.0/0050815/surf/rh.white
- Reading target registration
- /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 102455
- Number of reverse mapping hits = 59
- Checking for and removing duplicates
- Writing label file ./rh.perirhinal_exvivo.thresh.label 350
- mri_label2label: Done
- PIDs (32636 32642 32648 32654 32660) completed and logs appended.
- mris_label2annot --s 0050815 --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-6.0.0/0050815/label
- cmdline mris_label2annot --s 0050815 --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-551
- machine x86_64
- user ntraut
- subject 0050815
- 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-6.0.0/0050815/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 71916 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/label/rh.BA_exvivo.annot
- mris_label2annot --s 0050815 --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-6.0.0/0050815/label
- cmdline mris_label2annot --s 0050815 --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-551
- machine x86_64
- user ntraut
- subject 0050815
- 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-6.0.0/0050815/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 86429 unhit vertices
- Writing annot to /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/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 0050815 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 227482
- Total vertex volume 223909 (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) = 1600775 mm^3 (det: 1.216976 )
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 728 541 1508 2.114 0.765 0.185 0.073 16 2.7 BA1_exvivo
- 2031 1439 2969 1.997 0.518 0.135 0.042 23 3.6 BA2_exvivo
- 832 552 1161 2.245 0.802 0.149 0.070 12 2.3 BA3a_exvivo
- 1241 877 2209 2.127 0.721 0.157 0.073 22 4.4 BA3b_exvivo
- 1283 878 2755 2.659 0.849 0.153 0.062 17 3.2 BA4a_exvivo
- 935 653 1677 2.483 0.669 0.154 0.058 14 2.3 BA4p_exvivo
- 7675 5197 16208 2.548 0.832 0.154 0.068 134 22.6 BA6_exvivo
- 2950 2142 7103 2.578 0.761 0.158 0.062 54 7.7 BA44_exvivo
- 3591 2753 9930 2.743 0.773 0.168 0.068 74 10.9 BA45_exvivo
- 1823 1329 3812 2.279 0.764 0.152 0.047 29 3.9 V1_exvivo
- 4580 3847 11863 2.487 0.879 0.184 0.062 86 14.1 V2_exvivo
- 1786 1281 3576 2.414 0.739 0.151 0.052 28 4.6 MT_exvivo
- 704 458 1343 2.614 0.788 0.185 0.086 22 2.5 perirhinal_exvivo
- 380 276 945 3.085 0.612 0.176 0.070 7 1.2 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 0050815 rh white
- computing statistics for each annotation in ./rh.BA_exvivo.thresh.annot.
- reading volume /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/mri/wm.mgz...
- reading input surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.white...
- reading input pial surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.pial...
- reading input white surface /pasteur/projets/policy01/cinq/rto/data/abide/fs-6.0.0/0050815/surf/rh.white...
- INFO: using TH3 volume calc
- INFO: assuming MGZ format for volumes.
- Using TH3 vertex volume calc
- Total face volume 227482
- Total vertex volume 223909 (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) = 1600775 mm^3 (det: 1.216976 )
- lhCtxGM: 207923.393 207430.000 diff= 493.4 pctdiff= 0.237
- rhCtxGM: 219225.721 218739.000 diff= 486.7 pctdiff= 0.222
- lhCtxWM: 166547.161 166643.000 diff= -95.8 pctdiff=-0.058
- rhCtxWM: 165772.612 167627.000 diff=-1854.4 pctdiff=-1.119
- SubCortGMVol 60596.000
- SupraTentVol 831910.888 (831001.000) diff=909.888 pctdiff=0.109
- SupraTentVolNotVent 821976.888 (821067.000) diff=909.888 pctdiff=0.111
- BrainSegVol 979951.000 (977322.000) diff=2629.000 pctdiff=0.268
- BrainSegVolNotVent 966614.000 (965484.888) diff=1129.112 pctdiff=0.117
- BrainSegVolNotVent 966614.000
- CerebellumVol 145388.000
- VentChorVol 9934.000
- 3rd4th5thCSF 3403.000
- CSFVol 774.000, OptChiasmVol 159.000
- MaskVol 1607483.000
- 366 287 552 1.699 0.463 0.186 0.114 10 2.5 BA1_exvivo
- 1148 863 1622 1.890 0.504 0.143 0.039 13 1.9 BA2_exvivo
- 723 483 880 2.280 0.775 0.154 0.067 10 2.0 BA3a_exvivo
- 882 628 1185 1.932 0.540 0.134 0.051 13 1.8 BA3b_exvivo
- 808 546 1687 2.673 0.854 0.162 0.067 13 2.0 BA4a_exvivo
- 783 568 1312 2.461 0.635 0.150 0.054 9 1.9 BA4p_exvivo
- 4977 3374 10331 2.518 0.838 0.152 0.067 83 14.1 BA6_exvivo
- 625 464 1665 2.520 0.770 0.160 0.072 11 1.9 BA44_exvivo
- 943 738 3097 2.954 0.827 0.177 0.074 23 2.9 BA45_exvivo
- 1715 1238 3571 2.272 0.773 0.148 0.043 27 3.3 V1_exvivo
- 1952 1811 5808 2.654 0.920 0.192 0.066 37 6.4 V2_exvivo
- 390 298 965 2.276 0.741 0.198 0.069 10 1.4 MT_exvivo
- 436 292 971 2.627 0.727 0.153 0.062 7 1.2 perirhinal_exvivo
- 278 199 715 2.945 0.786 0.198 0.088 8 1.1 entorhinal_exvivo
- Started at Sat Oct 7 16:31:06 CEST 2017
- Ended at Sun Oct 8 11:35:36 CEST 2017
- #@#%# recon-all-run-time-hours 19.075
- recon-all -s 0050815 finished without error at Sun Oct 8 11:35:36 CEST 2017
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